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Evidence & Conclusion Ontology (ECO)

Metadata

URI
http://purl.obolibrary.org/obo/eco.owl
Version URI
http://purl.obolibrary.org/obo/eco/releases/2021-09-14/eco.owl
License
https://creativecommons.org/publicdomain/zero/1.0/
Ontology RDF
RDF (turtle)

Description

ECO (https://github.com/evidenceontology/evidenceontology) is released into the public domain under CC0 1.0 Universal (CC0 1.0). Anyone is free to copy, modify, or distribute the work, even for commercial purposes, without asking permission. Please see the Public Domain Dedication (https://creativecommons.org/publicdomain/zero/1.0/) for an easy-to-read description of CC0 1.0 or the full legal code (https://creativecommons.org/publicdomain/zero/1.0/legalcode) for more detailed information. To get a sense of why ECO is CC0 as opposed to licensed under CC-BY, please read this thoughtful discussion (https://github.com/OBOFoundry/OBOFoundry.github.io/issues/285) on the OBO Foundry GitHub site.

Table of Contents

  1. Classes
  2. Object Properties
  3. Functional Properties
  4. Datatype Properties
  5. Annotation Properties
  6. Namespaces
  7. Legend

Overview

Pictures say 1,000 words
Figure 1: Ontology overview

Classes

entityc # Classes

URI http://purl.obolibrary.org/obo/BFO_0000001
Sub-classes obo:BFO_0000002c
obo:BFO_0000003c

continuantc # Classes

URI http://purl.obolibrary.org/obo/BFO_0000002
Super-classes obo:BFO_0000001c
Sub-classes obo:BFO_0000020c
obo:BFO_0000004c
obo:BFO_0000031c
In domain of obo:RO_0000056op
In range of obo:RO_0000057op

occurrentc # Classes

URI http://purl.obolibrary.org/obo/BFO_0000003
Super-classes obo:BFO_0000001c
Sub-classes obo:BFO_0000015c
In domain of obo:BFO_0000062op
obo:BFO_0000063op
obo:RO_0000057op
In range of obo:RO_0000056op
obo:RO_0002222op
obo:BFO_0000062op
obo:BFO_0000063op

independent continuantc # Classes

URI http://purl.obolibrary.org/obo/BFO_0000004
Super-classes obo:BFO_0000002c
Sub-classes obo:BFO_0000040c
obo:BFO_0000141c
In domain of obo:RO_0001000op
obo:RO_0000087op
obo:RO_0000085op
In range of obo:RO_0001000op

processc # Classes

URI http://purl.obolibrary.org/obo/BFO_0000015
Super-classes obo:BFO_0000003c
Sub-classes obo:GO_0003674c
obo:GO_0008150c
obo:OBI_0000011c
In domain of obo:BFO_0000055op
In range of obo:BFO_0000054op
obo:IAO_0000413op

dispositionc # Classes

URI http://purl.obolibrary.org/obo/BFO_0000016
Super-classes obo:BFO_0000017c
Sub-classes obo:BFO_0000034c
obo:OBI_1110093c
obo:OBI_1110045c

realizable entityc # Classes

URI http://purl.obolibrary.org/obo/BFO_0000017
Super-classes obo:BFO_0000020c
Sub-classes obo:BFO_0000023c
obo:BFO_0000016c
In domain of obo:BFO_0000054op
In range of obo:BFO_0000055op

qualityc # Classes

URI http://purl.obolibrary.org/obo/BFO_0000019
Super-classes obo:BFO_0000020c
Sub-classes obo:OBI_0000654c
obo:IAO_0000015c
obo:PATO_0001241c
obo:PATO_0000125c
In range of obo:IAO_0000221op
obo:RO_0000086op

specifically dependent continuantc # Classes

URI http://purl.obolibrary.org/obo/BFO_0000020
Super-classes obo:BFO_0000002c
Sub-classes obo:BFO_0000019c
obo:BFO_0000017c
In domain of obo:RO_0000059op
In range of obo:RO_0000053op
obo:RO_0000058op

rolec # Classes

URI http://purl.obolibrary.org/obo/BFO_0000023
Super-classes obo:BFO_0000017c
Sub-classes obo:OBI_0302732c
obo:OBI_0002444c
obo:OBI_0000025c
obo:OBI_0000416c
obo:REO_0000171c
obo:OBI_1110120c
obo:OBI_0302733c
obo:OBI_0000097c
obo:OBI_0000067c
obo:OBI_0000319c
obo:OBI_0000444c
obo:OBI_0000086c
obo:OBI_0000112c
obo:OBI_0000857c
In range of obo:RO_0000087op

sitec # Classes

URI http://purl.obolibrary.org/obo/BFO_0000029
Super-classes obo:BFO_0000141c

generically dependent continuantc # Classes

URI http://purl.obolibrary.org/obo/BFO_0000031
Super-classes obo:BFO_0000002c
Sub-classes obo:SO_0000001c
obo:IAO_0000030c
In domain of obo:RO_0000058op
In range of obo:RO_0000059op

functionc # Classes

URI http://purl.obolibrary.org/obo/BFO_0000034
Super-classes obo:BFO_0000016c
Sub-classes obo:OBI_0000391c
obo:OBI_0000370c
obo:OBI_0000369c
obo:OBI_0000374c
obo:OBI_0000372c
obo:OBI_0000376c
obo:OBI_0000453c
obo:OBI_0000385c
obo:OBI_0000401c
obo:OBI_0000379c
obo:OBI_0000387c
obo:OBI_0000377c
obo:OBI_0000371c
obo:OBI_0000399c
In domain of obo:RO_0000079op
In range of obo:RO_0000085op

material entityc # Classes

URI http://purl.obolibrary.org/obo/BFO_0000040
Super-classes obo:BFO_0000004c
Sub-classes obo:OBI_0002076c
obo:OBI_0000245c
obo:OBI_0302729c
obo:CL_0000000c
obo:OBI_0100051c
obo:OBI_0000997c
obo:GO_0005575c
obo:CHEBI_33250c
obo:OBI_0100026c
obo:UBERON_0000465c
obo:OBI_1110109c
obo:OBI_1110001c
obo:OBI_1110108c
obo:OBI_0000427c
obo:CHEBI_23367c
obo:OBI_1110034c
obo:IAO_0000178c
obo:OBI_0000576c
obo:UBERON_0000477c
obo:OBI_0000047c
obo:IDO_0000586c
In domain of obo:OBI_0000304op
obo:OBI_1110119op
obo:OBI_0000647op
In range of obo:OBI_1110119op

immaterial entityc # Classes

URI http://purl.obolibrary.org/obo/BFO_0000141
Super-classes obo:BFO_0000004c
Sub-classes obo:BFO_0000029c

ATPc # Classes

URI http://purl.obolibrary.org/obo/CHEBI_15422
Super-classes obo:CHEBI_23367c

peptidec # Classes

URI http://purl.obolibrary.org/obo/CHEBI_16670
Super-classes obo:CHEBI_33839c
Sub-classes obo:PR_000000001c

deoxyribonucleic acidc # Classes

URI http://purl.obolibrary.org/obo/CHEBI_16991
Super-classes obo:CHEBI_33696c
Sub-classes obo:OBI_0000809c
obo:CHEBI_4705c

molecular entityc # Classes

URI http://purl.obolibrary.org/obo/CHEBI_23367
Super-classes obo:BFO_0000040c
Sub-classes obo:CHEBI_23528c
obo:CHEBI_53526c
obo:CHEBI_28619c
obo:CHEBI_472552c
obo:CHEBI_33839c
obo:CHEBI_15422c
obo:CHEBI_50076c
obo:REO_0000280c

cytochalasinc # Classes

URI http://purl.obolibrary.org/obo/CHEBI_23528
Super-classes obo:CHEBI_23367c

acrylamidec # Classes

URI http://purl.obolibrary.org/obo/CHEBI_28619
Super-classes obo:CHEBI_23367c

atomc # Classes

URI http://purl.obolibrary.org/obo/CHEBI_33250
Super-classes obo:BFO_0000040c

nucleic acidc # Classes

URI http://purl.obolibrary.org/obo/CHEBI_33696
Super-classes obo:CHEBI_33839c
Sub-classes obo:CHEBI_33697c
obo:CHEBI_16991c

ribonucleic acidc # Classes

URI http://purl.obolibrary.org/obo/CHEBI_33697
Super-classes obo:CHEBI_33696c

macromoleculec # Classes

URI http://purl.obolibrary.org/obo/CHEBI_33839
Super-classes obo:CHEBI_23367c
Sub-classes obo:CHEBI_33696c
obo:CHEBI_16670c

double-stranded DNAc # Classes

URI http://purl.obolibrary.org/obo/CHEBI_4705
Super-classes obo:CHEBI_16991c
Sub-classes obo:OBI_0000406c

5-bromo-2'-deoxyuridinec # Classes

URI http://purl.obolibrary.org/obo/CHEBI_472552
Super-classes obo:CHEBI_23367c

chromium-51c # Classes

URI http://purl.obolibrary.org/obo/CHEBI_50076
Super-classes obo:CHEBI_23367c

tritiated thymidinec # Classes

URI http://purl.obolibrary.org/obo/CHEBI_53526
Super-classes obo:CHEBI_23367c

fluorescence microscopyc # Classes

URI http://purl.obolibrary.org/obo/CHMO_0000087
Super-classes obo:OBI_0002119c

light microscopyc # Classes

URI http://purl.obolibrary.org/obo/CHMO_0000102
Super-classes obo:OBI_0002119c

cellc # Classes

URI http://purl.obolibrary.org/obo/CL_0000000
Super-classes obo:BFO_0000040c
Sub-classes obo:CL_0000842c
obo:CL_0000578c

cultured cellc # Classes

URI http://purl.obolibrary.org/obo/CL_0000010
Super-classes (n61f022a426614b8f861c93ae78ea8986b6c or n61f022a426614b8f861c93ae78ea8986b7c)
obo:CL_0000578c

B cellc # Classes

URI http://purl.obolibrary.org/obo/CL_0000236
Super-classes obo:CL_0000542c

lymphocytec # Classes

URI http://purl.obolibrary.org/obo/CL_0000542
Super-classes obo:CL_0000842c
Sub-classes obo:CL_0000236c

experimentally modified cell in vitroc # Classes

URI http://purl.obolibrary.org/obo/CL_0000578
Super-classes obo:OBI_0000047c
obo:CL_0000000c
Restrictions obo:OBI_0000312op some obo:OBI_0000094c
Sub-classes obo:CL_0000010c

mononuclear cellc # Classes

URI http://purl.obolibrary.org/obo/CL_0000842
Super-classes obo:CL_0000000c
Sub-classes obo:CL_0000542c

evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000000
Sub-classes obo:ECO_0000352c
obo:ECO_0007672c
obo:ECO_0006151c
obo:ECO_0000212c
obo:ECO_0006055c
obo:ECO_0000501c
obo:ECO_0000088c
obo:ECO_0000006c
obo:ECO_0000361c
obo:ECO_0000041c
In domain of obo:ECO_9000000op

inference from background scientific knowledgec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000001
Super-classes obo:ECO_0000205c
Sub-classes obo:ECO_0007323c
obo:ECO_0000306c

direct assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000002
Super-classes obo:ECO_0000006c
Restrictions obo:IAO_0000136op some obo:GO_0008150c
Sub-classes obo:ECO_0001111c
obo:ECO_0005019c
obo:ECO_0000003c
obo:ECO_0007004c
obo:ECO_0000164c
obo:ECO_0000337c
obo:ECO_0001557c
obo:ECO_0005502c
obo:ECO_0000324c
obo:ECO_0001559c
obo:ECO_0000268c
obo:ECO_0000168c
obo:ECO_0000335c
obo:ECO_0006263c
obo:ECO_0001549c
obo:ECO_0001115c
obo:ECO_0006192c
obo:ECO_0001120c
obo:ECO_0001123c
obo:ECO_0000134c
obo:ECO_0001556c
obo:ECO_0000178c
obo:ECO_0005803c
obo:ECO_0000100c
obo:ECO_0001562c
obo:ECO_0001109c
obo:ECO_0001565c
obo:ECO_0000020c
obo:ECO_0001548c
obo:ECO_0006255c
obo:ECO_0000314c
obo:ECO_0000183c
obo:ECO_0001552c
obo:ECO_0005800c
obo:ECO_0000021c
obo:ECO_0001546c
obo:ECO_0000334c
obo:ECO_0001547c
obo:ECO_0001134c
obo:ECO_0001561c
obo:ECO_0001027c
obo:ECO_0001553c
obo:ECO_0001554c
obo:ECO_0000181c
obo:ECO_0001555c
obo:ECO_0001533c
obo:ECO_0001550c
obo:ECO_0001016c
obo:ECO_0007307c
obo:ECO_0005593c
obo:ECO_0006272c
obo:ECO_0000005c
obo:ECO_0001551c
obo:ECO_0001574c

reconstitution assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000003
Super-classes obo:ECO_0000002c
Sub-classes obo:ECO_0007722c
obo:ECO_0007803c
obo:ECO_0000150c

cell fractionation evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000004
Description

If using this term for Gene Ontology annotation, it would be used most typically for annotations to the cellular component ontology.

Super-classes obo:ECO_0000100c
Sub-classes obo:ECO_0007552c
obo:ECO_0006042c

enzymatic activity assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000005
Super-classes obo:ECO_0000002c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b16c and obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b22c)
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b16c and obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b22c)
obo:IAO_0000136op some obo:GO_0003824c
Sub-classes obo:ECO_0007468c
obo:ECO_0000184c
obo:ECO_0001129c
obo:ECO_0005801c
obo:ECO_0001558c

experimental evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000006
Super-classes obo:ECO_0000000c
obo:IAO_0000030c
Restrictions obo:IAO_0000136op some obo:BFO_0000015c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b28c)
Sub-classes obo:ECO_0000179c
obo:ECO_0000008c
obo:ECO_0000269c
obo:ECO_0000059c
obo:ECO_0001094c
obo:ECO_0000002c
obo:ECO_0005606c
obo:ECO_0001592c
obo:ECO_0000325c
obo:ECO_0000340c
obo:ECO_0005516c
obo:ECO_0000360c
obo:ECO_0000232c
obo:ECO_0005504c
obo:ECO_0000180c
obo:ECO_0007297c
obo:ECO_0001830c
obo:ECO_0006252c
obo:ECO_0005031c
obo:ECO_0000220c

immunofluorescence evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000007
Super-classes obo:ECO_0005517c
Sub-classes obo:ECO_0005804c
obo:ECO_0007497c
obo:ECO_0005600c
obo:ECO_0005599c

expression pattern evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000008
Description

Use this evidence type when the annotation is inferred from the timing or location of expression of a gene. It may be difficult to determine whether the expression pattern truly indicates that a gene plays a role in a given process.

Super-classes obo:ECO_0000006c
Sub-classes obo:ECO_0000009c
obo:ECO_0000049c
obo:ECO_0007006c
obo:ECO_0007298c
obo:ECO_0000270c
obo:ECO_0001836c
obo:ECO_0007087c
obo:ECO_0000010c

transcript expression evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000009
Super-classes obo:ECO_0000008c
Restrictions obo:IAO_0000136op some obo:GO_0010467c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b36c)
obo:OBI_0000312op some obo:OBI_0000424c
Sub-classes obo:ECO_0000047c
obo:ECO_0000309c
obo:ECO_0000310c
obo:ECO_0001819c
obo:ECO_0000058c
obo:ECO_0007303c
obo:ECO_0000116c
obo:ECO_0000118c
obo:ECO_0000358c
obo:ECO_0000106c
obo:ECO_0000359c
obo:ECO_0000291c
obo:ECO_0000295c

protein expression evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000010
Super-classes obo:ECO_0000008c
Sub-classes obo:ECO_0007309c
obo:ECO_0000284c
obo:ECO_0000112c
obo:ECO_0000154c
obo:ECO_0000045c
obo:ECO_0000114c

genetic interaction evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000011
Super-classes obo:ECO_0000059c
Sub-classes obo:ECO_0007326c
obo:ECO_0007002c
obo:ECO_0000012c
obo:ECO_0000056c
obo:ECO_0000316c
obo:ECO_0000052c

functional complementation evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000012
Super-classes obo:ECO_0000011c
Sub-classes obo:ECO_0000013c
obo:ECO_0000038c
obo:ECO_0006091c
obo:ECO_0000064c
obo:ECO_0007578c

transgenic rescue experiment evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000013
Super-classes obo:ECO_0000012c
Sub-classes obo:ECO_0007579c
obo:ECO_0006092c

mutant phenotype evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000015
Description

The allele that encodes the phenotype most common in a particular natural population is referred to as the wild type allele, while any other form of that allele is known as the mutant form.

Super-classes obo:ECO_0000059c
Sub-classes obo:ECO_0000174c
obo:ECO_0001113c
obo:ECO_0001038c
obo:ECO_0001042c
obo:ECO_0000016c
obo:ECO_0005027c
obo:ECO_0000019c
obo:ECO_0005512c
obo:ECO_0005529c
obo:ECO_0006098c
obo:ECO_0007325c
obo:ECO_0005509c
obo:ECO_0005515c
obo:ECO_0005514c
obo:ECO_0006100c
obo:ECO_0005528c
obo:ECO_0000054c
obo:ECO_0001024c
obo:ECO_0000292c
obo:ECO_0007000c
obo:ECO_0000018c
obo:ECO_0000176c
obo:ECO_0000042c
obo:ECO_0000315c
obo:ECO_0005513c

loss-of-function mutant phenotype evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000016
Super-classes obo:ECO_0000015c
Sub-classes obo:ECO_0007193c
obo:ECO_0007089c

ectopic expression evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000017
Super-classes obo:ECO_0000059c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b42c)
Sub-classes obo:ECO_0006001c
obo:ECO_0007473c
obo:ECO_0001273c

anti-sense experiment evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000018
Super-classes obo:ECO_0000015c
Restrictions obo:OBI_0000312op some obo:OBI_0001672c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b49c)
obo:IAO_0000136op some obo:GO_0009300c
Sub-classes obo:ECO_0006050c
obo:ECO_0007556c
obo:ECO_0001583c

RNAi evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000019
Super-classes obo:ECO_0000015c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b57c)
obo:OBI_0000312op some obo:OBI_0001672c
obo:IAO_0000136op some obo:GO_0070549c
Sub-classes obo:ECO_0007558c
obo:ECO_0006052c

protein inhibition evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000020
Super-classes obo:ECO_0000002c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b64c)
obo:IAO_0000136op some obo:GO_0048519c
Sub-classes obo:ECO_0000184c
obo:ECO_0007707c
obo:ECO_0007785c
obo:ECO_0000341c

physical interaction evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000021
Description

Molecules interacted with might include protein, nucleic acid, ion, or complex.

Super-classes obo:ECO_0000002c
Restrictions obo:OBI_0000312op some obo:OBI_0001146c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b72c)
obo:IAO_0000136op some obo:GO_0005488c
Sub-classes obo:ECO_0006274c
obo:ECO_0000076c
obo:ECO_0001092c
obo:ECO_0000096c
obo:ECO_0007332c
obo:ECO_0000293c
obo:ECO_0001093c
obo:ECO_0001028c
obo:ECO_0006273c
obo:ECO_0006256c
obo:ECO_0000023c
obo:ECO_0001046c
obo:ECO_0006261c
obo:ECO_0000353c
obo:ECO_0001127c
obo:ECO_0006248c
obo:ECO_0000022c

co-purification evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000022
Super-classes obo:ECO_0000021c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b78c)
Sub-classes obo:ECO_0006074c
obo:ECO_0007567c

affinity evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000023
Super-classes obo:ECO_0000021c
Sub-classes obo:ECO_0000136c
obo:ECO_0000024c
obo:ECO_0001824c
obo:ECO_0001825c
obo:ECO_0001110c
obo:ECO_0000040c
obo:ECO_0006264c
obo:ECO_0006075c
obo:ECO_0001045c
obo:ECO_0007384c
obo:ECO_0000079c

protein binding evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000024
Super-classes obo:ECO_0000023c
Sub-classes obo:ECO_0006270c
obo:ECO_0007008c
obo:ECO_0001108c
obo:ECO_0007373c
obo:ECO_0000025c
obo:ECO_0001601c
obo:ECO_0000142c
obo:ECO_0006076c
obo:ECO_0001112c
obo:ECO_0001033c
obo:ECO_0000085c

bait-prey hybrid interaction evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000025
Description

Typically enzymes which confer resistance to antibiotics, such as Dihydrofolate reductase or Beta-lactamase, or proteins that give colorimetric or fluorescent signals are used. The Bait protein is generally the protein under study and the methods are readily adaptable to highthroughput mode.

Super-classes obo:ECO_0000024c
Sub-classes obo:ECO_0001817c
obo:ECO_0007432c
obo:ECO_0001095c
obo:ECO_0006077c
obo:ECO_0000066c
obo:ECO_0007073c
obo:ECO_0000294c
obo:ECO_0000068c

nucleic acid hybridization evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000026
Description

This term has been made obsolete with the clean up of experimental genomic evidence branch.

structural similarity evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000027
Description

For GO annotation, in the case of a single gene, an accession for the related gene's sequence is entered in the evidence_with field.

Super-classes obo:ECO_0000057c
Sub-classes obo:ECO_0007090c
obo:ECO_0007194c

motif similarity evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000028
Super-classes obo:ECO_0000202c
Sub-classes obo:ECO_0005536c
obo:ECO_0005532c
obo:ECO_0000083c
obo:ECO_0000081c
obo:ECO_0005505c
obo:ECO_0000257c
obo:ECO_0005534c
obo:ECO_0000258c

match to InterPro member signature evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000029
Super-classes obo:ECO_0000202c
Sub-classes obo:ECO_0000260c
obo:ECO_0000259c

BLAST evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000030
Super-classes obo:ECO_0000206c
obo:ECO_0005560c
Sub-classes obo:ECO_0000032c
obo:ECO_0000031c

protein BLAST evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000031
Super-classes obo:ECO_0000208c
obo:ECO_0000030c

nucleotide BLAST evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000032
Super-classes obo:ECO_0000207c
obo:ECO_0000030c

author statement supported by traceable referencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000033
Super-classes obo:ECO_0000204c
Sub-classes obo:ECO_0007321c
obo:ECO_0006016c
obo:ECO_0000304c

author statement without traceable supportc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000034
Super-classes obo:ECO_0000204c
Sub-classes obo:ECO_0000303c
obo:ECO_0007320c

no evidence data foundc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000035
Description

An assertion of "no evidence data found" carries the assumption that a more-or-less exhaustive search has been conducted.

Super-classes obo:ECO_0000205c
Sub-classes obo:ECO_0007324c
obo:ECO_0000307c

not_recordedc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000037
Description

The evidence not_recorded appears in some legacy annotations; it should not be used for new annotations.

transient rescue experiment evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000038
Super-classes obo:ECO_0000012c
Sub-classes obo:ECO_0007580c
obo:ECO_0006093c

protein assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000039

immunological assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000040
Super-classes obo:ECO_0000023c
Restrictions obo:IAO_0000136op some obo:GO_0003823c
obo:OBI_0000312op some obo:OBI_0000443c
Sub-classes obo:ECO_0007348c
obo:ECO_0007033c
obo:ECO_0001013c
obo:ECO_0006078c
obo:ECO_0001015c
obo:ECO_0001054c
obo:ECO_0007019c
obo:ECO_0001014c
obo:ECO_0007031c

similarity evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000041
Super-classes obo:ECO_0000000c
Sub-classes obo:ECO_0000080c
obo:ECO_0000252c
obo:ECO_0000044c
obo:ECO_0000051c
obo:ECO_0000251c
obo:ECO_0000057c
obo:ECO_0000177c

gain-of-function mutant phenotypic evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000042
Super-classes obo:ECO_0000015c
Sub-classes obo:ECO_0007196c
obo:ECO_0007092c

sequence similarity evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000044
Description

A sequence similarity analysis may involve a gene or a gene product, and it could be based on similarity to a single other gene or to a group of other genes.

Super-classes obo:ECO_0000041c
obo:ECO_0007672c
Sub-classes obo:ECO_0000249c
obo:ECO_0000202c
obo:ECO_0000250c
obo:ECO_0000200c
obo:ECO_0000201c

spatial pattern of protein expression evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000045
Super-classes obo:ECO_0000010c
Sub-classes obo:ECO_0000283c
obo:ECO_0007312c

spatial pattern of transcript expression evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000047
Super-classes obo:ECO_0000009c
Sub-classes obo:ECO_0000289c
obo:ECO_0007317c

reporter gene assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000049
Super-classes obo:ECO_0000008c
Restrictions obo:IAO_0000136op some obo:GO_0010467c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b99c)
obo:OBI_0000312op some obo:OBI_0002082c
Sub-classes obo:ECO_0007765c
obo:ECO_0001805c
obo:ECO_0001804c
obo:ECO_0007682c
obo:ECO_0001802c
obo:ECO_0001829c
obo:ECO_0001801c
obo:ECO_0006001c
obo:ECO_0005537c
obo:ECO_0006238c
obo:ECO_0001803c
obo:ECO_0001816c

voucher specimen phenotypic analysis evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000050
Super-classes obo:ECO_0000059c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b109c)
Sub-classes obo:ECO_0007197c
obo:ECO_0007093c

genetic similarity evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000051
Description

A genetic similarity analysis might consider genetic markers, polymorphisms, alleles, or other characteristics sometimes considered as part of the field of traditional genetics. Although an attempt has been made to treat as distinct the concepts of "genetic", "genotypic", "genomic", and "sequence", there is considerable overlap in usage throughout the field of biology.

Super-classes obo:ECO_0000041c
Sub-classes obo:ECO_0000254c
obo:ECO_0000253c

suppressor/enhancer interaction phenotypic evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000052
Super-classes obo:ECO_0000011c
Sub-classes obo:ECO_0006094c
obo:ECO_0007581c

automatically integrated combinatorial evidence used in automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000053
Description

Combinatorial analyses could include experimental or computational results. Examples include: (i) large-scale experiment such as a genome-wide two-hybrid or genome-wide synthetic interactions; (ii) integration of large-scale data sets of various types; and (iii) text-based-computation, e.g. text-mining. For simple sequence comparisons, one should use the sequence similarity analysis evidence type. For microarray results alone, expression pattern analysis is appropriate; whereas, large-scale computational analysis should be used when microarray results are combined with the results of other types of large-scale experiments.

Super-classes obo:ECO_0007673c
obo:ECO_0000213c
Sub-classes obo:ECO_0007660c
obo:ECO_0007653c
obo:ECO_0007667c

double mutant phenotypic evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000054
Super-classes obo:ECO_0000015c
Sub-classes obo:ECO_0006095c
obo:ECO_0007582c

array experiment evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000055
Description

This general 'array experiment' term should not be used - replace with the specific type of array (e.g. ECO:0000097, ECO:0000062, ECO:0000104, etc.)

epistatic interaction phenotypic evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000056
Description

Epistasis' can be used in different contexts in different areas of genetics. It is sometimes used to mean 'genetic interaction', whereas other times it may be specific to mutations that block the effects of other mutations.

Super-classes obo:ECO_0000011c
Sub-classes obo:ECO_0007583c
obo:ECO_0006096c

phenotypic similarity evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000057
Description

Phenotype is defined as the outcome of the expression of a genotype in a given environment. A comparison might involve whole organisms or sub-parts of organisms.

Super-classes obo:ECO_0000041c
Sub-classes obo:ECO_0000067c
obo:ECO_0000075c
obo:ECO_0000027c
obo:ECO_0000060c
obo:ECO_0007824c
obo:ECO_0000063c
obo:ECO_0007748c
obo:ECO_0000071c

expression microarray evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000058
Super-classes obo:ECO_0000009c
Restrictions obo:OBI_0000312op some obo:OBI_0001463c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b120c)
Sub-classes obo:ECO_0000275c
obo:ECO_0007301c
obo:ECO_0000062c
obo:ECO_0000104c
obo:ECO_0000097c

experimental phenotypic evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000059
Description

Observable characteristic traits can be morphology, development, behavior, biochemical or physiological properties, etc.

Super-classes obo:ECO_0000006c
Restrictions obo:OBI_0000312op some obo:OBI_0000966c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b128c)
obo:IAO_0000136op some obo:GO_0010467c
Sub-classes obo:ECO_0000017c
obo:ECO_0006053c
obo:ECO_0000050c
obo:ECO_0001032c
obo:ECO_0001103c
obo:ECO_0001128c
obo:ECO_0005675c
obo:ECO_0000015c
obo:ECO_0005673c
obo:ECO_0000172c
obo:ECO_0000241c
obo:ECO_0007634c
obo:ECO_0001012c
obo:ECO_0007077c
obo:ECO_0005511c
obo:ECO_0000298c
obo:ECO_0007635c
obo:ECO_0000011c
obo:ECO_0007075c
obo:ECO_0006032c
obo:ECO_0000061c
obo:ECO_0000240c

positional similarity evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000060
Super-classes obo:ECO_0000057c
Sub-classes obo:ECO_0007094c
obo:ECO_0007198c

quantitative trait analysis evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000061
Super-classes obo:ECO_0000059c
Sub-classes obo:ECO_0007095c
obo:ECO_0007199c

cRNA to DNA expression microarray evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000062
Super-classes obo:ECO_0000058c
Restrictions obo:OBI_0000312op some (obo:OBI_0001463c and n61f022a426614b8f861c93ae78ea8986b134c)
Sub-classes obo:ECO_0000276c
obo:ECO_0007300c
obo:ECO_0000101c

compositional similarity evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000063
Super-classes obo:ECO_0000057c
Sub-classes obo:ECO_0007200c
obo:ECO_0007096c

functional complementation in heterologous system evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000064
Super-classes obo:ECO_0000012c
Sub-classes obo:ECO_0006097c
obo:ECO_0007584c

yeast one-hybrid evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000066
Description

The assay involves screening a library of candidate proteins for the ability bind to a target, cis-regulatory element or any other short, DNA binding sequence placed 5' to a yeast reporter gene (TAIR:TED).

Super-classes obo:ECO_0000025c
Restrictions obo:IAO_0000136op some obo:GO_0043565c
obo:OBI_0000312op some obo:OBI_0001681c
Sub-classes obo:ECO_0007568c
obo:ECO_0006079c

developmental similarity evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000067
Super-classes obo:ECO_0000057c
Sub-classes obo:ECO_0007097c
obo:ECO_0007201c

yeast 2-hybrid evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000068
Super-classes obo:ECO_0000025c
Restrictions obo:OBI_0000312op some obo:OBI_0001679c
obo:IAO_0000136op some obo:GO_0019904c
Sub-classes obo:ECO_0007531c
obo:ECO_0005805c

differential methylation hybridization evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000069
Description

Color is indicative of methylation status - be it hypo- (pseudo-green), hyper- (pseudo-red), or equal methylation (pseudo-yellow).

Super-classes obo:ECO_0001065c
Restrictions obo:IAO_0000136op some obo:GO_0044030c
obo:OBI_0000312op some obo:OBI_0001861c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b145c)
Sub-classes obo:ECO_0000274c
obo:ECO_0007302c

co-immunoprecipitation evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000070
Description

If performing GO annotation, the interacting protein is referenced in the evidence_with column.

Super-classes obo:ECO_0000085c
Sub-classes obo:ECO_0006030c
obo:ECO_0007546c

morphological similarity evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000071
Super-classes obo:ECO_0000057c
Sub-classes obo:ECO_0007202c
obo:ECO_0007098c

Sos-recruitment assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000072

experimental genomic evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000073
Description

This term has been made obsolete with the clean up of experimental genomic evidence branch.

split-ubiquitin functional complementation evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000074
Description

The bait protein is fused to the C-terminal ubiquitin (Cub) domain followed by a reporter protein, and the prey protein is fused to a mutated N terminal ubiquitin (NubG) domain. If bait and prey interact, their interaction brings the NubG and Cub domains close enough to reconstitute.TAIR:TED

Super-classes obo:ECO_0006256c
Restrictions obo:IAO_0000136op some obo:GO_0019904c
obo:OBI_0000312op some obo:OBI_0001668c
Sub-classes obo:ECO_0006080c
obo:ECO_0007569c

gene expression similarity evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000075
Super-classes obo:ECO_0000057c
Sub-classes obo:ECO_0007203c
obo:ECO_0007099c

far-Western blotting evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000076
Description

The interacting protein is referenced in the evidence_with column.

Super-classes obo:ECO_0000021c
Restrictions obo:OBI_0000312op some obo:OBI_0001669c
Sub-classes obo:ECO_0007570c
obo:ECO_0006081c

methylation-specific polymerase chain reaction evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000077
Description

The product is the amplification of existing sequences - i.e. more DNA that can be further processed e.g. sequenced, DNA fingerprinting.

Super-classes obo:ECO_0001065c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b156c)
obo:OBI_0000312op some obo:OBI_0001684c
obo:IAO_0000136op some obo:GO_0006306c
Sub-classes obo:ECO_0007204c
obo:ECO_0007100c

southern hybridization evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000078
Description

The DNA fragments are prepared through gel electrophoresis then transferred to a filter membrane.

Super-classes obo:ECO_0005519c
Restrictions obo:OBI_0000312op some obo:OBI_0000892c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b167c)
Sub-classes obo:ECO_0007101c
obo:ECO_0007205c

affinity chromatography evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000079
Description

"Used when an annotation is made based on affinity chromatography, which is a selective separation technique by which a compound (e.g., an antibody) is immobilized on a polymeric matrix and used to bind selectively other compounds. Following removal of the unattached components, the bound compound is displaced by changing the concentration of protons, salts, or cofactors in the eluent" (from original definition by TAIR:TED). Types of highly specific interaction might include those of antigen and antibody, enzyme and substrate, or receptor and ligand.

Super-classes obo:ECO_0000023c
Restrictions obo:OBI_0000312op some obo:OBI_0001630c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b174c)
Sub-classes obo:ECO_0006082c
obo:ECO_0007571c

phylogenetic evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000080
Super-classes obo:ECO_0000041c
Sub-classes obo:ECO_0007826c
obo:ECO_0007750c
obo:ECO_0000216c
obo:ECO_0000215c
obo:ECO_0000355c
obo:ECO_0000308c
obo:ECO_0000214c

targeting sequence prediction evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000081
Super-classes obo:ECO_0000028c
Sub-classes obo:ECO_0000262c
obo:ECO_0000261c

polymerase chain reaction evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000082
Description

This term has been made obsolete because PCR is not evidence. The children have been appropriately placed under other parents.

transmembrane domain prediction evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000083
Super-classes obo:ECO_0000028c
Sub-classes obo:ECO_0000263c
obo:ECO_0000264c

gene neighbors evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000084
Description

Genomic cluster analyses include synteny and operon structure.

Super-classes obo:ECO_0000177c
Sub-classes obo:ECO_0007333c
obo:ECO_0000354c

immunoprecipitation evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000085
Description

Transcription factors isolated in this way can be incubated with a radiolabeled probe to demonstrate binding.

Super-classes obo:ECO_0000024c
Restrictions obo:IAO_0000136op some obo:GO_0003823c
obo:OBI_0000312op some obo:OBI_0001700c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b185c)
Sub-classes obo:ECO_0005644c
obo:ECO_0007503c
obo:ECO_0000070c
obo:ECO_0000226c

amplification of intermethylated sites evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000086
Description

The bands can be individually isolated and characterized which leads to the identification of hypo- and hypermethylation events.

Super-classes obo:ECO_0001065c
Restrictions obo:OBI_0000312op some obo:OBI_0001685c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b192c)
obo:IAO_0000136op some obo:GO_0006306c
Sub-classes obo:ECO_0007102c
obo:ECO_0007206c

immunolocalization evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000087
Super-classes obo:ECO_0005593c
obo:ECO_0001098c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b203c and obo:OBI_0000185c and obo:OBI_0001632c)
obo:IAO_0000136op some obo:GO_0033036c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b203c and obo:OBI_0000185c and obo:OBI_0001632c)
Sub-classes obo:ECO_0005594c
obo:ECO_0007486c
obo:ECO_0006031c
obo:ECO_0000092c
obo:ECO_0000300c
obo:ECO_0000090c
obo:ECO_0000301c

biological system reconstruction evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000088
Description

The biological system in question might be a multi-step process or pathway or a physical complex comprising several components. The components in the experimental evidence can come from the same species or a mix of species. The experimental evidences may be only partial or weak.

Super-classes obo:ECO_0000000c
Sub-classes obo:ECO_0007746c
obo:ECO_0005551c
obo:ECO_0007827c
obo:ECO_0005548c
obo:ECO_0005549c

restriction landmark genomic scanning evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000089
Super-classes obo:ECO_0005519c
Sub-classes obo:ECO_0007470c
obo:ECO_0001270c

immunogold labelling evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000090
Super-classes obo:ECO_0000087c
Sub-classes obo:ECO_0005591c
obo:ECO_0005579c
obo:ECO_0007485c

epitope-tagged protein immunolocalization evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000092
Super-classes obo:ECO_0000087c
Sub-classes obo:ECO_0007103c
obo:ECO_0007207c

array-based sequence capture evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000093
Super-classes obo:ECO_0005519c
Restrictions obo:OBI_0000312op some (obo:OBI_0001985c and n61f022a426614b8f861c93ae78ea8986b217c)
Sub-classes obo:ECO_0000278c
obo:ECO_0007305c

biological assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000094
Description

The children of 'biological assay evidence' have been moved under 'direct assay evidence', and this term has been deprecated with no children left.

cell growth regulation assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000095
Description

Cell growth aspects can include growth rate and extent of growth. A cell growth curve acts as a natural reporter.

Super-classes obo:ECO_0001563c
Restrictions obo:OBI_0000312op some obo:OBI_0000964c
Sub-classes obo:ECO_0005639c
obo:ECO_0005638c

electrophoretic mobility shift assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000096
Description

EMSA is often used for assessing TF-binding with fluorophore labelling. Protein-nucleic acid complexes generally migrate at a slower rate than the corresponding non-bonded nucleic acid.

Super-classes obo:ECO_0000021c
Restrictions obo:OBI_0000312op some obo:OBI_0001671c
Sub-classes obo:ECO_0007474c
obo:ECO_0001807c

cDNA to DNA expression microarray evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000097
Super-classes obo:ECO_0000058c
Restrictions obo:OBI_0000312op some (obo:OBI_0001463c and n61f022a426614b8f861c93ae78ea8986b224c)
Sub-classes obo:ECO_0000273c
obo:ECO_0005630c
obo:ECO_0000105c

obsolete in situ hybridization evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000098
Description

This term has been made obsolete with the clean up of experimental genomic evidence branch.

fractionation evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000100
Super-classes obo:ECO_0000002c
Sub-classes obo:ECO_0007534c
obo:ECO_0000102c
obo:ECO_0000156c
obo:ECO_0006005c
obo:ECO_0000004c

Affymetrix GeneChip evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000101
Super-classes obo:ECO_0000062c
Sub-classes obo:ECO_0000272c
obo:ECO_0007299c

co-fractionation evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000102
Super-classes obo:ECO_0000100c
Sub-classes obo:ECO_0007104c
obo:ECO_0007208c

DNA to cDNA expression microarray evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000104
Description

REM is a 'reverse-format' microarray, where the unknown sample is immoblized to a surface and known DNA is hybridized to that.

Super-classes obo:ECO_0000058c
Restrictions obo:OBI_0000312op some (obo:OBI_0001463c and n61f022a426614b8f861c93ae78ea8986b229c)
Sub-classes obo:ECO_0007313c
obo:ECO_0000285c

Nimblegen array evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000105
Super-classes obo:ECO_0000097c
Sub-classes obo:ECO_0000277c
obo:ECO_0007304c

northern blot evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000106
Super-classes obo:ECO_0000009c
Restrictions obo:OBI_0000312op some obo:OBI_0000860c
Sub-classes obo:ECO_0005653c
obo:ECO_0007518c

reverse transcription polymerase chain reaction evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000109
Description

The starting product for PCR, and therefore amplification volume, is directly correlated to the transcription rate.

Super-classes obo:ECO_0005518c
Restrictions obo:OBI_0000312op some obo:OBI_0001361c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b236c)
Sub-classes obo:ECO_0007475c
obo:ECO_0001566c
obo:ECO_0001808c

RNA protection assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000110
Super-classes obo:ECO_0001106c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b242c)
Sub-classes obo:ECO_0007315c
obo:ECO_0000288c

qualitative western immunoblotting evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000112
Description

Western blot is used for protein detection and analysis. A mixed protein sample is separated through polyacrylamide gel electrophoresis then transferred to a membrane, such as polyvinylidene fluoride (PVDF), and labeled with protein-specific antibodies.

Super-classes obo:ECO_0005593c
obo:ECO_0000010c
obo:ECO_0000333c
Sub-classes obo:ECO_0007306c
obo:ECO_0000279c
obo:ECO_0006169c

expression library screen evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000114
Super-classes obo:ECO_0000010c
Sub-classes obo:ECO_0007310c
obo:ECO_0000281c

differential hybridization evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000116
Description

Differential hybridization identifies differentially expressed cloned genes. Two different mRNA-derived probes are used to demonstrate RNA expression under a specific condition.

Super-classes obo:ECO_0000009c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b256c and obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b251c)
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b256c and obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b251c)
Sub-classes obo:ECO_0000287c
obo:ECO_0007314c

subtractive hybridization evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000118
Description

Subtractive hybridization is used for isolation and identification of transcripts involving the removal of any sequences present in the control from the test probe to detect only transcripts present in the sample. The method is PCR-based for the comparison of two cDNA libraries.

Super-classes obo:ECO_0000009c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b266c and obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b271c)
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b266c and obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b271c)
Sub-classes obo:ECO_0007318c
obo:ECO_0000290c

over expression analysis evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000120
Super-classes obo:ECO_0005027c
Sub-classes obo:ECO_0007562c
obo:ECO_0006063c

protein localization evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000122
Super-classes obo:ECO_0001533c
Sub-classes obo:ECO_0007807c
obo:ECO_0007725c
obo:ECO_0000124c

fusion protein localization evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000124
Super-classes obo:ECO_0000122c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b283c)
obo:IAO_0000136op some obo:GO_0033036c
obo:OBI_0000312op some obo:OBI_0002167c
Sub-classes obo:ECO_0007726c
obo:ECO_0000132c
obo:ECO_0007808c
obo:ECO_0000128c
obo:ECO_0000130c
obo:ECO_0000126c

green fluorescent protein fusion protein localization evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000126
Super-classes obo:ECO_0000124c
Sub-classes obo:ECO_0007106c
obo:ECO_0007210c

yellow fluorescent protein fusion protein localization evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000128
Super-classes obo:ECO_0000124c
Sub-classes obo:ECO_0007107c
obo:ECO_0007211c

beta-glucuronidase fusion protein localization evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000130
Super-classes obo:ECO_0000124c
Sub-classes obo:ECO_0007212c
obo:ECO_0007108c

beta-galactosidase fusion protein localization evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000132
Super-classes obo:ECO_0000124c
Sub-classes obo:ECO_0007213c
obo:ECO_0007109c

transport assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000134
Super-classes obo:ECO_0000002c
Restrictions obo:OBI_0000312op some obo:OBI_0000964c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b291c)
obo:IAO_0000136op some obo:GO_0015031c
Sub-classes obo:ECO_0007709c
obo:ECO_0007035c
obo:ECO_0000162c
obo:ECO_0007789c

nucleic acid binding evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000136
Super-classes obo:ECO_0000023c
Restrictions obo:OBI_0000312op some obo:OBI_0001591c
obo:IAO_0000136op some (obo:GO_0005488c and n61f022a426614b8f861c93ae78ea8986b297c)
Sub-classes obo:ECO_0001601c
obo:ECO_0001826c
obo:ECO_0001827c
obo:ECO_0006083c
obo:ECO_0006010c
obo:ECO_0001818c
obo:ECO_0001815c
obo:ECO_0007505c
obo:ECO_0001814c
obo:ECO_0000138c
obo:ECO_0000144c
obo:ECO_0000146c
obo:ECO_0001810c
obo:ECO_0006270c

ribohomopolymer binding assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000138
Super-classes obo:ECO_0000136c
Restrictions obo:IAO_0000136op some obo:GO_0032549c
Sub-classes obo:ECO_0006084c
obo:ECO_0007572c

thin layer chromatography evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000140
Super-classes obo:ECO_0000325c
Sub-classes obo:ECO_0007110c
obo:ECO_0007214c

protein:ion binding evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000142
Super-classes obo:ECO_0000024c
Restrictions obo:OBI_0000312op some obo:OBI_0001591c
obo:IAO_0000136op some (obo:GO_0005488c and n61f022a426614b8f861c93ae78ea8986b304c)
Sub-classes obo:ECO_0007573c
obo:ECO_0006085c

Southwestern blot evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000144
Super-classes obo:ECO_0000136c
Sub-classes obo:ECO_0006086c
obo:ECO_0007574c

Northwestern blot evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000146
Super-classes obo:ECO_0000136c
Sub-classes obo:ECO_0007575c
obo:ECO_0006087c

in vitro binding evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000148

in vitro transcription reconstitution assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000150
Super-classes obo:ECO_0000003c
Restrictions obo:OBI_0000312op some obo:OBI_0002622c
obo:IAO_0000136op some obo:GO_0034645c
Sub-classes obo:ECO_0007723c
obo:ECO_0007804c
obo:ECO_0000152c

in vitro recombinant protein transcription reconstitution assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000152
Super-classes obo:ECO_0000150c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b312c)
Sub-classes obo:ECO_0007215c
obo:ECO_0007111c

heterologous protein expression evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000154
Super-classes obo:ECO_0000010c
Sub-classes obo:ECO_0007311c
obo:ECO_0000282c

protein separation evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000156
Super-classes obo:ECO_0000100c
Sub-classes obo:ECO_0000158c
obo:ECO_0000160c
obo:ECO_0007684c
obo:ECO_0007787c

protein separation followed by direct sequencing evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000158
Super-classes obo:ECO_0000156c
Sub-classes obo:ECO_0007216c
obo:ECO_0007112c

protein separation followed by fragment identification evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000160
Super-classes obo:ECO_0000156c
Sub-classes obo:ECO_0007217c
obo:ECO_0007113c

heterologous system uptake evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000162
Description

The transporter is a recombinant protein.

Super-classes obo:ECO_0000134c
Sub-classes obo:ECO_0007218c
obo:ECO_0007114c

electrophysiology assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000164
Description

The scale of electrophysiology assays can range from small, e.g. a single ion channel, to large, e.g. an entire organ such as a heart.

Super-classes obo:ECO_0000002c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b318c)
obo:OBI_0000312op some obo:OBI_0002176c
Sub-classes obo:ECO_0006038c
obo:ECO_0006012c
obo:ECO_0005566c
obo:ECO_0006043c
obo:ECO_0005571c
obo:ECO_0006006c
obo:ECO_0005577c
obo:ECO_0005564c
obo:ECO_0007535c
obo:ECO_0005576c
obo:ECO_0005570c

two-electrode voltage clamp recording evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000166
Super-classes obo:ECO_0005576c
Sub-classes obo:ECO_0007115c
obo:ECO_0007219c

transcription assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000168
Super-classes obo:ECO_0000002c
Sub-classes obo:ECO_0007768c
obo:ECO_0001071c
obo:ECO_0007693c
obo:ECO_0000170c
obo:ECO_0001087c

transcriptional activation assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000170
Super-classes obo:ECO_0000168c
Restrictions obo:OBI_0000312op some (obo:OBI_0000424c and obo:OBI_0000913c and obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b325c)
obo:IAO_0000136op some obo:GO_0001047c
obo:OBI_0000312op some (obo:OBI_0000424c and obo:OBI_0000913c and obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b325c)
Sub-classes obo:ECO_0007633c
obo:ECO_0007632c

biochemical trait analysis evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000172
Description

For example, the accumulation of a biosynthetic intermediate.

Super-classes obo:ECO_0000059c
Restrictions obo:OBI_0000312op some obo:OBI_0000366c
Sub-classes obo:ECO_0007220c
obo:ECO_0007116c

mutant physiological response evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000174
Description

Examples include: abnormal growth of the root in response to gravity, delay in flowering in response to varying light conditions.

Super-classes obo:ECO_0000015c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b345c and obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b350c and obo:GO_0050896c and n61f022a426614b8f861c93ae78ea8986b336c)
obo:IAO_0000136op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b345c and obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b350c and obo:GO_0050896c and n61f022a426614b8f861c93ae78ea8986b336c)
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b345c and obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b350c and obo:GO_0050896c and n61f022a426614b8f861c93ae78ea8986b336c)
Sub-classes obo:ECO_0007221c
obo:ECO_0007117c

mutant visible phenotype evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000176
Super-classes obo:ECO_0000015c
Sub-classes obo:ECO_0007118c
obo:ECO_0007222c

genomic context evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000177
Description

This type of evidence might include identity of neighboring genes, operon structure, synteny, phylogenetic analysis, or other whole-genome analysis.

Super-classes obo:ECO_0000041c
Sub-classes obo:ECO_0007327c
obo:ECO_0000317c
obo:ECO_0000084c

in vivo assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000178
Super-classes obo:ECO_0000002c
Restrictions obo:OBI_0000312op some obo:OBI_0000964c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b357c)
Sub-classes obo:ECO_0007119c
obo:ECO_0007223c

animal model system study evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000179
Super-classes obo:ECO_0000006c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b365c)
obo:OBI_0000312op some obo:OBI_0000966c
obo:IAO_0000136op some obo:GO_0008150c
Sub-classes obo:ECO_0007120c
obo:ECO_0007224c

clinical study evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000180
Super-classes obo:ECO_0000006c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b371c)
Sub-classes obo:ECO_0007121c
obo:ECO_0007225c

in vitro assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000181
Super-classes obo:ECO_0000002c
Restrictions obo:OBI_0000312op some obo:OBI_0000978c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b378c)
Sub-classes obo:ECO_0007122c
obo:ECO_0007226c

in vitro culture assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000182
Description

Use ECO:0001563 (cell growth assay evidence) in place of this term.

cell-free assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000183
Super-classes obo:ECO_0000002c
Restrictions obo:OBI_0000312op some obo:OBI_0000978c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b386c)
obo:IAO_0000136op some obo:GO_0008152c
Sub-classes obo:ECO_0006064c
obo:ECO_0007563c

enzyme inhibition evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000184
Super-classes obo:ECO_0000020c
obo:ECO_0000005c
Sub-classes obo:ECO_0007227c
obo:ECO_0007123c

sequence alignment evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000200
Description

Such alignments may be pairwise alignments or multiple alignments.

Super-classes obo:ECO_0000044c
Sub-classes obo:ECO_0000247c
obo:ECO_0005554c
obo:ECO_0000326c
obo:ECO_0005555c
obo:ECO_0000248c
obo:ECO_0000345c

sequence orthology evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000201
Description

Orthology is a relationship between genes in different species indicating that the genes derive from a common ancestor.

Super-classes obo:ECO_0000044c
Sub-classes obo:ECO_0000265c
obo:ECO_0000266c

match to sequence model evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000202
Description

Used when evidence from any kind of statistical model of a sequence or group of sequences is used to make a prediction about the function of a protein or RNA. Examples of relevant evidence are: Hidden Markov Models, PROSITE motifs, and tools such as tRNASCAN.

Super-classes obo:ECO_0000044c
Sub-classes obo:ECO_0000028c
obo:ECO_0000029c
obo:ECO_0000255c
obo:ECO_0005535c
obo:ECO_0000256c

automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000203
Description

An automatic assertion is based on computationally generated information that is not reviewed by a person prior to making the assertion. For example, one common type of automatic assertion involves creating an association of evidence with an entity based on commonness of attributes of that entity and another entity for which an assertion already exists. The commonness is determined algorithmically.

Super-classes obo:ECO_0000217c

author statementc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000204
Super-classes obo:ECO_0006151c
Sub-classes obo:ECO_0006185c
obo:ECO_0007319c
obo:ECO_0000033c
obo:ECO_0000034c
obo:ECO_0000302c

curator inferencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000205
Super-classes obo:ECO_0000361c
Sub-classes obo:ECO_0007322c
obo:ECO_0006018c
obo:ECO_0000001c
obo:ECO_0007647c
obo:ECO_0000305c
obo:ECO_0000035c

BLAST evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000206
Super-classes obo:ECO_0005554c
Sub-classes obo:ECO_0000207c
obo:ECO_0000209c
obo:ECO_0000030c
obo:ECO_0000208c

nucleotide BLAST evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000207
Super-classes obo:ECO_0000206c
Sub-classes obo:ECO_0000032c
obo:ECO_0000210c

protein BLAST evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000208
Super-classes obo:ECO_0000206c
Sub-classes obo:ECO_0000031c
obo:ECO_0000211c

BLAST evidence used in automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000209
Super-classes obo:ECO_0000206c
obo:ECO_0005561c
Sub-classes obo:ECO_0000211c
obo:ECO_0000210c

nucleotide BLAST evidence used in automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000210
Super-classes obo:ECO_0000209c
obo:ECO_0000207c

protein BLAST evidence used in automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000211
Super-classes obo:ECO_0000208c
obo:ECO_0000209c

combinatorial evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000212
Description

A key aspect of this type of evidence is that two or more pieces of information are combined to generate an emergent type of evidence not possible with the constituent pieces of evidence alone. A combinatorial analysis typically involves incorporation of different types of evidence.

Super-classes obo:ECO_0000000c
Sub-classes obo:ECO_0007661c
obo:ECO_0007673c
obo:ECO_0007677c
obo:ECO_0007674c
obo:ECO_0007011c
obo:ECO_0007012c
obo:ECO_0000244c
obo:ECO_0000213c
obo:ECO_0007654c

combinatorial evidence used in automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000213
Description

Combinatorial analyses could include experimental or computational results. Examples include: (i) large-scale experiment such as a genome-wide two-hybrid or genome-wide synthetic interactions; (ii) integration of large-scale data sets of various types; and (iii) text-based-computation, e.g. text-mining. For simple sequence comparisons, one should use the sequence similarity analysis evidence type. For microarray results alone, expression pattern analysis is appropriate; whereas, large-scale computational analysis should be used when microarray results are combined with the results of other types of large-scale experiments.

Super-classes obo:ECO_0000212c
obo:ECO_0000501c
Sub-classes obo:ECO_0000053c
obo:ECO_0007829c
obo:ECO_0007676c
obo:ECO_0007593c
obo:ECO_0007830c
obo:ECO_0007592c
obo:ECO_0007679c

biological aspect of descendant evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000214
Description

This type of evidence can be used in support of both positive and "not" GO annotations. It should be used to annotate ancestral genes but not extant ones.

Super-classes obo:ECO_0000080c
Sub-classes obo:ECO_0000319c
obo:ECO_0007329c

rapid divergence from ancestral sequence evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000215
Description

Long branch lengths indicate that descendant sequences may have acquired different or additional functions than the ancestral sequence.

Super-classes obo:ECO_0000080c
Sub-classes obo:ECO_0000321c
obo:ECO_0007331c

phylogenetic determination of loss of key residues evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000216
Description

The loss of certain residues important for function can indicate that a sequence lacks a particular function.

Super-classes obo:ECO_0000080c
Sub-classes obo:ECO_0000320c
obo:ECO_0007330c

assertion methodc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000217
Sub-classes obo:ECO_0000218c
obo:ECO_0000203c
In range of obo:ECO_9000000op

manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000218
Description

A manual assertion could be based on evidence that is generated by and interpreted by a human or it could involve human review of computationally generated information.

Super-classes obo:ECO_0000217c

nucleotide sequencing assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000219
Super-classes obo:ECO_0000220c
Sub-classes obo:ECO_0007813c
obo:ECO_0001820c
obo:ECO_0001598c
obo:ECO_0000221c
obo:ECO_0000225c
obo:ECO_0007733c

sequencing assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000220
Super-classes obo:ECO_0000006c
Sub-classes obo:ECO_0007732c
obo:ECO_0007812c
obo:ECO_0000219c
obo:ECO_0001118c

high throughput nucleotide sequencing assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000221
Description

Typically thousands to millions of reads are produced in parallel.

Super-classes obo:ECO_0000219c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b419c)
obo:OBI_0000312op some obo:OBI_0001247c
Sub-classes obo:ECO_0000222c
obo:ECO_0000224c
obo:ECO_0007734c
obo:ECO_0000223c
obo:ECO_0007814c

Illumina sequencing evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000222
Description

In Illumina sequencing technology, adapters are ligated onto the ends of randomly fragmented DNA. After single-stranded fragments are bound to the inside surface of a flow cell channel, they undergo in-place bridge PCR amplification. To begin the sequencing cycle, labeled reversible terminators, primers and DNA polymerase are added, followed by laser excitation of the fluorescent label and high resolution scanning. After non-incorporated nucleotides are washed away and the dye is chemically removed, the next cycle repeats with four labeled reversible terminators, primers and DNA polymerase, again followed by imaging.

Super-classes obo:ECO_0000221c
Sub-classes obo:ECO_0007229c
obo:ECO_0007125c

454 pyrosequencing evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000223
Description

454 pyrosequencing technology amplifies individual DNA fragments inside water droplets within an oil solution (emulsion PCR). Within each droplet, a single DNA template is attached to a single primer-coated bead. Each bead is subsequently captured in a picolitre well within the sequencing machine. A luciferase-based readout system is used to identify individual nucleotides added to the nascent DNA.

The target strand is usually prepared by fragmentation, adaptor ligation, and amplification by emulsion PCR.

Super-classes obo:ECO_0000221c
Sub-classes obo:ECO_0007126c
obo:ECO_0007230c

SOLiD sequencing evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000224
Description

SOLiD sequencing technology is based on sequencing by ligation. After library preparation, emulsion PCR and bead enrichment are performed, including 3' modification of templates on selected beads to allow covalent bonding to a slide. 3' modified beads are attached to a glass slide and primers are added. Four fluorescently labeled di-base probes are added and multiple cycles of ligation, detection and cleavage are performed. The number of cycles determines read length. After a number of ligation cycles, the extension product is removed and another round of ligation cycles is performed with a new primer complimentary to the n-1 position of the template. Five rounds of primer reset are performed for each sequence tag.

Samples are prepared by fragmentation of a sample library, adaptor ligation, emulsion PCR, and attachment of resultant beads to glass slides.

Super-classes obo:ECO_0000221c
Sub-classes obo:ECO_0007231c
obo:ECO_0007127c

chain termination sequencing evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000225
Description

Chain termination sequencing, also called Sanger sequencing after its developer, uses dideoxynucleotide triphosphates (ddNTPs) as DNA chain terminators. Single-stranded DNA template, DNA primer, DNA polymerase, fluorescently or radioactively labeled nucleotides, and one of four ddNTPs are added together in each of four separate sequencing reactions. The synthesized and labeled DNA fragments from each of the four reactions are denatured, separated by size by gel electrophoresis, and visualized by autoradiography or UV light.

The ddNTPs lack an OH group so the next dNTP cannot be attached, causing chain termination.

Super-classes obo:ECO_0000219c
Sub-classes obo:ECO_0007128c
obo:ECO_0007232c

chromatin immunoprecipitation evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000226
Description

Chromatin immunoprecipitation (ChIP) is used to investigate protein-DNA interactions in vivo. DNA and proteins are chemically cross-linked in vivo to form chromatin complexes, followed by cell lysis and DNA shearing. Fragmented DNA-protein complexes are selectively enriched for a protein of interest using a specific antibody (immunoprecipitation). Protein digestion and DNA purification are performed prior to DNA detection via molecular cloning and sequencing, polymerase chain reaction (PCR), microarray analysis (ChIP-on-chip), or direct high-throughput sequencing (ChIP-seq).

Super-classes obo:ECO_0000085c
Restrictions obo:IAO_0000136op some obo:GO_0043565c
obo:OBI_0000312op some obo:OBI_0001956c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b427c)
Sub-classes obo:ECO_0007786c
obo:ECO_0001806c
obo:ECO_0007706c
obo:ECO_0000228c
obo:ECO_0000229c
obo:ECO_0000227c
obo:ECO_0000230c

chromatin immunoprecipitation-PCR evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000227
Description

ChIP-PCR is often used to validate ChIP-chip results and less frequently,ChIP-Seq results.

Super-classes obo:ECO_0000226c
Sub-classes obo:ECO_0005620c
obo:ECO_0007502c

chromatin immunoprecipitation-qPCR evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000228
Super-classes obo:ECO_0000226c
Restrictions obo:OBI_0000312op some obo:OBI_0002169c
Sub-classes obo:ECO_0007129c
obo:ECO_0007233c

chromatin immunoprecipitation-seq evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000229
Description

ChIP-Seq experiments often use the input as a control to eliminate biases. To obtain similar results, ChIP-chip with high-density tiling arrays can be used.

Super-classes obo:ECO_0000226c
Restrictions obo:OBI_0000312op some obo:OBI_0000716c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b435c)
Sub-classes obo:ECO_0005621c
obo:ECO_0006009c

chromatin immunoprecipitation-chip evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000230
Description

A fixating agent such as formaldehyde is used to cross link proteins and DNA. Sonication is applied for DNA shearing. For transcription factor tagging, an antibody or epitope is employed. After cross-linking is reversed, the DNA is amplified and labeled with a flourophore for microarray which produces a resolution of aproximately 500 bp.

Super-classes obo:ECO_0000226c
Restrictions obo:OBI_0000312op some obo:OBI_0001248c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b442c)
Sub-classes obo:ECO_0006007c
obo:ECO_0005618c

quantitative polymerase chain reaction evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000231
Description

Quantitative PCR enables both detection and quantification (as absolute number of copies or relative amount when normalized to DNA input or additional normalizing genes) of one or more specific sequences in a DNA sample. The dye is activated upon binding double-stranded DNA.

Although qRT-PCR is commonly found in literature synonymous to qPCR, it is preferable not to use this synonym as it is the accepted abbreviation for reverse transcription PCR. qPCR should be used instead (ISBN 978-0-470-68386-6 page 173).

qPCR can be used to quantitatively determine levels of gene expression.

Super-classes obo:ECO_0005519c
Restrictions obo:OBI_0000312op some obo:OBI_0000893c
Sub-classes obo:ECO_0007521c
obo:ECO_0005660c

chromosome conformation-based evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000232
Description

Chromosome conformation capture technologies are used to study the structural properties and spatial organization of chromosomes inside cells. All types of chromosome conformation capture technology involve five primary steps: cross-linking of DNA in vivo, restriction digestion, intramolecular ligation, reversing cross-linkages, and DNA enrichment and quantitation. The last step is different for each type of chromosome conformation capture technology, and may include PCR (3C), inverse PCR (4C), or ligation-mediated amplification (5C). Methods for product quantitation can include agarose gel detection or real-time quantitative PCR in the case of 3C, or high-throughput sequencing or microarray analysis for 4C and 5C.

Super-classes obo:ECO_0000006c
Restrictions obo:OBI_0000312op some obo:OBI_0002438c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b450c)
Sub-classes obo:ECO_0000238c
obo:ECO_0000233c
obo:ECO_0000235c
obo:ECO_0000234c
obo:ECO_0007741c
obo:ECO_0007822c
obo:ECO_0000239c

3C evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000233
Description

3C is used to study the structural properties and spatial organization of chromosomes inside cells. Like other types of chromosome conformation capture technology, 3C differs only in the fifth step, which involves performing either standard polymerase chain reaction (PCR) or quantitative PCR (qPCR) for product quantitation.

Super-classes obo:ECO_0000232c
Restrictions obo:OBI_0000312op some obo:OBI_0002439c
Sub-classes obo:ECO_0007823c
obo:ECO_0000237c
obo:ECO_0007742c

4C evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000234
Description

4C is used to study the structural properties and spatial organization of chromosomes inside cells. Like other types of chromosome conformation capture technology, 4C differs only in the fifth step, which involves inverse polymerase chain reaction (inverse PCR) on a circularized 3C library prior to product quantitation.

Super-classes obo:ECO_0000232c
Sub-classes obo:ECO_0007234c
obo:ECO_0007130c

5C evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000235
Description

5C is used to study the structural properties and spatial organization of chromosomes inside cells. Like other types of chromosome conformation capture technology, 5C differs only in the fifth step, which involves ligation-mediated amplification (LMA) followed by product quantitation.

Super-classes obo:ECO_0000232c
Restrictions obo:OBI_0000312op some obo:OBI_0001919c
Sub-classes obo:ECO_0007235c
obo:ECO_0007131c

chromosome conformation capture-PCR evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000236
Description

See 3C evidence. 3C evidence was initially developed using PCR.

3C-qPCR evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000237
Super-classes obo:ECO_0000233c
Restrictions obo:OBI_0000312op some (obo:OBI_0000893c and obo:OBI_0002439c)
Sub-classes obo:ECO_0007237c
obo:ECO_0007133c

Hi-C evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000238
Description

Hi-C is used to study the structural properties and spatial organization of chromosomes inside cells. Hi-C is similar to other types of chromosome conformation capture technology, but involves the addition of biotinylated nucleotides during the second or fourth step and enrichment for ligated fragments using immunoprecipitation after the fourth step.

Super-classes obo:ECO_0000232c
Restrictions obo:OBI_0000312op some obo:OBI_0002440c
Sub-classes obo:ECO_0007134c
obo:ECO_0007238c

3C-seq evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000239
Description

3C-seq is used to study the structural properties and spatial organization of chromosomes inside cells. Like other types of chromosome conformation capture technology, 3C-seq differs only in the fifth step, which involves inverse polymerase chain reaction (PCR) on a circularized 3C library prior to product quantitation.

Super-classes obo:ECO_0000232c
Sub-classes obo:ECO_0007239c
obo:ECO_0007135c

anatomical perturbation phenotypic evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000240
Super-classes obo:ECO_0000059c
Sub-classes obo:ECO_0007810c
obo:ECO_0001137c
obo:ECO_0000242c
obo:ECO_0007728c
obo:ECO_0000243c
obo:ECO_0001009c

environmental perturbation phenotypic evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000241
Description

Many environmental factors are subject to modification, such as temperature, pressure, humidity, radiation, and so forth.

Super-classes obo:ECO_0000059c
Sub-classes obo:ECO_0007240c
obo:ECO_0007136c

tissue ablation phenotypic evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000242
Super-classes obo:ECO_0000240c
Sub-classes obo:ECO_0007137c
obo:ECO_0007241c

tissue grafting phenotypic evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000243
Super-classes obo:ECO_0000240c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b467c)
Sub-classes obo:ECO_0007138c
obo:ECO_0007242c

combinatorial evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000244
Description

Combinatorial analyses could include experimental or computational results. Examples include: (i) large-scale experiment such as a genome-wide two-hybrid or genome-wide synthetic interactions; (ii) integration of large-scale data sets of various types; and (iii) text-based-computation, e.g. text-mining. For simple sequence comparisons, one should use the sequence similarity analysis evidence type. For microarray results alone, expression pattern analysis is appropriate; whereas, large-scale computational analysis should be used when microarray results are combined with the results of other types of large-scale experiments.

Super-classes obo:ECO_0000352c
obo:ECO_0000212c
Sub-classes obo:ECO_0007678c
obo:ECO_0007675c
obo:ECO_0007745c
obo:ECO_0007014c
obo:ECO_0007744c
obo:ECO_0000245c
obo:ECO_0007013c

automatically integrated combinatorial evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000245
Super-classes obo:ECO_0007673c
obo:ECO_0000244c
Sub-classes obo:ECO_0007659c
obo:ECO_0007666c
obo:ECO_0007652c

computational combinatorial evidence used in automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000246
Description

Merged with ECO:0000053.

sequence alignment evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000247
Super-classes obo:ECO_0000200c
obo:ECO_0000250c
Sub-classes obo:ECO_0007152c
obo:ECO_0000329c
obo:ECO_0005560c
obo:ECO_0007749c
obo:ECO_0005556c
obo:ECO_0000330c

sequence alignment evidence used in automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000248
Super-classes obo:ECO_0000249c
obo:ECO_0000200c
Sub-classes obo:ECO_0007825c
obo:ECO_0005557c
obo:ECO_0005561c
obo:ECO_0007256c

sequence similarity evidence used in automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000249
Super-classes obo:ECO_0000044c
obo:ECO_0000251c
obo:ECO_0007669c
Sub-classes obo:ECO_0000248c
obo:ECO_0000256c
obo:ECO_0000265c

sequence similarity evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000250
Super-classes obo:ECO_0000252c
obo:ECO_0000044c
obo:ECO_0007668c
Sub-classes obo:ECO_0000255c
obo:ECO_0000247c
obo:ECO_0000266c

similarity evidence used in automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000251
Super-classes obo:ECO_0000501c
obo:ECO_0000041c
Sub-classes obo:ECO_0007824c
obo:ECO_0000254c
obo:ECO_0007826c
obo:ECO_0000249c
obo:ECO_0007327c

similarity evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000252
Super-classes obo:ECO_0000041c
obo:ECO_0000352c
Sub-classes obo:ECO_0000318c
obo:ECO_0007750c
obo:ECO_0007094c
obo:ECO_0000250c
obo:ECO_0007748c
obo:ECO_0007153c
obo:ECO_0000317c
obo:ECO_0007090c
obo:ECO_0000253c
obo:ECO_0000319c
obo:ECO_0007097c
obo:ECO_0007099c
obo:ECO_0007096c
obo:ECO_0000321c
obo:ECO_0000320c
obo:ECO_0007098c

genetic similarity evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000253
Super-classes obo:ECO_0000252c
obo:ECO_0000051c

genetic similarity evidence used in automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000254
Super-classes obo:ECO_0000251c
obo:ECO_0000051c

match to sequence model evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000255
Super-classes obo:ECO_0000202c
obo:ECO_0000250c
Sub-classes obo:ECO_0000260c
obo:ECO_0005649c
obo:ECO_0000257c

match to sequence model evidence used in automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000256
Super-classes obo:ECO_0000202c
obo:ECO_0000249c
Sub-classes obo:ECO_0000259c
obo:ECO_0005650c
obo:ECO_0000258c

motif similarity evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000257
Super-classes obo:ECO_0000028c
obo:ECO_0000255c
Sub-classes obo:ECO_0005658c
obo:ECO_0000262c
obo:ECO_0005662c
obo:ECO_0005624c
obo:ECO_0000264c
obo:ECO_0005622c

motif similarity evidence used in automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000258
Super-classes obo:ECO_0000256c
obo:ECO_0000028c
Sub-classes obo:ECO_0005623c
obo:ECO_0000261c
obo:ECO_0005659c
obo:ECO_0005625c
obo:ECO_0000263c
obo:ECO_0005663c

match to InterPro member signature evidence used in automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000259
Super-classes obo:ECO_0000256c
obo:ECO_0000029c

match to InterPro member signature evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000260
Super-classes obo:ECO_0000029c
obo:ECO_0000255c

targeting sequence prediction evidence used in automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000261
Super-classes obo:ECO_0000258c
obo:ECO_0000081c

targeting sequence prediction evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000262
Super-classes obo:ECO_0000257c
obo:ECO_0000081c

transmembrane domain prediction evidence used in automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000263
Super-classes obo:ECO_0000083c
obo:ECO_0000258c

transmembrane domain prediction evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000264
Super-classes obo:ECO_0000083c
obo:ECO_0000257c

sequence orthology evidence used in automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000265
Super-classes obo:ECO_0000201c
obo:ECO_0000249c

sequence orthology evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000266
Super-classes obo:ECO_0000250c
obo:ECO_0000201c

enzyme-linked immunoabsorbent assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000267
Description

ELISA is sometimes used in the study of transcriptional regulation to identify a produced protein, especially secreted protein.

Super-classes obo:ECO_0005517c
Sub-classes obo:ECO_0005581c
obo:ECO_0007488c

flow cytometry evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000268
Super-classes obo:ECO_0000002c
Restrictions obo:OBI_0000312op some obo:OBI_0000916c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b561c)
Sub-classes obo:ECO_0005580c
obo:ECO_0007487c

experimental evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000269
Super-classes obo:ECO_0000006c
obo:ECO_0000352c
Sub-classes obo:ECO_0007121c
obo:ECO_0005802c
obo:ECO_0007131c
obo:ECO_0001043c
obo:ECO_0007742c
obo:ECO_0007634c
obo:ECO_0005523c
obo:ECO_0006200c
obo:ECO_0005661c
obo:ECO_0007737c
obo:ECO_0007134c
obo:ECO_0007062c
obo:ECO_0005527c
obo:ECO_0007120c
obo:ECO_0007133c
obo:ECO_0007135c
obo:ECO_0007732c
obo:ECO_0001257c
obo:ECO_0006311c
obo:ECO_0007738c
obo:ECO_0001252c
obo:ECO_0007101c
obo:ECO_0001186c
obo:ECO_0007731c
obo:ECO_0007735c
obo:ECO_0001808c
obo:ECO_0007734c
obo:ECO_0000314c
obo:ECO_0007156c
obo:ECO_0001258c
obo:ECO_0001240c
obo:ECO_0006212c
obo:ECO_0007736c
obo:ECO_0001236c
obo:ECO_0001250c
obo:ECO_0001600c
obo:ECO_0001251c
obo:ECO_0006275c
obo:ECO_0001230c
obo:ECO_0006285c
obo:ECO_0007125c
obo:ECO_0005660c
obo:ECO_0007130c
obo:ECO_0005581c
obo:ECO_0001189c
obo:ECO_0005804c
obo:ECO_0001171c
obo:ECO_0001255c
obo:ECO_0001228c
obo:ECO_0007126c
obo:ECO_0007733c
obo:ECO_0007680c
obo:ECO_0000278c
obo:ECO_0007127c
obo:ECO_0001594c
obo:ECO_0005645c
obo:ECO_0001832c
obo:ECO_0000270c
obo:ECO_0007128c
obo:ECO_0007741c
obo:ECO_0001177c
obo:ECO_0007739c
obo:ECO_0001160c
obo:ECO_0007740c
obo:ECO_0007150c
obo:ECO_0001270c

expression pattern evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000270
Super-classes obo:ECO_0000008c
obo:ECO_0000269c
Sub-classes obo:ECO_0006241c
obo:ECO_0005616c
obo:ECO_0000291c
obo:ECO_0007682c
obo:ECO_0005636c
obo:ECO_0006002c
obo:ECO_0005672c
obo:ECO_0000284c
obo:ECO_0007088c
obo:ECO_0005633c
obo:ECO_0005641c
obo:ECO_0005648c
obo:ECO_0001838c
obo:ECO_0005615c
obo:ECO_0007007c
obo:ECO_0005617c

array experiment evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000271
Description

This general 'array experiment' term should not be used - replace with the specific type of array (e.g. ECO:0000273, ECO:0000276, ECO:0000285, etc.)

Affymetrix GeneChip evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000272
Super-classes obo:ECO_0000101c
obo:ECO_0000276c

cDNA to DNA expression microarray evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000273
Super-classes obo:ECO_0000275c
obo:ECO_0000097c
Sub-classes obo:ECO_0000277c

differential methylation hybridization evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000274
Super-classes obo:ECO_0000069c
obo:ECO_0001198c

expression microarray evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000275
Super-classes obo:ECO_0000058c
obo:ECO_0000291c
Sub-classes obo:ECO_0000273c
obo:ECO_0000285c
obo:ECO_0000276c

cRNA to DNA expression microarray evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000276
Super-classes obo:ECO_0000275c
obo:ECO_0000062c
Sub-classes obo:ECO_0000272c

Nimblegen array evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000277
Super-classes obo:ECO_0000105c
obo:ECO_0000273c

array-based sequence capture evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000278
Super-classes obo:ECO_0000093c
obo:ECO_0000269c

qualitative western immunoblotting evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000279
Super-classes obo:ECO_0000314c
obo:ECO_0000112c
obo:ECO_0000284c
Sub-classes obo:ECO_0006170c

expression library screen evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000281
Super-classes obo:ECO_0000284c
obo:ECO_0000114c

heterologous protein expression evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000282
Super-classes obo:ECO_0000284c
obo:ECO_0000154c

spatial pattern of protein expression evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000283
Super-classes obo:ECO_0000045c
obo:ECO_0000284c

protein expression evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000284
Super-classes obo:ECO_0000010c
obo:ECO_0000270c
Sub-classes obo:ECO_0000281c
obo:ECO_0000282c
obo:ECO_0000283c
obo:ECO_0000279c

DNA to cDNA expression microarray evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000285
Super-classes obo:ECO_0000275c
obo:ECO_0000104c

differential hybridization evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000287
Super-classes obo:ECO_0000116c
obo:ECO_0000291c

RNA protection assay evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000288
Super-classes obo:ECO_0001240c
obo:ECO_0000110c

spatial pattern of transcript expression evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000289
Super-classes obo:ECO_0000047c
obo:ECO_0000291c

subtractive hybridization evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000290
Super-classes obo:ECO_0000291c
obo:ECO_0000118c

transcript expression evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000291
Super-classes obo:ECO_0000270c
obo:ECO_0000009c
Sub-classes obo:ECO_0005653c
obo:ECO_0000290c
obo:ECO_0000275c
obo:ECO_0007144c
obo:ECO_0007145c
obo:ECO_0006068c
obo:ECO_0005657c
obo:ECO_0000289c
obo:ECO_0007155c
obo:ECO_0007154c
obo:ECO_0000287c

morpholino experiment evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000292
Description

Morpholino oligonucleotides modify gene expression by blocking access of other molecules to specific, approximately 25-base-long regions of the base-pairing surfaces of ribonucleic acid (RNA). To achieve this anti-sense knockdown technique, delivery of the morpholino can be achieved via microinjection, electroporation, or another method.

Super-classes obo:ECO_0000015c
Sub-classes obo:ECO_0007557c
obo:ECO_0006051c

systematic evolution of ligands by exponential amplification evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000293
Description

SELEX begins with the synthesis of a large oligonucleotide library, either single-stranded DNA or RNA, which consists of random fixed-length sequences flanked by constant 5' and 3' ends that serve as primers. The library is exposed to a target ligand, typically a protein or small organic compound. Unbound sequences are removed, typically with affinity chromatography. Bound sequences are eluted and the nucleic acid is extracted, followed by PCR amplification (RNA is first reverse transcribed). PCR product is converted to single stranded (DNA) or transcribed (RNA). Oligonucleotides are bound to the ligand again and the process is repeated with increasing elution stringency. After several rounds of the process, recovered oligonucleotides are sequenced and analyzed to reveal the binding specificity of the protein.

Super-classes obo:ECO_0000021c
Sub-classes obo:ECO_0006088c
obo:ECO_0007510c
obo:ECO_0001812c

bacterial one-hybrid evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000294
Description

Bacterial one-hybrid assay is a method for screening a library of candidate proteins (prey plasmid) for the ability to bind to a target, cis-regulatory element or any other short, DNA binding sequence placed 5' to reporter genes (bait plasmid). Transformation of a bacterial host with two different plasmids is required: One is designed to express the "bait". The other plasmid contains a "prey" which, if bound to by the chimeric fusion product, drives expression of downstream reporter genes.

Super-classes obo:ECO_0000025c
Restrictions obo:OBI_0000312op some obo:OBI_0001682c
obo:IAO_0000136op some obo:GO_0043565c
Sub-classes obo:ECO_0007576c
obo:ECO_0006089c

RNA-sequencing evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000295
Description

Total RNA is isolated from cells and mRNA is purified by targeting the 3' polyadenylated (poly(A)) tail with poly(T) oligos covalently attached to a substrate. Next, cDNA fragments are generated either by hydrolysis of RNA into 200-300 base oligonucleotides, preceded by reverse transcription, or by reverse transcription initiated by random primers. The cDNA second strand is synthesized, fragments are adapter ligated and high-throughput sequencing is performed by Roche 454, Illumina, ABI-SOLiD, or another HT sequencing technology. Resulting sort reads are aligned against a reference genome, and downstream analysis is performed.

Super-classes obo:ECO_0000009c
Restrictions obo:OBI_0000312op some obo:OBI_0001271c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b654c)
Sub-classes obo:ECO_0006239c
obo:ECO_0006069c
obo:ECO_0006068c
obo:ECO_0001560c
obo:ECO_0000342c

cleavage arrested development evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000298
Description

In the embryos of some organisms, inhibition of cytokinesis blocks neither the cell cycle nor the unfolding of the developmental program. As such, embryonic morphology can be frozen, allowing analysis of the developmental fate of each cell present at the time of cleavage arrest.

Super-classes obo:ECO_0000059c
Sub-classes obo:ECO_0007730c
obo:ECO_0000299c
obo:ECO_0007811c

cytochalasin experiment evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000299
Description

Cytochalasin inhibits cytokinesis by blocking the formation of contractile microfilaments.

Super-classes obo:ECO_0000298c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b662c and obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b667c)
obo:IAO_0000136op some obo:GO_0072749c
obo:OBI_0000312op some obo:OBI_0001689c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b662c and obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b667c)
Sub-classes obo:ECO_0007141c
obo:ECO_0007245c

green fluorescent protein immunolocalization evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000300
Description

This term describes immunolocalization of the protein; to describe transcriptional activation, use the term "localization of green fluorescent protein transcript".

Super-classes obo:ECO_0000087c
Sub-classes obo:ECO_0007142c
obo:ECO_0007246c

beta-galactosidase protein immunolocalization evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000301
Description

This term describes immunolocalization of the protein; to describe transcriptional activation, use the term "localization of LacZ transcript".

Super-classes obo:ECO_0000087c
Sub-classes obo:ECO_0007247c
obo:ECO_0007143c

author statement used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000302
Super-classes obo:ECO_0006155c
obo:ECO_0000204c
Sub-classes obo:ECO_0000304c
obo:ECO_0000303c
obo:ECO_0006216c

author statement without traceable support used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000303
Super-classes obo:ECO_0000302c
obo:ECO_0000034c

author statement supported by traceable reference used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000304
Super-classes obo:ECO_0000302c
obo:ECO_0000033c
Sub-classes obo:ECO_0006017c

curator inference used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000305
Super-classes obo:ECO_0007751c
obo:ECO_0000205c
Sub-classes obo:ECO_0006019c
obo:ECO_0000307c
obo:ECO_0007752c
obo:ECO_0000306c

inference from background scientific knowledge used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000306
Super-classes obo:ECO_0000001c
obo:ECO_0000305c

no evidence data found used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000307
Super-classes obo:ECO_0000305c
obo:ECO_0000035c

biological aspect of ancestor evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000308
Description

First, a characteristic of the most recent common ancestor (MRCA) is inferred from experimental evidence in descendants; this is followed by inferring a characteristic of a descendant of the MRCA. This type of evidence can be used in support of both positive and "not" GO annotations.

Super-classes obo:ECO_0000080c
Sub-classes obo:ECO_0007328c
obo:ECO_0000318c

cap analysis of gene expression evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000309
Description

Complementary DNA (cDNA) is synthesized from microgram quantities of mRNA using first-strand cDNA primer (oligo dT12-18) and reverse transcriptase in the presence of trehalose and sorbitol, followed by selection of full-length cDNA with biotinylated cap-trapper. Linkers are attached to the 5' ends of full-length enriched cDNAs to introduce a recognition site for the restriction endonuclease MmeI, which creates a two base overhang. After amplification, sequencing tags are concatenated for high-throughput sequencing. Resulting sort reads are aligned against a reference genome, and downstream analysis is performed.

Super-classes obo:ECO_0000009c
Restrictions obo:OBI_0000312op some obo:OBI_0001674c
Sub-classes obo:ECO_0007248c
obo:ECO_0007144c

nano-cap analysis of gene expression evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000310
Description

NanoCAGE captures the 5' ends of molecules by template switching. When polymerizing the cDNA of a capped mRNA, the reverse transcriptase adds extra cytosines that are complementary to the cap. Each 5' full length cDNAs is extended upon hybridization of the riboguanosine-tailed template switching oligonucleotides to these extra cytosines. In semisuppressive PCR, the short templates fold intramolecularly and prevent the binding of primers, which precludes amplification; longer molecules are less likely to fold and are thus amplified. Templates derived from reaction artifacts form stable homoduplexes, also precluding amplification. After template switching, semisuppressive PCR, and EcoP151 cleavage, 25-bp tags are ligated to bar code-containing oligonucleotide adaptors. After PCR amplification, the nanoCAGE tags are sequenced by synthesis. NanoCAGE requires as little as 10 nanograms of total RNA.

Super-classes obo:ECO_0000009c
Restrictions obo:OBI_0000312op some obo:OBI_0001673c
Sub-classes obo:ECO_0007145c
obo:ECO_0007249c

imported informationc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000311
Super-classes obo:ECO_0006151c
Sub-classes obo:ECO_0000313c
obo:ECO_0000312c

imported information used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000312
Super-classes obo:ECO_0006155c
obo:ECO_0000311c

imported information used in automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000313
Super-classes obo:ECO_0006156c
obo:ECO_0000311c
Sub-classes obo:ECO_0000322c
obo:ECO_0000323c

direct assay evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000314
Super-classes obo:ECO_0000269c
obo:ECO_0000002c
Sub-classes obo:ECO_0001197c
obo:ECO_0007720c
obo:ECO_0007111c
obo:ECO_0006325c
obo:ECO_0007147c
obo:ECO_0005580c
obo:ECO_0001204c
obo:ECO_0001210c
obo:ECO_0001199c
obo:ECO_0001239c
obo:ECO_0007713c
obo:ECO_0007036c
obo:ECO_0007709c
obo:ECO_0005614c
obo:ECO_0007149c
obo:ECO_0001157c
obo:ECO_0007716c
obo:ECO_0001213c
obo:ECO_0007157c
obo:ECO_0007688c
obo:ECO_0007146c
obo:ECO_0001140c
obo:ECO_0007632c
obo:ECO_0007703c
obo:ECO_0001209c
obo:ECO_0001217c
obo:ECO_0006006c
obo:ECO_0001182c
obo:ECO_0001144c
obo:ECO_0007186c
obo:ECO_0001159c
obo:ECO_0001206c
obo:ECO_0007084c
obo:ECO_0007717c
obo:ECO_0001190c
obo:ECO_0007692c
obo:ECO_0001192c
obo:ECO_0007185c
obo:ECO_0007040c
obo:ECO_0001256c
obo:ECO_0006234c
obo:ECO_0001153c
obo:ECO_0007725c
obo:ECO_0007704c
obo:ECO_0001200c
obo:ECO_0007702c
obo:ECO_0006305c
obo:ECO_0001154c
obo:ECO_0005501c
obo:ECO_0001576c
obo:ECO_0007698c
obo:ECO_0006230c
obo:ECO_0001249c
obo:ECO_0007685c
obo:ECO_0001271c
obo:ECO_0007119c
obo:ECO_0001207c
obo:ECO_0007715c
obo:ECO_0001214c
obo:ECO_0001173c
obo:ECO_0001148c
obo:ECO_0007708c
obo:ECO_0007192c
obo:ECO_0007187c
obo:ECO_0007696c
obo:ECO_0007721c
obo:ECO_0001156c
obo:ECO_0007722c
obo:ECO_0007718c
obo:ECO_0001205c
obo:ECO_0000279c
obo:ECO_0006307c
obo:ECO_0001166c
obo:ECO_0007005c
obo:ECO_0001143c
obo:ECO_0001191c
obo:ECO_0007108c
obo:ECO_0007693c
obo:ECO_0001198c
obo:ECO_0001219c
obo:ECO_0001216c
obo:ECO_0007038c
obo:ECO_0007109c
obo:ECO_0001208c
obo:ECO_0007723c
obo:ECO_0007719c
obo:ECO_0007707c
obo:ECO_0007724c
obo:ECO_0001254c
obo:ECO_0007689c
obo:ECO_0007016c
obo:ECO_0007107c
obo:ECO_0007701c
obo:ECO_0001138c
obo:ECO_0006319c
obo:ECO_0001193c
obo:ECO_0006005c
obo:ECO_0001203c
obo:ECO_0001195c
obo:ECO_0007695c
obo:ECO_0001222c
obo:ECO_0001139c
obo:ECO_0007691c
obo:ECO_0007159c
obo:ECO_0001248c
obo:ECO_0007070c
obo:ECO_0005638c
obo:ECO_0007699c
obo:ECO_0007188c
obo:ECO_0007712c
obo:ECO_0001196c
obo:ECO_0006021c
obo:ECO_0001162c
obo:ECO_0001263c
obo:ECO_0007148c
obo:ECO_0007697c
obo:ECO_0001220c
obo:ECO_0007114c
obo:ECO_0007710c
obo:ECO_0001212c
obo:ECO_0005801c
obo:ECO_0007122c
obo:ECO_0007690c
obo:ECO_0001165c
obo:ECO_0000353c
obo:ECO_0001174c
obo:ECO_0001194c
obo:ECO_0007694c
obo:ECO_0001145c
obo:ECO_0001241c
obo:ECO_0001261c
obo:ECO_0006064c
obo:ECO_0001246c
obo:ECO_0001158c
obo:ECO_0001211c
obo:ECO_0001233c
obo:ECO_0007714c
obo:ECO_0007711c
obo:ECO_0001234c
obo:ECO_0001201c
obo:ECO_0001141c
obo:ECO_0007726c
obo:ECO_0001176c
obo:ECO_0001235c
obo:ECO_0001142c
obo:ECO_0001264c
obo:ECO_0007106c
obo:ECO_0001215c
obo:ECO_0007727c
obo:ECO_0001243c
obo:ECO_0001221c
obo:ECO_0006291c

mutant phenotype evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000315
Super-classes obo:ECO_0007634c
obo:ECO_0000015c
Sub-classes obo:ECO_0007165c
obo:ECO_0006095c
obo:ECO_0006050c
obo:ECO_0005530c
obo:ECO_0007117c
obo:ECO_0006101c
obo:ECO_0006051c
obo:ECO_0007089c
obo:ECO_0001247c
obo:ECO_0007166c
obo:ECO_0007168c
obo:ECO_0001161c
obo:ECO_0001175c
obo:ECO_0001179c
obo:ECO_0007163c
obo:ECO_0007001c
obo:ECO_0006049c
obo:ECO_0007118c
obo:ECO_0006099c
obo:ECO_0007167c
obo:ECO_0006052c
obo:ECO_0007092c
obo:ECO_0005667c

genetic interaction evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000316
Super-classes obo:ECO_0007634c
obo:ECO_0000011c
Sub-classes obo:ECO_0006096c
obo:ECO_0006094c
obo:ECO_0007003c
obo:ECO_0006091c

genomic context evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000317
Super-classes obo:ECO_0000177c
obo:ECO_0000252c
Sub-classes obo:ECO_0000354c

biological aspect of ancestor evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000318
Super-classes obo:ECO_0000252c
obo:ECO_0000308c

biological aspect of descendant evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000319
Super-classes obo:ECO_0000214c
obo:ECO_0000252c

phylogenetic determination of loss of key residues evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000320
Super-classes obo:ECO_0000216c
obo:ECO_0000252c

rapid divergence from ancestral sequence evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000321
Super-classes obo:ECO_0000215c
obo:ECO_0000252c

imported manually asserted information used in automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000322
Super-classes obo:ECO_0000313c

imported automatically asserted information used in automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000323
Super-classes obo:ECO_0000313c

imaging assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000324
Super-classes obo:ECO_0000002c
Restrictions obo:OBI_0000312op some obo:OBI_0000185c
Sub-classes obo:ECO_0007363c
obo:ECO_0001026c
obo:ECO_0001097c
obo:ECO_0001256c
obo:ECO_0001051c
obo:ECO_0001098c

chromatography evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000325
Super-classes obo:ECO_0000006c
Restrictions obo:OBI_0000312op some obo:OBI_0001630c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b741c)
Sub-classes obo:ECO_0000140c
obo:ECO_0007681c
obo:ECO_0001010c
obo:ECO_0001049c
obo:ECO_0001809c
obo:ECO_0001052c
obo:ECO_0007680c

transcript splice pattern evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000326
Super-classes obo:ECO_0000200c
Sub-classes obo:ECO_0000327c
obo:ECO_0007749c
obo:ECO_0007825c
obo:ECO_0000328c

whole transcript splice pattern evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000327
Description

This term is used by the NCBI Reference Sequences (RefSeq) in support of sequences that have the same splice pattern as a RefSeq transcript. If such full transcript information is not available, RefSeq reports sequences that match the splice pattern of a coding sequence (CDS) annotated on a RefSeq, supported by the evidence term ECO:0000328 or a child.

Super-classes obo:ECO_0000326c
Sub-classes obo:ECO_0000332c
obo:ECO_0000329c

coding sequence splice pattern evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000328
Description

This term is used by the NCBI Reference Sequences (RefSeq) in support of sequences that match the splice pattern of a coding sequence (CDS) annotated on a RefSeq, but for which full transcript information is unavailable. For sequences that have the same splice pattern as a whole RefSeq transcript, use the evidence term ECO:0000327 or a child.

Super-classes obo:ECO_0000326c
Sub-classes obo:ECO_0000330c
obo:ECO_0000331c

whole transcript splice pattern evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000329
Description

This term is used by the NCBI Reference Sequences (RefSeq) in support of sequences that have the same splice pattern as a RefSeq transcript. If such full transcript information is not available, RefSeq reports sequences that match the splice pattern of a coding sequence (CDS) annotated on a RefSeq, supported by the evidence term ECO:0000328 or a child.

Super-classes obo:ECO_0000247c
obo:ECO_0000327c

coding sequence splice pattern evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000330
Description

This term is used by the NCBI Reference Sequences (RefSeq) in support of sequences that match the splice pattern of a coding sequence (CDS) annotated on a RefSeq, but for which full transcript information is unavailable. For sequences that have the same splice pattern as a whole RefSeq transcript, use the evidence term ECO:0000327 or a child.

Super-classes obo:ECO_0000328c
obo:ECO_0000247c

coding sequence splice pattern evidence used in automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000331
Description

This term is used by the NCBI Reference Sequences (RefSeq) in support of sequences that match the splice pattern of a coding sequence (CDS) annotated on a RefSeq, but for which full transcript information is unavailable. For sequences that have the same splice pattern as a whole RefSeq transcript, use the evidence term ECO:0000327 or a child.

Super-classes obo:ECO_0007825c
obo:ECO_0000328c

whole transcript splice pattern evidence used in automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000332
Description

This term is used by the NCBI Reference Sequences (RefSeq) in support of sequences that have the same splice pattern as a RefSeq transcript. If such full transcript information is not available, RefSeq reports sequences that match the splice pattern of a coding sequence (CDS) annotated on a RefSeq, supported by the evidence term ECO:0000328 or a child.

Super-classes obo:ECO_0007825c
obo:ECO_0000327c

sodium dodecyl sulfate polyacrylamide gel electrophoresis evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000333
Description

Electrophoretic mobility is a function of both the length and charge of a protein. The protein sample is linearized with sodium dodecyl sulfate (SDS), an anionic detergent. Typically, polypeptides bound with SDS possess an even distribution of charge per unit mass, and subsequent fractionation is by size.

Super-classes obo:ECO_0000337c
Sub-classes obo:ECO_0007770c
obo:ECO_0007689c
obo:ECO_0000112c

particle size and count assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000334
Description

An example of an instrument used to analyze particle sizes and counts is the Beckman Coulter® Z Series system.

Super-classes obo:ECO_0000002c
Sub-classes obo:ECO_0007146c
obo:ECO_0007250c

substance quantification evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000335
Description

Two examples of substance quantification assay are (i) measuring how much of a radiolabelled compound is taken up by a cell and (ii) measuring how much of a substrate is turned over by a given enzyme.

Super-classes obo:ECO_0000002c
Sub-classes obo:ECO_0007685c
obo:ECO_0007805c
obo:ECO_0007015c

competitive growth assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000336
Super-classes obo:ECO_0005007c
Restrictions obo:OBI_0000312op some obo:OBI_0000978c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b763c and obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b768c)
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b763c and obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b768c)
Sub-classes obo:ECO_0007251c
obo:ECO_0007147c

gel electrophoresis evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000337
Description

Molecules typically separated include DNA, RNA, or protein. The gel is typically made of agarose, polyacrylamide, or starch.

Super-classes obo:ECO_0000002c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b775c and obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b780c)
obo:IAO_0000136op some obo:OBI_0600051c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b775c and obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b780c)
Sub-classes obo:ECO_0001025c
obo:ECO_0000338c
obo:ECO_0001029c
obo:ECO_0005503c
obo:ECO_0007688c
obo:ECO_0007769c
obo:ECO_0000333c
obo:ECO_0000339c
obo:ECO_0006262c

pulsed-field gel electrophoresis evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000338
Super-classes obo:ECO_0000337c
Sub-classes obo:ECO_0007148c
obo:ECO_0007252c

two-dimensional agarose gel electrophoresis evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000339
Description

The first dimension gel is intentionally run at low voltage in low percentage agarose to separate DNA molecules in proportion to their mass. The second dimension is run at high voltage in a gel of higher agarose concentration in the presence of ethidium bromide so that the mobility of a non-linear molecule is drastically influenced by its shape.

Super-classes obo:ECO_0000337c
Sub-classes obo:ECO_0007149c
obo:ECO_0007253c

plasmid maintenance assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000340
Description

Loss per generation is determined by comparing colony numbers on selective and non-selective media.

Super-classes obo:ECO_0000006c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b792c and obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b787c)
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b792c and obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b787c)
obo:OBI_0000312op some obo:OBI_0000964c
obo:IAO_0000136op some obo:GO_0006276c
Sub-classes obo:ECO_0007254c
obo:ECO_0007150c

specific protein inhibition by antibody evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000341
Super-classes obo:ECO_0000020c
Sub-classes obo:ECO_0007151c
obo:ECO_0007255c

support of intron positions by RNA-sequencing alignment evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000342
Description

RNA-seq alignment intron location evidence is used by NCBI RefSeq (http://www.ncbi.nlm.nih.gov/refseq). Exon-exon boundaries (or intron locations) of a RefSeq transcript, as determined by aligning the transcript to a reference chromosome, are compared to intron locations supported by RNAseq data.

Super-classes obo:ECO_0000295c
Sub-classes obo:ECO_0000347c
obo:ECO_0006172c
obo:ECO_0000346c
obo:ECO_0000344c
obo:ECO_0000343c

full support of intron positions by RNA-sequencing alignment evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000343
Description

Full support entails that all exon pairs represented in the transcript are supported. For example, for a transcript containing five exons, if liver RNA-seq reads support all four introns but brain RNA-seq supports only three introns, then the liver data fully support the transcript exons whereas the brain data do not.

Super-classes obo:ECO_0000342c
Sub-classes obo:ECO_0000349c
obo:ECO_0000348c

partial support of intron positions by RNA-sequencing alignment evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000344
Description

Partial support can occur in two ways. First, one or more exon-exon pair (intron) is not supported by any RNA-seq sample included in the analysis. Second, no single RNA-seq sample provides support for all exon-exon pairs (introns) represented in a transcript, but all represented exons are supported by at least one sample.

Super-classes obo:ECO_0000342c
Sub-classes obo:ECO_0000350c
obo:ECO_0000351c

single exon transcript confirmation via alignment evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000345
Super-classes obo:ECO_0000200c
Sub-classes obo:ECO_0007256c
obo:ECO_0007152c

support of intron positions by RNA-sequencing alignment evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000346
Super-classes obo:ECO_0000342c
obo:ECO_0006068c
Sub-classes obo:ECO_0000351c
obo:ECO_0000349c
obo:ECO_0006174c

support of intron positions by RNA-sequencing alignment evidence used in automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000347
Super-classes obo:ECO_0000342c
obo:ECO_0006069c
Sub-classes obo:ECO_0000348c
obo:ECO_0006173c
obo:ECO_0000350c

full support of intron positions by RNA-sequencing alignment evidence used in automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000348
Super-classes obo:ECO_0000347c
obo:ECO_0000343c

full support of intron positions by RNA-sequencing alignment evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000349
Super-classes obo:ECO_0000343c
obo:ECO_0000346c

partial support of intron positions by RNA-sequencing alignment evidence used in automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000350
Super-classes obo:ECO_0000347c
obo:ECO_0000344c

partial support of intron positions by RNA-sequencing alignment evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000351
Super-classes obo:ECO_0000346c
obo:ECO_0000344c

evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000352
Super-classes obo:ECO_0000000c
Restrictions obo:ECO_9000000op some obo:ECO_0000218c
Sub-classes obo:ECO_0007751c
obo:ECO_0005610c
obo:ECO_0007668c
obo:ECO_0006056c
obo:ECO_0007746c
obo:ECO_0006155c
obo:ECO_0000244c
obo:ECO_0005542c
obo:ECO_0005547c
obo:ECO_0000252c
obo:ECO_0005543c
obo:ECO_0000269c
obo:ECO_0007747c

physical interaction evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000353
Super-classes obo:ECO_0000021c
obo:ECO_0000314c
Sub-classes obo:ECO_0001181c
obo:ECO_0006303c
obo:ECO_0006088c
obo:ECO_0006329c
obo:ECO_0001227c
obo:ECO_0001164c
obo:ECO_0001269c
obo:ECO_0001807c
obo:ECO_0006277c
obo:ECO_0006293c
obo:ECO_0001226c
obo:ECO_0006327c
obo:ECO_0006081c
obo:ECO_0006074c
obo:ECO_0006075c

gene neighbors evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000354
Super-classes obo:ECO_0000317c
obo:ECO_0000084c

phylogenetic distribution evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000355
Description

Example of use: "The presence of paired evaginated hemispheres and olfactory bulbs in both agnathan and gnathostome radiations suggests that such hemispheres were also present in the common ancestor." PMID: 7013637. Northcutt RG. (1981) Evolution of the telencephalon in nonmammals. Ann. Rev. Neurosci.

Super-classes obo:ECO_0000080c
Sub-classes obo:ECO_0007153c
obo:ECO_0007257c

differential geneset expression evidence from microarray experiment (GSEA, Fisher-exact)c # Classes

URI http://purl.obolibrary.org/obo/ECO_0000358
Super-classes obo:ECO_0000009c
Sub-classes obo:ECO_0007258c
obo:ECO_0007154c

differential geneset expression evidence from RNA-seq experiment (GSEA, Fisher-exact)c # Classes

URI http://purl.obolibrary.org/obo/ECO_0000359
Super-classes obo:ECO_0000009c
Sub-classes obo:ECO_0007155c
obo:ECO_0007259c

biological target-disease association via drug evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000360
Super-classes obo:ECO_0000006c
Sub-classes obo:ECO_0007156c
obo:ECO_0007260c

inferential evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000361
Description

Inference is the process of deriving logical conclusions from premises known or assumed to be true, or alternatively, arriving at conclusions via some non-logical means of observation of patterns of facts, which can result in identifying new meanings and contexts for understanding. Given the evidence provided by a set of premises, deductive reasoning involves drawing conclusions that necessarily follow, i.e. are certain, whereas inductive reasoning generates conclusions that are likely to be, but are not necessarily, true.

Super-classes obo:ECO_0000000c
Sub-classes obo:ECO_0006185c
obo:ECO_0000362c
obo:ECO_0000205c
obo:ECO_0007850c
obo:ECO_0007751c
obo:ECO_0007832c

computational inferencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0000362
Super-classes obo:ECO_0000361c
obo:ECO_0007672c
Sub-classes obo:ECO_0000363c
obo:ECO_0007631c

computational inference used in automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000363
Super-classes obo:ECO_0007669c
obo:ECO_0000362c
obo:ECO_0007832c
Sub-classes obo:ECO_0000364c
obo:ECO_0000366c

evidence based on logical inference from manual annotation used in automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000364
Super-classes obo:ECO_0000363c

evidence based on logical inference from automatic annotation used in automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000366
Super-classes obo:ECO_0000363c

evidence used in automatic assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0000501
Super-classes obo:ECO_0000000c
Restrictions obo:ECO_9000000op some obo:ECO_0000203c
Sub-classes obo:ECO_0000251c
obo:ECO_0007669c
obo:ECO_0007832c
obo:ECO_0006156c
obo:ECO_0007297c
obo:ECO_0007827c
obo:ECO_0000213c
obo:ECO_0006057c

3D cell culture evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001001
Super-classes obo:ECO_0005007c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b849c and obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b844c)
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b849c and obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b844c)
Sub-classes obo:ECO_0007335c
obo:ECO_0001138c

[3H]arachidonic acid release assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001002
Super-classes obo:ECO_0001565c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b857c)
obo:OBI_0000312op some obo:OBI_0000366c
obo:IAO_0000136op some obo:GO_0050482c
Sub-classes obo:ECO_0001142c
obo:ECO_0007339c

[3H]-thymidine incorporation assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001003
Super-classes obo:ECO_0005008c
Restrictions obo:OBI_0000312op some obo:OBI_0000669c
Sub-classes obo:ECO_0001141c
obo:ECO_0007338c

51Cr release assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001004
Super-classes obo:ECO_0005012c
Restrictions obo:OBI_0000312op some obo:OBI_9999994c
obo:IAO_0000136op some obo:GO_0001906c
Sub-classes obo:ECO_0001139c
obo:ECO_0007336c

7-aminoactinomycin staining evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001005
Super-classes obo:ECO_0005019c
Sub-classes obo:ECO_0001140c
obo:ECO_0007337c

adhesion assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001006
Super-classes obo:ECO_0001565c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b868c)
obo:IAO_0000136op some obo:GO_0060352c
obo:OBI_0000312op some obo:OBI_0000964c
Sub-classes obo:ECO_0007340c
obo:ECO_0001143c

adoptive cell transfer evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001007
Super-classes obo:ECO_0005502c
Restrictions obo:IAO_0000136op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b880c and obo:GO_0008150c and n61f022a426614b8f861c93ae78ea8986b874c)
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b880c and obo:GO_0008150c and n61f022a426614b8f861c93ae78ea8986b874c)
obo:OBI_0000312op some obo:OBI_0000978c
Sub-classes obo:ECO_0001144c
obo:ECO_0007341c

alamarBlue assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001008
Super-classes obo:ECO_0005004c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b886c)
obo:OBI_0000312op some obo:OBI_0000443c
Sub-classes obo:ECO_0007342c
obo:ECO_0001145c

allograft transplantation phenotypic evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001009
Super-classes obo:ECO_0000240c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b891c)
Sub-classes obo:ECO_0007343c
obo:ECO_0001146c

anion-exchange chromatography evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001010
Super-classes obo:ECO_0000325c
Sub-classes obo:ECO_0007344c
obo:ECO_0001147c

annexin-V staining evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001011
Super-classes obo:ECO_0005034c
Sub-classes obo:ECO_0001148c
obo:ECO_0007345c

cognitive assay phenotypic evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001012
Super-classes obo:ECO_0000059c
Sub-classes obo:ECO_0007346c
obo:ECO_0001149c

blocking monoclonal antibody evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001013
Super-classes obo:ECO_0000040c
Restrictions obo:OBI_0000312op some obo:OBI_0001593c
obo:IAO_0000136op some obo:OBI_0001702c
Sub-classes obo:ECO_0007347c
obo:ECO_0001150c

blocking peptide evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001014
Super-classes obo:ECO_0000040c
Restrictions obo:IAO_0000136op some obo:GO_0042605c
obo:OBI_0000312op some obo:OBI_0001593c
Sub-classes obo:ECO_0001151c
obo:ECO_0007349c

blocking polyclonal antibody evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001015
Super-classes obo:ECO_0000040c
Sub-classes obo:ECO_0007350c
obo:ECO_0001152c

blood test evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001016
Super-classes obo:ECO_0000002c
Restrictions obo:OBI_0000312op some (obo:OBI_0000443c and obo:OBI_0000630c and obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b900c)
obo:OBI_0000312op some (obo:OBI_0000443c and obo:OBI_0000630c and obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b900c)
Sub-classes obo:ECO_0007351c
obo:ECO_0001153c

Boyden chamber assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001017
Super-classes obo:ECO_0005021c
Restrictions obo:IAO_0000136op some obo:GO_0060326c
Sub-classes obo:ECO_0007352c
obo:ECO_0001154c

bromodeoxyuridine incorporation assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001018
Super-classes obo:ECO_0001107c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b915c)
obo:OBI_0000312op some obo:OBI_0000664c
Sub-classes obo:ECO_0001155c
obo:ECO_0007353c

caspase assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001019
Super-classes obo:ECO_0005034c
Sub-classes obo:ECO_0001156c
obo:ECO_0007355c

cell counting evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001020
Super-classes obo:ECO_0001565c
Restrictions obo:IAO_0000136op some obo:GO_0008283c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b926c)
obo:OBI_0000312op some obo:OBI_0000978c
Sub-classes obo:ECO_0007356c
obo:ECO_0001157c

cell permeability assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001021
Super-classes obo:ECO_0001565c
Restrictions obo:IAO_0000136op some obo:GO_0009987c
obo:OBI_0000312op some obo:OBI_0001977c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b934c)
Sub-classes obo:ECO_0001158c
obo:ECO_0007357c

carboxyfluorescein diacetate succinimidyl ester staining evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001022
Super-classes obo:ECO_0005019c
Sub-classes obo:ECO_0001159c
obo:ECO_0007358c

chemiluminescence-linked immunoassay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001023
Super-classes obo:ECO_0005517c
Sub-classes obo:ECO_0007359c
obo:ECO_0001160c

chimeric protein phenotypic evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001024
Super-classes obo:ECO_0000015c
Sub-classes obo:ECO_0001161c
obo:ECO_0007360c

co-electrophoresis evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001025
Super-classes obo:ECO_0000337c
Restrictions obo:IAO_0000136op some obo:GO_0005488c
obo:OBI_0000312op some (obo:OBI_0001146c and n61f022a426614b8f861c93ae78ea8986b949c and obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b941c)
obo:OBI_0000312op some (obo:OBI_0001146c and n61f022a426614b8f861c93ae78ea8986b949c and obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b941c)
Sub-classes obo:ECO_0001162c
obo:ECO_0007361c

co-localization evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001026
Super-classes obo:ECO_0000324c
Restrictions obo:IAO_0000136op some obo:GO_0033036c
Sub-classes obo:ECO_0007362c
obo:ECO_0001163c

colony counting evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001027
Super-classes obo:ECO_0000002c
Restrictions obo:OBI_0000312op some (obo:OBI_0000978c and n61f022a426614b8f861c93ae78ea8986b961c and obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b955c)
obo:OBI_0000312op some (obo:OBI_0000978c and n61f022a426614b8f861c93ae78ea8986b961c and obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b955c)
Sub-classes obo:ECO_0007365c
obo:ECO_0001165c

co-sedimentation assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001028
Super-classes obo:ECO_0000021c
Restrictions obo:OBI_0000312op some obo:OBI_0000288c
Sub-classes obo:ECO_0001164c
obo:ECO_0007364c

comet assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001029
Super-classes obo:ECO_0000337c
Restrictions obo:IAO_0000136op some obo:GO_0006974c
obo:OBI_0000312op some obo:OBI_0302736c
Sub-classes obo:ECO_0007366c
obo:ECO_0001166c

conditional knockout evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001030
Super-classes obo:ECO_0001091c
Sub-classes obo:ECO_0001168c
obo:ECO_0007369c

conditional knockin evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001031
Super-classes obo:ECO_0001090c
Sub-classes obo:ECO_0001167c
obo:ECO_0007367c

constitutively active mutant evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001032
Super-classes obo:ECO_0000059c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b973c and obo:GO_0009058c and obo:GO_0010467c)
obo:IAO_0000136op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b973c and obo:GO_0009058c and obo:GO_0010467c)
Sub-classes obo:ECO_0007371c
obo:ECO_0001169c

cross-linking evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001033
Super-classes obo:ECO_0000024c
Restrictions obo:OBI_0000312op some obo:OBI_0001591c
obo:IAO_0000136op some obo:GO_0005515c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b981c)
Sub-classes obo:ECO_0007372c
obo:ECO_0001170c

crystallography evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001034
Super-classes obo:ECO_0005031c
Sub-classes obo:ECO_0001823c
obo:ECO_0001171c
obo:ECO_0007374c

cytochemistry evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001035
Super-classes obo:ECO_0001050c
Sub-classes obo:ECO_0007375c
obo:ECO_0001130c
obo:ECO_0001172c

cytochrome C release assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001036
Super-classes obo:ECO_0005034c
Restrictions obo:OBI_0000312op some (obo:OBI_0000443c and obo:OBI_0001977c)
Sub-classes obo:ECO_0001173c
obo:ECO_0007377c

4',6-diamidino-2-phenylindole staining evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001037
Super-classes obo:ECO_0005019c
Sub-classes obo:ECO_0001174c
obo:ECO_0007378c

deletion mutation phenotypic evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001038
Description

As a child of 'experimental phenotypic evidence', this is not to be confused with the biological processes deletion mutation / deletion deficiency in which DNA is lost during DNA replication.

Super-classes obo:ECO_0000015c
Sub-classes obo:ECO_0007379c
obo:ECO_0001175c

DNA laddering assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001039
Super-classes obo:ECO_0005034c
Restrictions obo:IAO_0000136op some obo:GO_0006309c
Sub-classes obo:ECO_0001176c
obo:ECO_0007380c

RNA dot blot assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001040
Super-classes obo:ECO_0005518c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b991c and obo:OBI_0002171c and n61f022a426614b8f861c93ae78ea8986b996c)
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b991c and obo:OBI_0002171c and n61f022a426614b8f861c93ae78ea8986b996c)
Sub-classes obo:ECO_0007381c
obo:ECO_0001177c

dominant-negative mutant phenotypic evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001042
Super-classes obo:ECO_0000015c
Sub-classes obo:ECO_0007382c
obo:ECO_0001179c

Edman degradation evidence used in manual assertionc # Classes

URI http://purl.obolibrary.org/obo/ECO_0001043
Super-classes obo:ECO_0000269c
obo:ECO_0001044c

Edman degradation evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001044
Super-classes obo:ECO_0005517c
Sub-classes obo:ECO_0001043c
obo:ECO_0007334c

eTag assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001045
Super-classes obo:ECO_0000023c
Restrictions obo:OBI_0000312op some (obo:OBI_0000443c and n61f022a426614b8f861c93ae78ea8986b1006c)
obo:IAO_0000136op some obo:GO_0010467c
Sub-classes obo:ECO_0001180c
obo:ECO_0007383c

filter binding assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001046
Super-classes obo:ECO_0000021c
Restrictions obo:OBI_0000312op some (obo:OBI_0001591c and n61f022a426614b8f861c93ae78ea8986b1019c)
Sub-classes obo:ECO_0007385c
obo:ECO_0001181c

fluorescence in situ hybridization evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001047
Super-classes obo:ECO_0001534c
obo:ECO_0001836c
Restrictions obo:OBI_0000312op some obo:OBI_0001683c
obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b1026c)
obo:IAO_0000136op some obo:GO_0051276c
Sub-classes obo:ECO_0001182c
obo:ECO_0007386c

fluorescence resonance energy transfer evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001048
Super-classes obo:ECO_0006273c
Sub-classes obo:ECO_0007387c
obo:ECO_0001183c

gel-filtration evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001049
Super-classes obo:ECO_0000325c
Restrictions obo:OBI_0000312op some (obo:OBI_0001630c and n61f022a426614b8f861c93ae78ea8986b1036c)
Sub-classes obo:ECO_0001184c
obo:ECO_0007388c

histochemistry evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001050
Super-classes obo:ECO_0001051c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b1041c)
Sub-classes obo:ECO_0001035c
obo:ECO_0001185c
obo:ECO_0007376c

histology evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001051
Super-classes obo:ECO_0000324c
Restrictions obo:OBI_0000312op some obo:OBI_0600020c
obo:IAO_0000136op some obo:GO_0048532c
Sub-classes obo:ECO_0007389c
obo:ECO_0001187c
obo:ECO_0001050c

high-performance liquid chromatography evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001052
Super-classes obo:ECO_0000325c
Restrictions obo:OBI_0000312op some obo:OBI_0002116c
Sub-classes obo:ECO_0001272c
obo:ECO_0007472c

immunocytochemistry evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001053
Super-classes obo:ECO_0005517c
Sub-classes obo:ECO_0007390c
obo:ECO_0001186c

immunodepletion evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001054
Super-classes obo:ECO_0000040c
Sub-classes obo:ECO_0001188c
obo:ECO_0007391c

immunohistochemistry evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001055
Super-classes obo:ECO_0005517c
Sub-classes obo:ECO_0001189c
obo:ECO_0007392c

induced mutation evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001056
Description

This term was made obsolete for a couple of reasons: the def. doesn’t make sense as the suggested means of mutagenesis fail to introduce exogenous DNA (it is a child of genetic transformation evidence) and the def. is too much like random mutagenesis evidence.

in vitro acetylation assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001057
Super-classes obo:ECO_0001546c
Sub-classes obo:ECO_0001190c
obo:ECO_0007393c

in vitro cleavage assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001058
Super-classes obo:ECO_0001547c
Sub-classes obo:ECO_0007394c
obo:ECO_0001191c

in vitro deubiquitination assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001059
Super-classes obo:ECO_0001552c
Sub-classes obo:ECO_0001196c
obo:ECO_0007399c

in vitro deacetylation assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001060
Super-classes obo:ECO_0001548c
Sub-classes obo:ECO_0001192c
obo:ECO_0007395c

in vitro defarnesylation assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001061
Super-classes obo:ECO_0001549c
Sub-classes obo:ECO_0001193c
obo:ECO_0007396c

in vitro demethylation assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001062
Super-classes obo:ECO_0001550c
Sub-classes obo:ECO_0007397c
obo:ECO_0001194c

in vitro desumoylation assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001063
Super-classes obo:ECO_0001551c
Sub-classes obo:ECO_0007398c
obo:ECO_0001195c

in vitro farnesylation assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001064
Super-classes obo:ECO_0001553c
Sub-classes obo:ECO_0007400c
obo:ECO_0001197c

in vitro methylation assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001065
Super-classes obo:ECO_0001554c
Sub-classes obo:ECO_0000086c
obo:ECO_0001198c
obo:ECO_0007401c
obo:ECO_0000077c
obo:ECO_0000069c

in vitro palmitoylation assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001066
Super-classes obo:ECO_0001555c
Sub-classes obo:ECO_0007402c
obo:ECO_0001199c

in vitro phosphatase assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001067
Super-classes obo:ECO_0001556c
Sub-classes obo:ECO_0007403c
obo:ECO_0001200c

in vitro protein kinase assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001068
Super-classes obo:ECO_0001558c
Sub-classes obo:ECO_0001202c
obo:ECO_0007405c

in vitro polyADP-ribosylation assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001069
Super-classes obo:ECO_0001557c
Sub-classes obo:ECO_0001201c
obo:ECO_0007404c

in vitro sumoylation assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001070
Super-classes obo:ECO_0001559c
Sub-classes obo:ECO_0007406c
obo:ECO_0001203c

in vitro transcription assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001071
Super-classes obo:ECO_0000168c
Sub-classes obo:ECO_0007407c
obo:ECO_0001204c

in vitro translation assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001072
Super-classes obo:ECO_0001561c
Sub-classes obo:ECO_0001205c
obo:ECO_0007408c

in vitro ubiquitination assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001073
Super-classes obo:ECO_0001562c
Sub-classes obo:ECO_0001206c
obo:ECO_0007409c

in vivo acetylation assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001074
Super-classes obo:ECO_0001546c
Sub-classes obo:ECO_0007410c
obo:ECO_0001207c

in vivo cleavage assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001075
Super-classes obo:ECO_0001547c
Sub-classes obo:ECO_0001208c
obo:ECO_0007411c

in vivo deacetylation assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001076
Super-classes obo:ECO_0001548c
Sub-classes obo:ECO_0007412c
obo:ECO_0001209c

in vivo defarnesylation assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001077
Super-classes obo:ECO_0001549c
Sub-classes obo:ECO_0001210c
obo:ECO_0007413c

in vivo demethylation assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001078
Super-classes obo:ECO_0001550c
Sub-classes obo:ECO_0007414c
obo:ECO_0001211c

in vivo deubiquitination assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001079
Super-classes obo:ECO_0001552c
Sub-classes obo:ECO_0001213c
obo:ECO_0007416c

in vivo desumoylation assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001080
Super-classes obo:ECO_0001551c
Sub-classes obo:ECO_0007415c
obo:ECO_0001212c

in vivo farnesylation assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001081
Super-classes obo:ECO_0001553c
Sub-classes obo:ECO_0007417c
obo:ECO_0001214c

in vivo methylation assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001082
Super-classes obo:ECO_0001554c
Sub-classes obo:ECO_0001215c
obo:ECO_0007418c

in vivo palmitoylation assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001083
Super-classes obo:ECO_0001555c
Sub-classes obo:ECO_0001216c
obo:ECO_0007419c

in vivo phosphatase assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001084
Super-classes obo:ECO_0001556c
Sub-classes obo:ECO_0001217c
obo:ECO_0007420c

in vivo protein kinase assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001085
Super-classes obo:ECO_0001558c
Sub-classes obo:ECO_0001218c
obo:ECO_0007421c

in vivo sumoylation assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001086
Super-classes obo:ECO_0001559c
Sub-classes obo:ECO_0007422c
obo:ECO_0001219c

in vivo transcription assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001087
Super-classes obo:ECO_0000168c
Sub-classes obo:ECO_0007423c
obo:ECO_0001220c

in vivo translation assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001088
Super-classes obo:ECO_0001561c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070c and n61f022a426614b8f861c93ae78ea8986b1052c)
obo:OBI_0000312op some obo:OBI_0000966c
obo:IAO_0000136op some obo:GO_0006412c
Sub-classes obo:ECO_0007424c
obo:ECO_0001221c

in vivo ubiquitination assay evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001089
Super-classes obo:ECO_0001562c
Sub-classes obo:ECO_0001222c
obo:ECO_0007425c

knockin evidencec # Classes

URI http://purl.obolibrary.org/obo/ECO_0001090
Super-classes obo:ECO_0005027c
Restrictions obo:OBI_0000312op some (obo:OBI_0000070<