GO term: DNA repair 
Ontology: Biological Process (GO:0006281)
Definition: The process of restoring DNA after damage. Genomes are subject to damage by chemical and physical agents in the environment (e.g. UV and ionizing radiations, chemical mutagens, fungal and bacterial toxins, etc.) and by free radicals or alkylating agents endogenously generated in metabolism. DNA is also damaged because of errors during its replication. A variety of different DNA repair pathways have been reported that include direct reversal, base excision repair, nucleotide excision repair, photoreactivation, bypass, double-strand break repair pathway, and mismatch repair pathway.
Definition: The process of restoring DNA after damage. Genomes are subject to damage by chemical and physical agents in the environment (e.g. UV and ionizing radiations, chemical mutagens, fungal and bacterial toxins, etc.) and by free radicals or alkylating agents endogenously generated in metabolism. DNA is also damaged because of errors during its replication. A variety of different DNA repair pathways have been reported that include direct reversal, base excision repair, nucleotide excision repair, photoreactivation, bypass, double-strand break repair pathway, and mismatch repair pathway.
This table lists the methods used to annotate genes either directly to the term
DNA repair (192 genes)
or to its variants containing one or more
qualifiers (0 genes). Note that some genes may have been annotated by more than one method so the numbers in the table below may not add up to the totals given here.
Links to Additional Annotations:
| Annotation Method | GO Term | # Yeast Genes Annotated |
|---|---|---|
| Manually curated (download data) | DNA repair | 71 |
| High-throughput (download data) | DNA repair | 2 |
| Computational (download data) | DNA repair | 171 |
Links to Additional Annotations:
Annotation details for genes that have been directly annotated to the term
DNA repair or its variants containing one or more
qualifiers (NOT, contributes to, or colocalizes with).
| DNA repair 192 genes directly annotated to this term |
||||
|---|---|---|---|---|
| Locus | Evidence | Annotation Method | Reference | Assigned By |
| ACT1/YFL039C | IDA: Inferred from Direct Assay Assigned on 2007-01-03 |
manually curated | Utley RT, et al. (2005) Regulation of NuA4 histone acetyltransferase activity in transcription and DNA repair by phosphorylation of histone H4. Mol Cell Biol 25(18):8179-90 |
SGD |
| APN1/YKL114C | IEA: Inferred from Electronic Annotation with EBI:IPR001719, EBI:IPR018246 Last Updated 2009-11-20 |
computational | DDB, et al. (2001) Gene Ontology annotation through association of InterPro records with GO terms. |
UniProtKB |
| IEA: Inferred from Electronic Annotation with EBI:KW-0234 Last Updated 2009-11-20 |
computational | GOA curators (2000) Gene Ontology annotation based on Swiss-Prot keyword mapping. |
UniProtKB | |
| RCA: Reviewed Computational Analysis Assigned on 2009-08-06 |
computational | Huttenhower C and Troyanskaya OG (2009) Prediction of Gene Ontology annotations by integrating high-throughput datasets |
bioPIXIE_MEFIT | |
| APN2/YBL019W | IEA: Inferred from Electronic Annotation with EBI:IPR004808, EBI:IPR020848 Last Updated 2009-11-20 |
computational | DDB, et al. (2001) Gene Ontology annotation through association of InterPro records with GO terms. |
UniProtKB |
| IEA: Inferred from Electronic Annotation with EBI:KW-0234 Last Updated 2009-11-20 |
computational | GOA curators (2000) Gene Ontology annotation based on Swiss-Prot keyword mapping. |
UniProtKB | |
| ARP4/YJL081C | IDA: Inferred from Direct Assay Assigned on 2007-01-03 |
manually curated | Bird AW, et al. (2002) Acetylation of histone H4 by Esa1 is required for DNA double-strand break repair. Nature 419(6905):411-5 |
SGD |
| IMP: Inferred from Mutant Phenotype Assigned on 2007-01-03 |
manually curated | Downs JA, et al. (2004) Binding of chromatin-modifying activities to phosphorylated histone H2A at DNA damage sites. Mol Cell 16(6):979-90 |
SGD | |
| IDA: Inferred from Direct Assay Assigned on 2007-01-03 |
manually curated | Utley RT, et al. (2005) Regulation of NuA4 histone acetyltransferase activity in transcription and DNA repair by phosphorylation of histone H4. Mol Cell Biol 25(18):8179-90 |
SGD | |
| IEA: Inferred from Electronic Annotation with EBI:KW-0234 Last Updated 2009-11-20 |
computational | GOA curators (2000) Gene Ontology annotation based on Swiss-Prot keyword mapping. |
UniProtKB | |
| ASF1/YJL115W | RCA: Reviewed Computational Analysis Assigned on 2009-08-06 |
computational | Huttenhower C and Troyanskaya OG (2009) Prediction of Gene Ontology annotations by integrating high-throughput datasets |
bioPIXIE_MEFIT |
| BDF1/YLR399C | IMP: Inferred from Mutant Phenotype Assigned on 2005-04-15 |
manually curated | Chua P and Roeder GS (1995) Bdf1, a yeast chromosomal protein required for sporulation. Mol Cell Biol 15(7):3685-96 |
SGD |
| IEA: Inferred from Electronic Annotation with EBI:KW-0234 Last Updated 2009-11-20 |
computational | GOA curators (2000) Gene Ontology annotation based on Swiss-Prot keyword mapping. |
UniProtKB | |
| BDF2/YDL070W | IEA: Inferred from Electronic Annotation with EBI:KW-0234 Last Updated 2009-11-20 |
computational | GOA curators (2000) Gene Ontology annotation based on Swiss-Prot keyword mapping. |
UniProtKB |
| CAC2/YML102W | IMP: Inferred from Mutant Phenotype Assigned on 2002-07-16 |
manually curated | Kaufman PD, et al. (1997) Ultraviolet radiation sensitivity and reduction of telomeric silencing in Saccharomyces cerevisiae cells lacking chromatin assembly factor-I. Genes Dev 11(3):345-57 |
SGD |
| CDC1/YDR182W | IMP: Inferred from Mutant Phenotype Assigned on 2003-09-17 |
manually curated | Halbrook J and Hoekstra MF (1994) Mutations in the Saccharomyces cerevisiae CDC1 gene affect double-strand-break-induced intrachromosomal recombination. Mol Cell Biol 14(12):8037-50 |
SGD |
| CDC45/YLR103C | RCA: Reviewed Computational Analysis Assigned on 2009-08-06 |
computational | Huttenhower C and Troyanskaya OG (2009) Prediction of Gene Ontology annotations by integrating high-throughput datasets |
bioPIXIE_MEFIT |
| CDC8/YJR057W | IMP: Inferred from Mutant Phenotype Assigned on 2001-01-18 |
manually curated | Baranowska H, et al. (1990) Role of the CDC8 gene in the repair of single strand breaks in DNA of the yeast Saccharomyces cerevisiae. Curr Genet 18(3):175-9 |
SGD |
| CDC9/YDL164C | IEA: Inferred from Electronic Annotation with EBI:IPR012308, EBI:IPR000977, EBI:IPR012309, EBI:IPR012310 Last Updated 2009-11-20 |
computational | DDB, et al. (2001) Gene Ontology annotation through association of InterPro records with GO terms. |
UniProtKB |
| IEA: Inferred from Electronic Annotation with EBI:KW-0234 Last Updated 2009-11-20 |
computational | GOA curators (2000) Gene Ontology annotation based on Swiss-Prot keyword mapping. |
UniProtKB | |
| CSM2/YIL132C | IEA: Inferred from Electronic Annotation with EBI:KW-0234 Last Updated 2009-11-20 |
computational | GOA curators (2000) Gene Ontology annotation based on Swiss-Prot keyword mapping. |
UniProtKB |
| CSM3/YMR048W | IGI: Inferred from Genetic Interaction with SGD:RAD9, IMP: Inferred from Mutant Phenotype Assigned on 2009-07-13 |
manually curated | Redon C, et al. (2006) Genetic analysis of Saccharomyces cerevisiae H2A serine 129 mutant suggests a functional relationship between H2A and the sister-chromatid cohesion partners Csm3-Tof1 for the repair of topoisomerase I-induced DNA damage. Genetics 172(1):67-76 |
SGD |
| IEA: Inferred from Electronic Annotation with EBI:KW-0234 Last Updated 2009-11-20 |
computational | GOA curators (2000) Gene Ontology annotation based on Swiss-Prot keyword mapping. |
UniProtKB | |
| CST9/YLR394W | IEA: Inferred from Electronic Annotation with EBI:KW-0234 Last Updated 2009-11-20 |
computational | GOA curators (2000) Gene Ontology annotation based on Swiss-Prot keyword mapping. |
UniProtKB |
| CTF18/YMR078C | RCA: Reviewed Computational Analysis Assigned on 2009-08-06 |
computational | Huttenhower C and Troyanskaya OG (2009) Prediction of Gene Ontology annotations by integrating high-throughput datasets |
bioPIXIE_MEFIT |
| CTF4/YPR135W | IGI: Inferred from Genetic Interaction, IMP: Inferred from Mutant Phenotype Assigned on 2001-01-18 |
manually curated | Miles J and Formosa T (1992) Evidence that POB1, a Saccharomyces cerevisiae protein that binds to DNA polymerase alpha, acts in DNA metabolism in vivo. Mol Cell Biol 12(12):5724-35 |
SGD |
| IGI: Inferred from Genetic Interaction, IMP: Inferred from Mutant Phenotype Assigned on 2001-01-18 |
manually curated | Kouprina N, et al. (1992) CTF4 (CHL15) mutants exhibit defective DNA metabolism in the yeast Saccharomyces cerevisiae. Mol Cell Biol 12(12):5736-47 |
SGD | |
| RCA: Reviewed Computational Analysis Assigned on 2009-08-06 |
computational | Huttenhower C and Troyanskaya OG (2009) Prediction of Gene Ontology annotations by integrating high-throughput datasets |
bioPIXIE_MEFIT | |
| CTF8/YHR191C | RCA: Reviewed Computational Analysis Assigned on 2009-08-06 |
computational | Huttenhower C and Troyanskaya OG (2009) Prediction of Gene Ontology annotations by integrating high-throughput datasets |
bioPIXIE_MEFIT |
| DDC1/YPL194W | IEA: Inferred from Electronic Annotation with EBI:IPR007268 Last Updated 2009-11-20 |
computational | DDB, et al. (2001) Gene Ontology annotation through association of InterPro records with GO terms. |
UniProtKB |
| IEA: Inferred from Electronic Annotation with EBI:KW-0234 Last Updated 2009-11-20 |
computational | GOA curators (2000) Gene Ontology annotation based on Swiss-Prot keyword mapping. |
UniProtKB | |
| DDR48/YMR173W | IDA: Inferred from Direct Assay, IMP: Inferred from Mutant Phenotype Assigned on 2001-01-18 |
manually curated | Treger JM and McEntee K (1990) Structure of the DNA damage-inducible gene DDR48 and evidence for its role in mutagenesis in Saccharomyces cerevisiae. Mol Cell Biol 10(6):3174-84 |
SGD |
| DIN7/YDR263C | IDA: Inferred from Direct Assay, ISS: Inferred from Sequence or structural Similarity Assigned on 2001-01-18 |
manually curated | Mieczkowski PA, et al. (1997) Characterization of a novel DNA damage-inducible gene of Saccharomyces cerevisiae, DIN7, which is a structural homolog of the RAD2 and RAD27 DNA repair genes. Mol Gen Genet 253(6):655-65 |
SGD |
| IEA: Inferred from Electronic Annotation with EBI:IPR006084, EBI:IPR006085, EBI:IPR006086 Last Updated 2009-11-20 |
computational | DDB, et al. (2001) Gene Ontology annotation through association of InterPro records with GO terms. |
UniProtKB | |
| IEA: Inferred from Electronic Annotation with EBI:KW-0234 Last Updated 2009-11-20 |
computational | GOA curators (2000) Gene Ontology annotation based on Swiss-Prot keyword mapping. |
UniProtKB | |
| DNA2/YHR164C | IGI: Inferred from Genetic Interaction, IMP: Inferred from Mutant Phenotype Assigned on 2001-01-18 |
manually curated | Formosa T and Nittis T (1999) Dna2 mutants reveal interactions with Dna polymerase alpha and Ctf4, a Pol alpha accessory factor, and show that full Dna2 helicase activity is not essential for growth. Genetics 151(4):1459-70 |
SGD |
| DNL4/YOR005C | IEA: Inferred from Electronic Annotation with EBI:IPR012308, EBI:IPR000977, EBI:IPR012310 Last Updated 2009-11-20 |
computational | DDB, et al. (2001) Gene Ontology annotation through association of InterPro records with GO terms. |
UniProtKB |
| IEA: Inferred from Electronic Annotation with EBI:KW-0234 Last Updated 2009-11-20 |
computational | GOA curators (2000) Gene Ontology annotation based on Swiss-Prot keyword mapping. |
UniProtKB | |
| DUN1/YDL101C | RCA: Reviewed Computational Analysis Assigned on 2009-09-03 |
computational | Tian W, et al. (2008) Combining guilt-by-association and guilt-by-profiling to predict Saccharomyces cerevisiae gene function. Genome Biol 9 Suppl 1:S7 |
YeastFunc |
| EAF1/YDR359C | IDA: Inferred from Direct Assay Assigned on 2007-01-03 |
manually curated | Utley RT, et al. (2005) Regulation of NuA4 histone acetyltransferase activity in transcription and DNA repair by phosphorylation of histone H4. Mol Cell Biol 25(18):8179-90 |
SGD |
| IEA: Inferred from Electronic Annotation with EBI:KW-0234 Last Updated 2009-11-20 |
computational | GOA curators (2000) Gene Ontology annotation based on Swiss-Prot keyword mapping. |
UniProtKB | |
| EAF3/YPR023C | IDA: Inferred from Direct Assay Assigned on 2007-01-03 |
manually curated | Utley RT, et al. (2005) Regulation of NuA4 histone acetyltransferase activity in transcription and DNA repair by phosphorylation of histone H4. Mol Cell Biol 25(18):8179-90 |
SGD |
| IEA: Inferred from Electronic Annotation with EBI:KW-0234 Last Updated 2009-11-20 |
computational | GOA curators (2000) Gene Ontology annotation based on Swiss-Prot keyword mapping. |
UniProtKB | |
| EAF5/YEL018W | IDA: Inferred from Direct Assay Assigned on 2007-01-03 |
manually curated | Utley RT, et al. (2005) Regulation of NuA4 histone acetyltransferase activity in transcription and DNA repair by phosphorylation of histone H4. Mol Cell Biol 25(18):8179-90 |
SGD |
| IEA: Inferred from Electronic Annotation with EBI:KW-0234 Last Updated 2009-11-20 |
computational | GOA curators (2000) Gene Ontology annotation based on Swiss-Prot keyword mapping. |
UniProtKB | |
| EAF6/YJR082C | IDA: Inferred from Direct Assay Assigned on 2007-01-03 |
manually curated | Utley RT, et al. (2005) Regulation of NuA4 histone acetyltransferase activity in transcription and DNA repair by phosphorylation of histone H4. Mol Cell Biol 25(18):8179-90 |
SGD |
| IEA: Inferred from Electronic Annotation with EBI:KW-0234 Last Updated 2009-11-20 |
computational | GOA curators (2000) Gene Ontology annotation based on Swiss-Prot keyword mapping. |
UniProtKB | |
| EAF7/YNL136W | IPI: Inferred from Physical Interaction with SGD:ESA1 Assigned on 2007-01-03 |
manually curated | Krogan NJ, et al. (2004) Regulation of chromosome stability by the histone H2A variant Htz1, the Swr1 chromatin remodeling complex, and the histone acetyltransferase NuA4. Proc Natl Acad Sci U S A 101(37):13513-8 |
SGD |
| IDA: Inferred from Direct Assay Assigned on 2007-01-03 |
manually curated | Utley RT, et al. (2005) Regulation of NuA4 histone acetyltransferase activity in transcription and DNA repair by phosphorylation of histone H4. Mol Cell Biol 25(18):8179-90 |
SGD | |
| IEA: Inferred from Electronic Annotation with EBI:KW-0234 Last Updated 2009-11-20 |
computational | GOA curators (2000) Gene Ontology annotation based on Swiss-Prot keyword mapping. |
UniProtKB | |
| ECO1/YFR027W | IDA: Inferred from Direct Assay Assigned on 2002-12-03 |
manually curated | Sjogren C and Nasmyth K (2001) Sister chromatid cohesion is required for postreplicative double-strand break repair in Saccharomyces cerevisiae. Curr Biol 11(12):991-5 |
SGD |
| IEA: Inferred from Electronic Annotation with EBI:IPR001126 Last Updated 2009-11-20 |
computational | DDB, et al. (2001) Gene Ontology annotation through association of InterPro records with GO terms. |
UniProtKB | |
This diagram shows the local area of the Gene Ontology and the numbers of yeast genes annotated to each term in the diagram. Within the diagram, click on the blue arrow to navigate up the tree and click on a GO term name to go to its GO term page.
View term lineage as a textual display using
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