This page displays GO annotations in different sections according to the annotation method used to add that annotation to SGD.

Last Reviewed on: 2012-02-10    Molecular Function | Biological Process | Cellular Component

Manually curated Molecular Function
Annotation(s)	Evidence	Reference(s)	Assigned By
RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription	IMP: Inferred from Mutant Phenotype Assigned on 2012-02-10 IPI: Inferred from Physical Interaction Assigned on 2012-02-10	Sidorova J and Breeden L  (1993) Analysis of the SWI4/SWI6 protein complex, which directs G1/S-specific transcription in Saccharomyces cerevisiae. Mol Cell Biol 13(2):1069-77	SGD
	IMP: Inferred from Mutant Phenotype Assigned on 2012-02-10 IPI: Inferred from Physical Interaction Assigned on 2012-02-10	Andrews BJ and Herskowitz I  (1989) Identification of a DNA binding factor involved in cell-cycle control of the yeast HO gene. Cell 57(1):21-9	SGD

Manually curated Biological Process
Annotation(s)	Evidence	Reference(s)	Assigned By
positive regulation of transcription from RNA polymerase II promoter in response to heat stress	IMP: Inferred from Mutant Phenotype Assigned on 2012-02-10	Kim KY and Levin DE  (2010) Transcriptional reporters for genes activated by cell wall stress through a non-catalytic mechanism involving Mpk1 and SBF. Yeast 27(8):541-8	SGD
positive regulation of transcription involved in G1/S phase of mitotic cell cycle	IMP: Inferred from Mutant Phenotype Assigned on 2012-02-10	Breeden L and Nasmyth K  (1987) Cell cycle control of the yeast HO gene: cis- and trans-acting regulators. Cell 48(3):389-97	SGD
	IMP: Inferred from Mutant Phenotype Assigned on 2012-02-10	Andrews BJ and Herskowitz I  (1989) Identification of a DNA binding factor involved in cell-cycle control of the yeast HO gene. Cell 57(1):21-9	SGD

Manually curated Cellular Component
Annotation(s)	Evidence	Reference(s)	Assigned By
nuclear chromatin	IDA: Inferred from Direct Assay Assigned on 2008-11-18	Horak CE, et al.  (2002) Complex transcriptional circuitry at the G1/S transition in Saccharomyces cerevisiae. Genes Dev 16(23):3017-33	SGD
SBF transcription complex	IMP: Inferred from Mutant Phenotype Assigned on 2008-05-20 IDA: Inferred from Direct Assay Assigned on 2008-05-20 IPI: Inferred from Physical Interaction with SGD:SWI6 Assigned on 2008-05-20	Sidorova J and Breeden L  (1993) Analysis of the SWI4/SWI6 protein complex, which directs G1/S-specific transcription in Saccharomyces cerevisiae. Mol Cell Biol 13(2):1069-77	SGD
	IPI: Inferred from Physical Interaction with SGD:SWI6 Assigned on 2008-05-22	Sedgwick SG, et al.  (1998) Structural and functional architecture of the yeast cell-cycle transcription factor swi6. J Mol Biol 281(5):763-75	SGD

* Manually curated GO annotations reflect our best understanding of the basic molecular function, biological process, and cellular component for this gene product. Manually curated annotations are assigned by SGD curators based on published papers when available, or by curatorial statements if necessary. Curators periodically review all Manually curated GO annotations for accuracy and completeness. The "Last Reviewed on:" date at the top of this section indicates when these annotations were last reviewed.

Molecular Function

High-throughput Molecular Function
Annotation(s)	Evidence	Reference(s)	Assigned By
sequence-specific DNA binding	IDA: Inferred from Direct Assay Assigned on 2009-02-05	Badis G, et al.  (2008) A library of yeast transcription factor motifs reveals a widespread function for Rsc3 in targeting nucleosome exclusion at promoters. Mol Cell 32(6):878-87	SGD

** GO annotations from High-throughput experiments are made based on a variety of large scale high-throughput experiments, including genome-wide experiments. Many of these annotations are made based on GO annotations (or mappings to GO annotations) assigned by the authors, rather than SGD curators. While SGD curators read these publications and often work closely with authors to incorporate the information, each individual annotation may not necessarily be reviewed by a curator. GO Annotations from high-throughput experiments will be assigned only when this type of data is available, and thus may not be assigned in all three aspects of the Gene Ontologies.

Molecular Function | Biological Process

Computational Molecular Function
Annotation(s)	Evidence	Reference(s)	Assigned By
DNA binding	IEA: Inferred from Electronic Annotation with EBI:IPR003163 Last updated 2013-03-02	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro
	IEA: Inferred from Electronic Annotation with EBI:KW-0238 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB
sequence-specific DNA binding transcription factor activity	IEA: Inferred from Electronic Annotation with EBI:IPR003163 Last updated 2013-03-02	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro

Computational Biological Process
Annotation(s)	Evidence	Reference(s)	Assigned By
regulation of transcription, DNA-dependent	IEA: Inferred from Electronic Annotation with EBI:IPR003163 Last updated 2013-03-02	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro
	IEA: Inferred from Electronic Annotation with EBI:KW-0805 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB
transcription, DNA-dependent	IEA: Inferred from Electronic Annotation with EBI:KW-0804 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB

*** Computational GO Annotations are predictions. These annotations are NOT reviewed by a curator. Currently, all computational GO annotations for S. cerevisiae are assigned by an external source (for example, the Gene Ontology Annotation (GOA) project of the European Bioinformatics Institute (EBI)).