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What's New In SGD in 2010?

New Summary Paragraphs - March 8, 2010

• Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features: POB3/YML069W and SPT16/YGL207W .

GO Annotation Information - March 8, 2010

• During the past week, the GO annotations have been updated for the following features:

  List of Features with GO Annotations Updated During the Past Week
  ACB1/YGR037C	ARP5/YNL059C	BUG1/YDL099W	CSE4/YKL049C	FHL1/YPR104C
  GAT1/YFL021W	GAT2/YMR136W	GOT1/YMR292W	GPA1/YHR005C	GRH1/YDR517W
  HSE1/YHL002W	IES1/YFL013C	IES3/YLR052W	MCD1/YDL003W	MHR1/YDR296W
  MSG5/YNL053W	NHP10/YDL002C	NTG1/YAL015C	PLM2/YDR501W	POB3/YML069W
  PRP24/YMR268C	RAS2/YNL098C	SOD1/YJR104C	SPT16/YGL207W	TAF14/YPL129W
  TOS4/YLR183C	VPS27/YNR006W

New Summary Paragraphs - March 1, 2010

• Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features:

  List of Summary Paragraphs Added During the Past Week
  BDP1/YNL039W	BRF1/YGR246C	SPT15/YER148W	YDC1/YPL087W	YPC1/YBR183W

GO Annotation Information - March 1, 2010

• During the past week, the GO annotations have been updated for the following features:

  List of Features with GO Annotations Updated During the Past Week
  CWH41/YGL027C	ECO1/YFR027W	FAA1/YOR317W	FAA2/YER015W	FAA3/YIL009W
  FAA4/YMR246W	FAT1/YBR041W	FIN1/YDR130C	GAT1/YFL021W	GCN4/YEL009C
  GLC7/YER133W	GLN3/YER040W	GPA1/YHR005C	IXR1/YKL032C	MAP1/YLR244C
  MCD1/YDL003W	MSG5/YNL053W	OST5/YGL226C-A	PPS1/YBR276C	RCE1/YMR274C
  SCC2/YDR180W	SCC4/YER147C	SDP1/YIL113W	SMC1/YFL008W	SMC3/YJL074C
  STE24/YJR117W	TFC3/YAL001C

New Summary Paragraphs - February 15, 2010

• Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features:

  List of Summary Paragraphs Added During the Past Week
  CTT1/YGR088W	FAA1/YOR317W	FAA2/YER015W	FAA3/YIL009W	FAA4/YMR246W
  FAT1/YBR041W	FHL1/YPR104C	MDL1/YLR188W	MDL2/YPL270W

GO Annotation Information - February 15, 2010

• During the past week, the GO annotations have been updated for the following features:

  List of Features with GO Annotations Updated During the Past Week
  AVT6/YER119C	CCM1/YGR150C	CRF1/YDR223W	ELF1/YKL160W	FHL1/YPR104C
  FKH1/YIL131C	FKH2/YNL068C	HCM1/YCR065W	IFH1/YLR223C	MRT4/YKL009W
  NDD1/YOR372C	ROX1/YPR065W	RPP0/YLR340W	SCH9/YHR205W	SPP41/YDR464W
  STE12/YHR084W	TGL3/YMR313C	UGA3/YDL170W	VAC7/YNL054W	YDC1/YPL087W
  YPC1/YBR183W	YVH1/YIR026C	YGR251W

New Summary Paragraphs - February 8, 2010

• Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features:

  List of Summary Paragraphs Added During the Past Week
  REV1/YOR346W	REV3/YPL167C	REV7/YIL139C	RPB10/YOR210W	RPB11/YOL005C
  RPB2/YOR151C	RPB3/YIL021W	RPB4/YJL140W	RPB5/YBR154C	RPB7/YDR404C
  RPB8/YOR224C	RPB9/YGL070C	RPC10/YHR143W-A	RPO21/YDL140C	RPO26/YPR187W
  RSP5/YER125W

GO Annotation Information - February 8, 2010

• During the past week, the GO annotations have been updated for the following features:

  List of Features with GO Annotations Updated During the Past Week
  ADH4/YGL256W	CWP1/YKL096W	DAL80/YKR034W	DEM1/YBR163W	ECM31/YBR176W
  EHD3/YDR036C	FAA1/YOR317W	FAA2/YER015W	FAA3/YIL009W	FAA4/YMR246W
  FAT1/YBR041W	FHL1/YPR104C	FYV4/YHR059W	GLR1/YPL091W	GPD2/YOL059W
  GRX1/YCL035C	GUT1/YHL032C	IMD2/YHR216W	JID1/YPR061C	MDL1/YLR188W
  MDL2/YPL270W	MNL1/YHR204W	MRT4/YKL009W	MZM1/YDR493W	PAD1/YDR538W
  RAD23/YEL037C	RAD6/YGL058W	REV1/YOR346W	REV3/YPL167C	REV7/YIL139C
  ROX1/YPR065W	RPP0/YLR340W	SAN1/YDR143C	SEC7/YDR170C	TGL3/YMR313C
  TGL5/YOR081C	TOM71/YHR117W	TRX1/YLR043C	TRX2/YGR209C	UBR1/YGR184C
  YDC1/YPL087W	YEN1/YER041W	YPC1/YBR183W	YVH1/YIR026C	YLR281C
  YLR290C	YNL122C	tD(GUC)Q

New Summary Paragraphs - February 1, 2010

• Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features: FKH1/YIL131C and FKH2/YNL068C .

GO Annotation Information - February 1, 2010

• During the past week, the GO annotations have been updated for the following features:

  List of Features with GO Annotations Updated During the Past Week
  CAF4/YKR036C	DNM1/YLL001W	FIS1/YIL065C	FKH1/YIL131C	FKH2/YNL068C
  MDV1/YJL112W	PHO2/YDL106C	PHO4/YFR034C	PHO80/YOL001W	PHO81/YGR233C
  PHO85/YPL031C	RIM8/YGL045W	RPA12/YJR063W	RPA135/YPR010C	RPA14/YDR156W
  RPA190/YOR341W	RPA34/YJL148W	RPA43/YOR340C	RPA49/YNL248C	RPC19/YNL113W
  RPC40/YPR110C	RRN3/YKL125W	RRN5/YLR141W	RRN6/YBL014C	RRN7/YJL025W
  RRN9/YMR270C	SNC1/YAL030W	STP22/YCL008C	SYP1/YCR030C	TGL2/YDR058C
  TSA1/YML028W	VAC8/YEL013W	VPS1/YKR001C	YPT1/YFL038C	YVH1/YIR026C

SGD Quarterly Newsletter - January 29, 2010

• SGD sends out its quarterly newsletter to colleagues designated as contacts in SGD. An HTML version of the newsletter is available. If you would like to receive this letter in the future please use the Colleague Submission/Update form to let us know.

New Summary Paragraphs - January 25, 2010

• Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features: ALG9/YNL219C and RAD30/YDR419W .

GO Annotation Information - January 25, 2010

• During the past week, the GO annotations have been updated for the following features:

  List of Features with GO Annotations Updated During the Past Week
  DEM1/YBR163W	FKH1/YIL131C	FKH2/YNL068C	HMT1/YBR034C	NCR1/YPL006W
  RAD30/YDR419W	RPA12/YJR063W	RPA135/YPR010C	RPA190/YOR341W	RPA34/YJL148W
  RPA43/YOR340C	RPA49/YNL248C	RPB10/YOR210W	RPB11/YOL005C	RPB2/YOR151C
  RPB3/YIL021W	RPB5/YBR154C	RPB7/YDR404C	RPB8/YOR224C	RPB9/YGL070C
  RPC10/YHR143W-A	RPC19/YNL113W	RPC40/YPR110C	RPO21/YDL140C	RPO26/YPR187W
  VAC8/YEL013W	VPS74/YDR372C

New genetic interaction data file available for download from SGD - January 22, 2010

• A large set of genetic interaction data from Costanzo et al., The Genetic Landscape of a Cell, Science 327: 425-431 (2010) is available for download from SGD's Download Data Files page and will be available via the web interface in the future. This study presents 74,984 genetic interactions, comprising a functional map of the cell. Thanks to the authors for providing their data to SGD.

GO Annotation Information - January 18, 2010

• During the past week, the GO annotations have been updated for the following features:

  List of Features with GO Annotations Updated During the Past Week
  ARF3/YOR094W	ATG14/YBR128C	ATG16/YMR159C	CSI1/YMR025W	CSN9/YDR179C
  DCN1/YLR128W	EMI5/YOL071W	GPD1/YDL022W	GTS1/YGL181W	LAG2/YOL025W
  MLP1/YKR095W	PCI8/YIL071C	RPB10/YOR210W	RPB11/YOL005C	RPB2/YOR151C
  RPB3/YIL021W	RPB4/YJL140W	RPB5/YBR154C	RPB7/YDR404C	RPB8/YOR224C
  RPB9/YGL070C	RPC10/YHR143W-A	RPO21/YDL140C	RPO26/YPR187W	RRI1/YDL216C
  RRI2/YOL117W	YEL1/YBL060W

New Summary Paragraphs - January 11, 2010

• Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features:

  List of Summary Paragraphs Added During the Past Week
  SAR1/YPL218W	SEC12/YNR026C	SEC13/YLR208W	SEC16/YPL085W	SEC23/YPR181C
  SEC24/YIL109C	SEC31/YDL195W	SED4/YCR067C	SFB2/YNL049C	SFB3/YHR098C

GO Annotation Information - January 11, 2010

• During the past week, the GO annotations have been updated for the following features:

  List of Features with GO Annotations Updated During the Past Week
  AIM26/YKL037W	APQ12/YIL040W	ARO2/YGL148W	ATG1/YGL180W	ATG10/YLL042C
  ATG11/YPR049C	ATG12/YBR217W	ATG13/YPR185W	ATG16/YMR159C	ATG17/YLR423C
  ATG2/YNL242W	ATG20/YDL113C	ATG21/YPL100W	ATG29/YPL166W	ATG3/YNR007C
  ATG33/YLR356W	ATG4/YNL223W	ATG5/YPL149W	ATG7/YHR171W	ATG8/YBL078C
  ATG9/YDL149W	BRR6/YGL247W	CAB3/YKL088W	CBK1/YNL161W	CIS1/YDR022C
  DCI1/YOR180C	FPS1/YLL043W	GTS1/YGL181W	ICR1	LOS1/YKL205W
  MRE11/YMR224C	MSN5/YDR335W	PEX11/YOL147C	PWR1	RAD50/YNL250W
  RGT2/YDL138W	SAR1/YPL218W	SEC12/YNR026C	SEC23/YPR181C	SED4/YCR067C
  SFB2/YNL049C	SFB3/YHR098C	SIS2/YKR072C	SNF3/YDL194W	SNX4/YJL036W
  SSD1/YDR293C	TEF1/YPR080W	TEF2/YBR118W	TFC1/YBR123C	TFC3/YAL001C
  TFC4/YGR047C	TPA1/YER049W	VHS3/YOR054C	XRS2/YDR369C	YVC1/YOR087W
  ZDS1/YMR273C	ZDS2/YML109W	YPR146C

Sequence and Annotation Updates - January 8, 2010

• SGD curators periodically update the systematic sequence and its annotation. Information regarding changes can be found via the Summary of Chromosome Sequence and Annotation Updates and in the "Locus History" pages of affected features. Files on the SGD FTP site are updated weekly.

  Between 2010-01-04 and 2010-01-05, two new ncRNAs were annotated on Chromosome IX, the annotation of ORF DIA2/YOR080W was changed, and the sequence of Chromosome XIV was changed, affecting the annotation of ORF SAL1/YNL083W.

Changes to files available from SGD - January 8, 2010

• The following changes will be made to files available for download from SGD in February 2010:
  • All files available in http://downloads.yeastgenome.org/gene_registry/ will be obsoleted. This means that they will no longer be available to download.

  • The annotation_change.tab file will also be obsoleted. This means this file will no longer be available to download. For information regarding ORF qualifiers (Verified, Uncharacterized, Dubious), please use the already available SGD_features.tab file. Information regarding deleted or merged chromosomal features can be found in the new deleted_merged_features.tab file (described below).

  • A new file called deleted_merged_features.tab will be available from http://downloads.yeastgenome.org/chromosomal_feature/. This file will list chromosomal features that have been deleted or merged. The format of the file is identical to the annotation_change.tab file.

New Summary Paragraphs - January 4, 2010

• Summary Paragraphs summarize published biological information for a gene/feature, and are designed to familiarize both yeast and non-yeast researchers with the general facts and important subtleties regarding a locus. During the past week, new summary paragraphs have been added to their respective Locus Summary pages for the following features: HOG1/YLR113W .

GO Annotation Information - January 4, 2010

• During the past week, the GO annotations have been updated for the following features:

  List of Features with GO Annotations Updated During the Past Week
  DCI1/YOR180C	RGT2/YDL138W	SNF3/YDL194W	TPA1/YER049W	YVC1/YOR087W