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Platform GPL3737

Query DataSets for GPL3737

Status

Public on May 09, 2006

Title

Agilent-012713 Yeast Whole Genome ChIP-on-chip Microarray (G4486A)

Technology type

in situ oligonucleotide

Distribution

commercial

Organism

Saccharomyces cerevisiae

Manufacturer

Agilent Technologies

Manufacture protocol

see manufacturer's web site at http://www.agilent.com/

Catalog number

G4486A

Description

The Yeast Whole Genome ChIP-on-chip microarray is a high-resolution, high performance 60-mer oligonucleotide that allows the location analysis of DNA binding proteins over 85% (the non-repetitive portion) of 12MB of the yeast genome on a single chip. This chip offers genome-wide coverage and consists of 41,441 oligos (60mer); 14,256 from intergenic pathway, 27,175 from ORF pathway with an average prob spacing of approximately every 266 bp. Arrays with this part number have a design ID 12713.

Arrays of this design have barcodes that begin with 16012713 or 2512713.

Orientation:
Features are numbered numbered Left-to-Right, Top-to-Bottom as scanned by an Agilent scanner (barcode on the left, DNA on the back surface, scanned through the glass), matching the FeatureNum output from Agilent's Feature Extraction software.

The ID column represents the Agilent Feature Extraction feature number.

Rows and columns are numbered as scanned by an Axon Scanner (barcode on the bottom, DNA on the front surface).

To match data scanned on an Axon scanner, use the RefNumber column contained in the Agilent-provided GAL file as the ID_REF column in sample submissions.

Submission date

May 09, 2006

Last update date

Aug 16, 2006

Organization

Agilent Technologies

E-mail(s)

[email protected]

Phone

877-424-4536

URL

http://www.agilent.com

Department

Street address

City

Palo Alto

State/province

ZIP/Postal code

94304

Country

USA

Samples (119)

More...

GSM144450, GSM144451, GSM144452, GSM144453, GSM144454, GSM144455

Series (10)

More...

GSE6278	Global Mapping of Transposon Location
GSE6666	Ratios for G1 arrested cells (Agilent array)
GSE6670	Ratios for Htz1D cells (Agilent array)

Data table header descriptions
ID	Agilent feature number
COL	Column
ROW	Row
SPOT_ID	Spot identifier
CONTROL_TYPE	Control type
GENE_SYMBOL	Gene Symbol
ACCESSION_STRING	Accession String
CHROMOSOMAL_LOCATION	Chromosomal Location
DESCRIPTION	Description
GB_RANGE	Accession.Version[start..end] (based on October 2003 genome sequence)

Data table
ID	COL	ROW	SPOT_ID	CONTROL_TYPE	GENE_SYMBOL	ACCESSION_STRING	CHROMOSOMAL_LOCATION	DESCRIPTION	GB_RANGE
1	103	430	BrightCorner	pos
2	103	428	NegativeControl	neg
3	103	426	A_75_P0004040	FALSE	YCR023C	sgd\|YCR022C:-2135\|sgd\|YCR023C:-1018\|sgd\|YCR024C:1188	chr3:159522-159581	PROMOTER	NC_001135.2[159522..159581]
4	103	424	A_75_P0000162	FALSE	YAL044W-A	sgd\|YAL044W-A:36\|sgd\|YAL047C_SPC72/LDB4:-2565\|sgd\|YAL046C:-525\|sgd\|YAL045C:-66\|sgd\|YAL044C_GCV3:396\|sgd\|YAL043C_PTA1/FUN39:1141	chr1:57526-57585	INSIDE	NC_001133.3[57526..57585]
5	103	422	A_75_P0010556	FALSE	YER025W_GCD11/SUI4	sgd\|YER025W_GCD11/SUI4:535\|sgd\|YER024W_YAT2:3594\|sgd\|tH(GUG)E1:-1571\|sgd\|YER026C_CHO1/PSS1:1858	chr5:205756-205815	INSIDE	NC_001137.2[205756..205815]
6	103	420	A_75_P0005135	FALSE	YDL160C_DHH1-YDL159W-A	sgd\|YDL160C-A:-1846\|sgd\|YDL160C_DHH1:-802\|sgd\|YDL159W-A:-970\|sgd\|YDL159W_STE7:-1269\|sgd\|YDL159C-B:1844	chr4:171184-171243	DIVERGENT_PROMOTER	NC_001136.4[171184..171243]
7	103	418	Pro25G	pos
8	103	416	A_75_P0036352	FALSE	YOR144C_ELG1/RTT110-YOR146W	sgd\|YOR144C_ELG1/RTT110:-3022\|sgd\|YOR146W:-134\|sgd\|YOR145C_PNO1/RRP20:-392\|sgd\|YOR147W_MDM32:-775	chr15:605710-605769	DIVERGENT_PROMOTER	NC_001147.3[605710..605769]
9	103	414	A_75_P0036030	FALSE	YOR098C_NUP1	sgd\|YOR097C:-2082\|sgd\|YOR098C_NUP1:-1112	chr15:509031-509090	PROMOTER	NC_001147.3[509031..509090]
10	103	412	A_75_P0015994	FALSE	tG(GCC)G2	sgd\|YGR217W_CCH1:6432\|sgd\|tG(GCC)G2:-175\|sgd\|YGRCtau3:43\|sgd\|YGRWdelta32:-560\|sgd\|YGR218W_CRM1/XPO1/KAP124:-1413	chr7:931102-931161	PROMOTER	NC_001139.3[931102..931161]
11	103	410	E1A_r60_a20	pos
12	103	408	A_75_P0006050	FALSE	YDL018C_ERP3-YDL017W_CDC7/SAS1/LSD6	sgd\|YDL018C_ERP3:-1335\|sgd\|YDL017W_CDC7/SAS1/LSD6:-41\|sgd\|YDL016C:1402\|sgd\|YDL015C_TSC13:1834	chr4:424136-424195	DIVERGENT_PROMOTER	NC_001136.4[424136..424195]
13	103	406	A_75_P0025417	FALSE	YLR026C_SED5	sgd\|YLR025W_SNF7/VPS32/DID1:2239\|sgd\|YLR026C_SED5:-1241\|sgd\|YLR027C_AAT2/ASP5:138	chr12:196663-196722	PROMOTER	NC_001144.2[196663..196722]
14	103	404	Pro25G	pos
15	103	402	A_75_P0038737	FALSE	YPL176C-YPL175W_SPT14/GPI3/CWH6	sgd\|YPL176C:-2571\|sgd\|YPL175W_SPT14/GPI3/CWH6:-47\|sgd\|YPL174C_NIP100/PAC13:1584	chr16:218553-218612	DIVERGENT_PROMOTER	NC_001148.2[218553..218612]
16	103	400	A_75_P0039247	FALSE	YPL103C-YPL101W_ELP4/TOT7/HAP1	sgd\|YPL103C:-2169\|sgd\|YPL101W_ELP4/TOT7/HAP1:-40\|sgd\|YPL102C:-166\|sgd\|YPL100W_ATG21/HSV1/MAI1:-1703	chr16:360137-360196	DIVERGENT_PROMOTER	NC_001148.2[360137..360196]
17	103	398	A_75_P0024634	FALSE	YKR095W_MLP1/MPL1	sgd\|YKR095W_MLP1/MPL1:1097	chr11:620515-620574	INSIDE	NC_001143.3[620515..620574]
18	103	396	A_75_P0031131	FALSE	YMR268C_PRP24-YMR269W_YMR268W-A	sgd\|YMR267W_PPA2/IPP2:1975\|sgd\|YMR268C_PRP24:-859\|sgd\|YMR269W_YMR268W-A:-709\|sgd\|YMR270C_RRN9:1579	chr13:803717-803776	DIVERGENT_PROMOTER	NC_001145.1[803717..803776]
19	103	394	A_75_P0022881	FALSE	YKL165C-A	sgd\|YKL166C_TPK3:-3086\|sgd\|YKL165C-A:-1805\|sgd\|YKL165C_MCD4/FSR2/SSU21/ZRG16:337	chr11:137571-137630	PROMOTER	NC_001143.3[137571..137630]
20	103	392	A_75_P0015729	FALSE	YGR180C_RNR4/CRT3	sgd\|YGR179C_OKP1:-2809\|sgd\|YGR180C_RNR4/CRT3:-1220\|sgd\|tL(CAA)G3:894\|sgd\|YGR181W_TIM13:-1803	chr7:856460-856519	PROMOTER	NC_001139.3[856460..856519]

Total number of rows: 44290

Table truncated, full table size 7595 Kbytes.

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