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Platform GPL1908 Query DataSets for GPL1908
Status Public on Mar 18, 2005
Title FHCRC Fly 12K v1.0
Technology type spotted DNA/cDNA
Distribution non-commercial
Organism Drosophila melanogaster
 
Description 12,144 feature Drosophila cDNA array representing clones which have been obtained in large part from the following three main collections: 1) BDGP DGCr1 2) BDGP DGCr2 3) Northwest Drosophila Microarray Consortium Members ("consortium") Representation on the array from these three sources breaks down as follows: DGCr1: 5,930 clones; ~ 48.8% DGCr2: 5,928 clones, ~48.8% consortium: 127, ~1.0% with a remaining 160 features (~1.3%) serving as controls, comprised of 4 arabidopsis genes (Cab, NAC1, PRKase, and RUBISCO) to serve as negative controls as well as fly genomic DNA to serve as a positive control, all spotted on each of the 32 blocks of the array.
 
Submission date Mar 14, 2005
Last update date May 26, 2005
Contact name Ryan Basom
Organization name Fred Hutchinson Cancer Research Center
Lab Genomics and Bioinformatics Shared Resources
Street address 1100 Fairview Ave N
City Seattle
State/province WA
ZIP/Postal code 98109
Country USA
 
Samples (190) GSM66782, GSM66785, GSM66787, GSM66788, GSM101971, GSM101972 
Series (18)
GSE3031 Genome-scale profiling of histone H3.3 replacement patterns in Drosophila S2 cells
GSE4564 Genome-wide profiling of PRC1 and PRC2 Polycomb chromatin binding in Drosophila
GSE5089 Characterization of the Drosophila genome at the nuclear lamina

Data table header descriptions
ID
Source Clone Id an identifier for the corresponding clone, issued by the clone's source
Source a designation of the group or institution that provided the clone represented by this feature
Clone Size estimated size of the probe sequence
BLAT/BLAST Match Results comments regarding BLAT or MEGABLAST match results
Chromosome Containing Match Target chromosome containing a single-copy locus that matches the probe sequence
Target Start Location left coordinate of genomic region matching by BLAT or MEGABLAST to the probe sequence
Target End Location right coordinate of genomic region matching by BLAT or MEGABLAST to the probe sequence
Target Size target end location minus target start location
FlyBase Web Query Results summary description of the results of the BLAT or MEGABLAST query with this probe
Gene gene name of gene matching the probe according to FlyBase
Orientation orientation of gene matching the probe
CG ID CG name of gene matching the probe, according to BDGP
CLONE_ID
5' Accession GenBank accession number for 5' sequence of probe
3' Accession GenBank accession number for 3' sequence of probe
Complete Accession GenBank accession number for complete contig of probe
Vector vector used to clone probe, according to BDGP
Annotation whether annotation compiled for this probe was done by the NCI or FHCRC group
Comments an additional remark pertaining to data in the row
GB_LIST
SPOT_ID

Data table
ID Source Clone Id Source Clone Size BLAT/BLAST Match Results Chromosome Containing Match Target Target Start Location Target End Location Target Size FlyBase Web Query Results Gene Orientation CG ID CLONE_ID 5' Accession 3' Accession Complete Accession Vector Annotation Comments GB_LIST SPOT_ID
ac consortium NCI NO INFORMATION
AT01046 AT01046 DGCr2 2548 unique X 20603384 20605974 2590 unique listing at FlyBase CG11227 - CG11227 FBgn0031139 BF492540 BF492539 AY113190 pOTB7 FHCRC BF492540,BF492539
AT01047 AT01047 DGCr2 609 unique 3R 13550171 13550763 592 unique listing at FlyBase CG12334 - CG12334 FBgn0038539 BF492542 BF492541 AY069026 pOTB7 FHCRC BF492542,BF492541
AT01254 AT01254 DGCr2 sequence not available FlyBase query found listings on more than one chromosome; gene(s) found: lqf, Mst98Cb NA BF492876 BF492875 NA pOTB7 FHCRC BF492876,BF492875
AT01267 AT01267 DGCr2 1566 unique 3R 20095950 20097957 2007 unique listing at FlyBase CG13611 + CG13611 FBgn0039177 BF492900 NA AY122061 pOTB7 FHCRC BF492900
AT01314 AT01314 DGCr2 sequence not available unique listing at FlyBase CG13203 + CG13203 FBgn0033628 BF493034 BF493033 NA pOTB7 FHCRC BF493034,BF493033
AT01333 AT01333 DGCr2 sequence not available no listings found by FlyBase query NA BF493067 BF493066 NA pOTB7 FHCRC BF493067,BF493066
AT01351 AT01351 DGCr2 sequence not available no listings found by FlyBase query NA BF492958 CK130283 NA pOTB7 FHCRC BF492958,CK130283
AT01380 AT01380 DGCr2 1615 unique 2R 9821631 9823328 1697 unique listing at FlyBase CG12857 - CG12857 FBgn0033963 BF493010 BF493009 AY113191 pOTB7 FHCRC BF493010,BF493009
AT01380_ReAmp AT01380 DGCr2 1615 unique 2R 9821631 9823328 1697 unique listing at FlyBase CG12857 - CG12857 FBgn0033963 BF493010 BF493009 AY113191 pOTB7 FHCRC BF493010,BF493009
AT01386 AT01386 DGCr2 2714 no match FlyBase query found listings on more than one chromosome; gene(s) found: CG2750, CG33340 NA BF493094 BF493093 BT003655 pOTB7 FHCRC BF493094,BF493093
AT01413 AT01413 DGCr2 2720 unique 3R 18524160 18526921 2761 unique listing at FlyBase CG4907 - CG4907 FBgn0039010 BF493117 CK130284 AY094627 pOTB7 FHCRC BF493117,CK130284
AT01448 AT01448 DGCr2 1891 unique 3R 11057950 11060087 2137 unique listing at FlyBase atm - CG6535 FBgn0038308 BF493151 AY113192 NA pOTB7 FHCRC BF493151,AY113192
AT01479 AT01479 DGCr2 1416 unique 3R 10577987 10579334 1347 more than one gene found on chromosome 3R by FlyBase query CG7362 | CG3563 CG7362,CG3563 FBgn0038258,FBgn0038259 BF493179 NA AY118451 pOTB7 FHCRC BF493179
AT01495 AT01495 DGCr2 1633 unique X 15318746 15320380 1634 more than one gene found on chromosome X by FlyBase query CG9220 | CG8105 CG9220,CG8105 FBgn0030662,FBgn0030661 BF493193 CK130287 AY075158 pOTB7 FHCRC BF493193,CK130287
AT01533 AT01533 DGCr2 2708 unique 2L 10957546 10962684 5138 unique listing at FlyBase CG33129 - CG33129 FBgn0053129 BF493220 NA BT003656 pOTB7 FHCRC BF493220
AT01547 AT01547 DGCr2 2745 unique 3L 7542982 7545945 2963 unique listing at FlyBase CG14838 + CG14838 FBgn0035799 BF493232 CK130289 BT011170 pOTB7 FHCRC BF493232,CK130289
AT01605 AT01605 DGCr2 1680 unique 3R 6535324 6536988 1664 unique listing at FlyBase CG14689 - CG14689 FBgn0037826 BF493283 CK130290 AY118667 pOTB7 FHCRC BF493283,CK130290
AT01616 AT01616 DGCr2 1917 unique 3L 19904652 19906612 1960 more than one gene found on chromosome 3L by FlyBase query CG17736 | CG32220 CG17736,CG32220 FBgn0036925,FBgn0052220 BF493291 CK130291 AY118668 pOTB7 FHCRC BF493291,CK130291
AT01633 AT01633 DGCr2 1466 unique 3L 15442620 15446934 4314 more than one gene found on chromosome 3L by FlyBase query CG12355 | CG13455 CG12355,CG13455 FBgn0040805,FBgn0036498 BF493308 CK130293 AY089215 pOTB7 FHCRC BF493308,CK130293

Total number of rows: 12144

Table truncated, full table size 1907 Kbytes.






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