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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
GSM101973 ,
GSM101974 ,
GSM101979 ,
GSM101980 ,
GSM101981 ,
GSM101982 ,
GSM101983 ,
GSM101984 ,
GSM101985 ,
GSM101986 ,
GSM101987 ,
GSM101988 ,
GSM101989 ,
GSM101990 ,
GSM101991 ,
GSM101992 ,
GSM101993 ,
GSM101994 ,
GSM101995 ,
GSM114799 ,
GSM114800 ,
GSM114802 ,
GSM114803 ,
GSM114804 ,
GSM114805 ,
GSM114806 ,
GSM114807 ,
GSM114812 ,
GSM114813 ,
GSM114814 ,
GSM114815 ,
GSM114816 ,
GSM114817 ,
GSM114818 ,
GSM114819 ,
GSM114820 ,
GSM114821 ,
GSM114822 ,
GSM114823 ,
GSM114824 ,
GSM114825 ,
GSM114826 ,
GSM114827 ,
GSM114828 ,
GSM114829 ,
GSM114830 ,
GSM114831 ,
GSM114832 ,
GSM114833 ,
GSM114835 ,
GSM114836 ,
GSM114837 ,
GSM114838 ,
GSM114839 ,
GSM147897 ,
GSM147898 ,
GSM147899 ,
GSM147900 ,
GSM147901 ,
GSM147902 ,
GSM147903 ,
GSM147904 ,
GSM147905 ,
GSM147906 ,
GSM147907 ,
GSM147908 ,
GSM147909 ,
GSM147910 ,
GSM147911 ,
GSM147912 ,
GSM147913 ,
GSM147914 ,
GSM147915 ,
GSM147916 ,
GSM147917 ,
GSM147918 ,
GSM147919 ,
GSM147920 ,
GSM147921 ,
GSM147922 ,
GSM147923 ,
GSM147924 ,
GSM147925 ,
GSM147926 ,
GSM147927 ,
GSM147928 ,
GSM147929 ,
GSM147930 ,
GSM147931 ,
GSM245908 ,
GSM245909 ,
GSM245928 ,
GSM245929 ,
GSM245930 ,
GSM245931 ,
GSM257278 ,
GSM257279 ,
GSM257280 ,
GSM257281 ,
GSM257282 ,
GSM257283 ,
GSM257284 ,
GSM257285 ,
GSM257286 ,
GSM257287 ,
GSM257288 ,
GSM257289 ,
GSM257290 ,
GSM257291 ,
GSM257292 ,
GSM257293 ,
GSM257294 ,
GSM257295 ,
GSM257296 ,
GSM257297 ,
GSM257298 ,
GSM257299 ,
GSM257300 ,
GSM257301 ,
GSM257302 ,
GSM257303 ,
GSM257304 ,
GSM257305 ,
GSM257306 ,
GSM257307 ,
GSM257308 ,
GSM257309 ,
GSM257310 ,
GSM257311 ,
GSM257312 ,
GSM257313 ,
GSM257314 ,
GSM257315 ,
GSM257316 ,
GSM257317 ,
GSM257318 ,
GSM257319 ,
GSM257320 ,
GSM257675 ,
GSM257800 ,
GSM257802 ,
GSM257803 ,
GSM257804 ,
GSM257808 ,
GSM397253 ,
GSM397254 ,
GSM397255 ,
GSM397256 ,
GSM397257 ,
GSM397258 ,
GSM397259 ,
GSM397260 ,
GSM397261 ,
GSM397262 ,
GSM397263 ,
GSM397264 ,
GSM397265 ,
GSM397266 ,
GSM397267 ,
GSM478015 ,
GSM478289 ,
GSM478290 ,
GSM478291 ,
GSM842130 ,
GSM842131 ,
GSM842132 ,
GSM842133 ,
GSM842134 ,
GSM842135 ,
GSM842136 ,
GSM842137 ,
GSM842138 ,
GSM842139 ,
GSM842140 ,
GSM842141 ,
GSM842142 ,
GSM842143 ,
GSM969920 ,
GSM969921 ,
GSM969922 ,
GSM969923 ,
GSM969924 ,
GSM969925 ,
GSM969926
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
GSE6411
HP1 controls genomic targeting of four novel heterochromatin proteins in Drosophila
GSE9729
Gene expression profiling of dMyc null Drosophila larvae
GSE10207
wounded versus nonwounded drosophila embryos
GSE10208
hemocyte minus versus hemocyte plus drosophila embryos
GSE10209
wounded vs unwounded hemocyte deficient embryos
GSE10219
Global chromatin domain organization of the Drosophila genome
GSE10225
Expression study of 'hemocyte minus vs hemocyte plus, and wounded vs unwounded hemocyte deficient' drosophila embryos
GSE15807
The network of targeting interactions in chromatin
GSE19307
Functional interaction of chromatin with nucleoporins in Drosophila
GSE34121
A genome-wide analysis reveals that the Drosophila transcription factor, Lola, promotes axon growth in part by suppressing expression of the actin nucleation factor, Spire (allele lola_ORE76)
GSE34122
A genome-wide analysis reveals that the Drosophila transcription factor, Lola, promotes axon growth in part by suppressing expression of the actin nucleation factor, Spire (allele lola_ORC4)
GSE34123
A genome-wide analysis reveals that the Drosophila transcription factor, Lola, promotes axon growth in part by suppressing expression of the actin nucleation factor, Spire
GSE39481
Laser wounded vs unwounded syncytium Drosophila embryos
GSE39482
30 minutes post-laser wounded vs unwounded syncytium Drosophila embryos
GSE39483
Laser wounded vs unwounded syncytium Drosophila embryos study
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 .
Supplementary data files not provided