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Series GSE17600 Query DataSets for GSE17600
Status Public on Aug 13, 2009
Title Transcriptional termini of genes on chromosomes 21-22 (RACE mapping)
Project ENCODE
Organism(s) Homo sapiens
Experiment type Expression profiling by genome tiling array
Summary The purpose of these experiments was to determine the 5' and 3' transcriptional termini of genes on chromosomes 21-22. Towards this end, we first carried out 5’ and 3’ RACE reactions from 1193 exons from 492 genes in these chromosomes using RNA isolated from 11 normal tissues and 5 cell lines. An average of 3 to 4 RACE reactions (5’ and 3’) was carried out from each gene. The products of the RACE reactions were analyzed by hybridization to tiling arrays interrogating the non-repeat portions of these chromosomes at 17 nucleotide resolution. A total of 26,688 RACE reactions were performed and pooled to be placed on to 1020 tiling arrays

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf
 
Overall design polyA+ RNAs from 11 tissues (Brain Frontal Lobe, Brain Hippocampus, Brain Hypothalamus, Cerebellum, Ovary, Placenta, Prostate, Testis, Fetal Kidney, Fetal Spleen, Fetal Thymus; all from BD Clontech) and 5 cell lines (GM06990, HeLaS3, HepG2, K562, tert-BJ) using the BD SMARTTM RACE cDNA amplification kit (BD Clontech Cat. No.634914). A single array with no relplicas was run for each sample with a pool of ~23-24 RACE reactions per sample.
Web Link http://www.ncbi.nlm.nih.gov/projects/geo/info/ENCODE.html
 
Contributor(s) Gingeras T, Zaleski C
Submission date Aug 11, 2009
Contact name Chris Zaleski
Organization name Cold Spring Harbor Labs
Lab Gingeras
Street address 500 Sunnyside Blvd
City Woodbury
State/province NY
ZIP/Postal code 11797
Country USA
 
Platforms (1)
GPL5715 AFFYMETRIX Human Chromosomes 21 & 22 v2.0
Samples (1020)
GSM438370 Brain Cerebellum Pool_1
GSM438371 Brain Cerebellum Pool_2
GSM438372 Brain Cerebellum Pool_3

Download family Format
SOFT formatted family file(s) SOFT
MINiML formatted family file(s) MINiML
Series Matrix File(s) TXT

Supplementary file Size Download File type/resource
GSE17600_BrCereb_cel.tar.gz 3.0 Gb (ftp)(http) TAR (of CEL, TXT)
GSE17600_BrCereb_txt.tar.gz 942.5 Mb (ftp)(http) TAR (of CEL, TXT)
GSE17600_Fetal_cel.tar.gz 3.2 Gb (ftp)(http) TAR (of CEL, TXT)
GSE17600_Fetal_txt.tar.gz 987.3 Mb (ftp)(http) TAR (of CEL, TXT)
GSE17600_GM06990_cel.tar.gz 3.0 Gb (ftp)(http) TAR (of CEL, TXT)
GSE17600_GM06990_txt.tar.gz 940.1 Mb (ftp)(http) TAR (of CEL, TXT)
GSE17600_HeLaS3_cel.tar.gz 3.0 Gb (ftp)(http) TAR (of CEL, TXT)
GSE17600_HeLaS3_txt.tar.gz 942.5 Mb (ftp)(http) TAR (of CEL, TXT)
GSE17600_HepG2_cel.tar.gz 3.0 Gb (ftp)(http) TAR (of CEL, TXT)
GSE17600_HepG2_txt.tar.gz 928.5 Mb (ftp)(http) TAR (of CEL, TXT)
GSE17600_Hippo_FrntLobe_Hypo_cel.tar.gz 3.2 Gb (ftp)(http) TAR (of CEL, TXT)
GSE17600_Hippo_FrntLobe_Hypo_txt.tar.gz 977.4 Mb (ftp)(http) TAR (of CEL, TXT)
GSE17600_K562_cel.tar.gz 3.0 Gb (ftp)(http) TAR (of CEL, TXT)
GSE17600_K562_txt.tar.gz 934.6 Mb (ftp)(http) TAR (of CEL, TXT)
GSE17600_Ovary_Placenta_cel.tar.gz 3.2 Gb (ftp)(http) TAR (of CEL, TXT)
GSE17600_Ovary_Placenta_txt.tar.gz 968.4 Mb (ftp)(http) TAR (of CEL, TXT)
GSE17600_RAW.tar 40.1 Gb (ftp)(http) TAR (of CEL, TXT)
GSE17600_TertBJ_cel.tar.gz 3.0 Gb (ftp)(http) TAR (of CEL, TXT)
GSE17600_TertBJ_txt.tar.gz 937.0 Mb (ftp)(http) TAR (of CEL, TXT)
GSE17600_Testis_Prostate_cel.tar.gz 3.1 Gb (ftp)(http) TAR (of CEL, TXT)
GSE17600_Testis_Prostate_txt.tar.gz 971.4 Mb (ftp)(http) TAR (of CEL, TXT)
Raw data provided as supplementary file
Processed data provided as supplementary file
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