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Status
Public on Sep 21, 2004
Title
RenLab ENCODE PCR tiling array
Technology type
spotted DNA/cDNA
Distribution
non-commercial
Organism
Homo sapiens
Description
24,537 non-repetitive sequences that are greater than 100 bps within the 44 ENCODE regions were PCR amplified. All the purified PCR products in a total of 66 384-well plates were spoted on glass slide using a contact printer. There are a total of 48 blocks, with 23 x 23 dimension in each array.
Contributor(s)
Kim T , Barrera LO , Qu C , van Calcar S , Ren B Submission date
Sep 16, 2004
Last update date
May 26, 2005
Contact name
Chunxu Qu
E-mail(s)
qchunxu@ucsd.edu Phone
(858)822-5767
Organization name
Ludwig Institute for Cancer Research
Department
Gene Regulation
Lab
RenLab
Street address
City
San Diego
State/province
CA
ZIP/Postal code
92093
Country
USA
Samples (280)
GSM30733 , GSM30741 , GSM30742 , GSM30745 , GSM30747 , GSM30756
GSM30762 ,
GSM30763 ,
GSM30764 ,
GSM30767 ,
GSM30769 ,
GSM30770 ,
GSM30778 ,
GSM30779 ,
GSM30780 ,
GSM30781 ,
GSM30782 ,
GSM30783 ,
GSM30784 ,
GSM30785 ,
GSM30786 ,
GSM30787 ,
GSM30788 ,
GSM30789 ,
GSM37581 ,
GSM37588 ,
GSM37589 ,
GSM37590 ,
GSM37591 ,
GSM37592 ,
GSM52457 ,
GSM52458 ,
GSM52459 ,
GSM52460 ,
GSM52461 ,
GSM52462 ,
GSM52942 ,
GSM52943 ,
GSM52944 ,
GSM52945 ,
GSM52946 ,
GSM52947 ,
GSM52949 ,
GSM52950 ,
GSM52951 ,
GSM52952 ,
GSM52953 ,
GSM52954 ,
GSM60169 ,
GSM60170 ,
GSM60171 ,
GSM60172 ,
GSM60173 ,
GSM60174 ,
GSM60175 ,
GSM60176 ,
GSM60177 ,
GSM60178 ,
GSM60179 ,
GSM60180 ,
GSM60181 ,
GSM60182 ,
GSM60183 ,
GSM60184 ,
GSM60185 ,
GSM60186 ,
GSM60187 ,
GSM60188 ,
GSM60189 ,
GSM60190 ,
GSM60191 ,
GSM60192 ,
GSM60193 ,
GSM60194 ,
GSM60195 ,
GSM60196 ,
GSM60197 ,
GSM60198 ,
GSM60199 ,
GSM60200 ,
GSM60201 ,
GSM60768 ,
GSM60769 ,
GSM60770 ,
GSM60771 ,
GSM60772 ,
GSM60773 ,
GSM129330 ,
GSM129331 ,
GSM129332 ,
GSM144643 ,
GSM144644 ,
GSM144645 ,
GSM144646 ,
GSM144647 ,
GSM144648 ,
GSM144649 ,
GSM144650 ,
GSM144651 ,
GSM144652 ,
GSM144653 ,
GSM144654 ,
GSM144655 ,
GSM144656 ,
GSM144657 ,
GSM144658 ,
GSM144659 ,
GSM144660 ,
GSM144661 ,
GSM144662 ,
GSM144663 ,
GSM144664 ,
GSM144665 ,
GSM144666 ,
GSM146202 ,
GSM146203 ,
GSM146204 ,
GSM146205 ,
GSM146206 ,
GSM171017 ,
GSM171018 ,
GSM171020 ,
GSM171021 ,
GSM171022 ,
GSM171023 ,
GSM171024 ,
GSM171025 ,
GSM171026 ,
GSM171027 ,
GSM171028 ,
GSM171029 ,
GSM171030 ,
GSM171031 ,
GSM171032 ,
GSM171033 ,
GSM171034 ,
GSM171035 ,
GSM171036 ,
GSM171037 ,
GSM171038 ,
GSM171039 ,
GSM171040 ,
GSM171041 ,
GSM171042 ,
GSM171043 ,
GSM171044 ,
GSM171045 ,
GSM171046 ,
GSM171047 ,
GSM171048 ,
GSM171049 ,
GSM171050 ,
GSM171051 ,
GSM171052 ,
GSM171053 ,
GSM171054 ,
GSM171055 ,
GSM171056 ,
GSM171057 ,
GSM171058 ,
GSM171059 ,
GSM171060 ,
GSM171061 ,
GSM171062 ,
GSM171063 ,
GSM171064 ,
GSM171065 ,
GSM171066 ,
GSM171067 ,
GSM171068 ,
GSM171069 ,
GSM171070 ,
GSM171071 ,
GSM171072 ,
GSM171073 ,
GSM171074 ,
GSM171075 ,
GSM171076 ,
GSM171077 ,
GSM171078 ,
GSM171079 ,
GSM171080 ,
GSM171081 ,
GSM171082 ,
GSM171083 ,
GSM171084 ,
GSM171085 ,
GSM171086 ,
GSM171087 ,
GSM171088 ,
GSM171089 ,
GSM171090 ,
GSM171091 ,
GSM171092 ,
GSM171093 ,
GSM171094 ,
GSM171095 ,
GSM171096 ,
GSM171097 ,
GSM171098 ,
GSM171099 ,
GSM171100 ,
GSM171101 ,
GSM171102 ,
GSM171103 ,
GSM171104 ,
GSM171105 ,
GSM171106 ,
GSM171107 ,
GSM171108 ,
GSM187298 ,
GSM187299 ,
GSM187300 ,
GSM187301 ,
GSM187302 ,
GSM187303 ,
GSM187304 ,
GSM187305 ,
GSM187306 ,
GSM187307 ,
GSM187308 ,
GSM187309 ,
GSM187310 ,
GSM187311 ,
GSM187312 ,
GSM187313 ,
GSM187314 ,
GSM187315 ,
GSM187316 ,
GSM187317 ,
GSM187318 ,
GSM225134 ,
GSM225135 ,
GSM225136 ,
GSM225137 ,
GSM225138 ,
GSM225139 ,
GSM225140 ,
GSM225141 ,
GSM225146 ,
GSM225147 ,
GSM225148 ,
GSM225149 ,
GSM225150 ,
GSM225151 ,
GSM225152 ,
GSM359288 ,
GSM359289 ,
GSM359290 ,
GSM359291 ,
GSM359292 ,
GSM359293 ,
GSM359294 ,
GSM359295 ,
GSM359296 ,
GSM359297 ,
GSM359298 ,
GSM359299 ,
GSM359300 ,
GSM359301 ,
GSM359302 ,
GSM359303 ,
GSM359304 ,
GSM359305 ,
GSM359306 ,
GSM359307 ,
GSM359308 ,
GSM359309 ,
GSM359310 ,
GSM359311 ,
GSM359312 ,
GSM359313 ,
GSM359314 ,
GSM692139 ,
GSM692140 ,
GSM692141 ,
GSM692142 ,
GSM692143 ,
GSM692144 ,
GSM692145 Series (12)
GSE1778 ENCODE: GWLA of TAF1, RNA PolII binding in four cell lines
GSE2072 ENCODE: Histone H3 acetylation and K4 methylation in IMR90 cells
GSE2730 ENCODE: GWLA analysis of a few promoter and enhancer markers in HeLa cells
GSE2801 ENCODE: GWLA analysis of SUZ12 and triMeH3K27 binding in HeLa cells
GSE5559 Analysis of the vertebrate insulator protein CTCF binding sites in the human genome
GSE6273 Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome
GSE6292 Ludwig Institute/UCSD ENCODE project
GSE7118 Ludwig Institute/UCSD ENCODE project March 2007 Release
GSE7872 Ludwig Institute/UCSD ENCODE project June 2007 Release
GSE8887 Ludwig Institute/UCSD ENCODE project August 2007 Release
GSE14436 P16INK4a mediated supperssion of telomerase in normal and malignant human breast cells
GSE28115 CBX3 Regulates Efficient RNA Processing Genome Wide
Data table header descriptions ID SPOT Block_Row_Column on the array
PCR_ID ID for PCR fragments
ENCODE_ID ENCODE region
CHROMOSOME_POS chromosome position
PCR_SUCCESS PCR success, 0 for fail, 1 for success, 2 for maybe success
SPOT_ID spot identifier
Data table ID SPOT PCR_ID ENCODE_ID CHROMOSOME_POS PCR_SUCCESS SPOT_ID 1
1_1_1
ECD24342
ENm002
chr5:132230556-132230696
1
chr5:132230556-132230696
2
1_2_1
ECD23214
ENr313
chr16:62304779-62304974
1
chr16:62304779-62304974
3
1_3_1
ECD21996
ENm001
chr7:117069296-117069528
1
chr7:117069296-117069528
4
1_4_1
ECD20868
ENr211
chr16:26217134-26217402
1
chr16:26217134-26217402
5
1_5_1
ECD19740
ENm011
chr11:1759756-1760067
1
chr11:1759756-1760067
6
1_6_1
ECD18612
ENm003
chr11:116194602-116194955
1
chr11:116194602-116194955
7
1_7_1
ECD17766
ENm004
chr22:30231609-30231994
1
chr22:30231609-30231994
8
1_8_1
ECD16638
ENr121
chr2:118834598-118835029
1
chr2:118834598-118835029
9
1_9_1
ECD15510
ENm004
chr22:31539556-31540024
1
chr22:31539556-31540024
10
1_10_1
ECD14382
ENr121
chr2:118608533-118609027
1
chr2:118608533-118609027
11
1_11_1
ECD13164
ENr312
chr11:130894384-130894908
2
chr11:130894384-130894908
12
1_12_1
ECD12036
ENr331
chr2:220588278-220588832
1
chr2:220588278-220588832
13
1_13_1
ECD10908
ENr213
chr18:23968920-23969507
1
chr18:23968920-23969507
14
1_14_1
ECD09780
ENm002
chr5:132072755-132073375
1
chr5:132072755-132073375
15
1_15_1
ECD08934
ENm003
chr11:116327259-116327900
1
chr11:116327259-116327900
16
1_16_1
ECD07806
ENr212
chr5:142337353-142338024
1
chr5:142337353-142338024
17
1_17_1
ECD06678
ENm001
chr7:115996844-115997546
1
chr7:115996844-115997546
18
1_18_1
ECD05550
ENr334
chr6:41689525-41690257
1
chr6:41689525-41690257
19
1_19_1
ECD04332
ENm001
chr7:117082569-117083336
1
chr7:117082569-117083336
20
1_20_1
ECD03204
ENm002
chr5:132241282-132242084
1
chr5:132241282-132242084
25392 1977 Kbytes .Supplementary data files not provided
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