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Status
Public on Sep 22, 2009
Title
DKFZ SC112 / human 9k BAC chip (3k V6 - r24)
Technology type
spotted DNA/cDNA
Distribution
non-commercial
Organism
Homo sapiens Manufacturer
Division of Molecular Genetics, German Cancer Research Center (DKFZ), Heidelberg, Germany
Manufacture protocol
DOP-PCR products were spotted in triplicate onto NexterionTM Slide E epoxysilane-coated slides (PEQLAB, Erlangen, Germany) using a spotting robot (VersArray ChipWriterTM Pro system,BioRad, Munich, Germany) at 20C and 40% humidity. After spotting, slides were cross-linked,baked for 1 hr at 80C, and cross-linked again.
Support
glass
Coating
epoxy-silane
Description
Spotted genomic DNA fragments from bacterial artificial chromosomes (BACs).
Web link
http://www.dkfz-heidelberg.de/genetics/ChipYard/ Contributor(s)
Toedt G , Radelwimmer B , Lichter P Submission date
Sep 14, 2009
Last update date
Sep 22, 2009
Contact name
Grischa Toedt
Organization name
German Cancer Research Center (DKFZ)
Department
Molecular Genetics (B060)
Lab
Prof. Peter Lichter
Street address
Im Neuenheimer Feld 280
City
Heidelberg
ZIP/Postal code
69120
Country
Germany
Samples (131)
GSM454013 , GSM454014 , GSM454015 , GSM454017 , GSM454018 , GSM454019
GSM454020 ,
GSM454021 ,
GSM454023 ,
GSM454025 ,
GSM454027 ,
GSM454028 ,
GSM454030 ,
GSM454033 ,
GSM454035 ,
GSM454037 ,
GSM454038 ,
GSM454045 ,
GSM454046 ,
GSM454049 ,
GSM454050 ,
GSM454052 ,
GSM454055 ,
GSM454057 ,
GSM454062 ,
GSM454065 ,
GSM454066 ,
GSM454068 ,
GSM454069 ,
GSM454070 ,
GSM454073 ,
GSM454075 ,
GSM454076 ,
GSM454078 ,
GSM454079 ,
GSM454081 ,
GSM454083 ,
GSM454085 ,
GSM454088 ,
GSM454092 ,
GSM454093 ,
GSM454094 ,
GSM454095 ,
GSM454098 ,
GSM454099 ,
GSM454100 ,
GSM454102 ,
GSM454103 ,
GSM454105 ,
GSM454106 ,
GSM454107 ,
GSM454109 ,
GSM454114 ,
GSM454115 ,
GSM454116 ,
GSM454117 ,
GSM454118 ,
GSM454121 ,
GSM454122 ,
GSM454123 ,
GSM454126 ,
GSM454127 ,
GSM454128 ,
GSM454129 ,
GSM454130 ,
GSM454136 ,
GSM454139 ,
GSM454140 ,
GSM454143 ,
GSM454144 ,
GSM454149 ,
GSM454151 ,
GSM454159 ,
GSM454160 ,
GSM454166 ,
GSM454169 ,
GSM454170 ,
GSM454171 ,
GSM454173 ,
GSM454174 ,
GSM454178 ,
GSM454179 ,
GSM454182 ,
GSM454183 ,
GSM454185 ,
GSM454186 ,
GSM454188 ,
GSM454189 ,
GSM454191 ,
GSM454193 ,
GSM454196 ,
GSM454197 ,
GSM454202 ,
GSM454204 ,
GSM454206 ,
GSM454208 ,
GSM454209 ,
GSM454210 ,
GSM454213 ,
GSM454214 ,
GSM454216 ,
GSM454217 ,
GSM454220 ,
GSM454222 ,
GSM454223 ,
GSM454224 ,
GSM454229 ,
GSM454231 ,
GSM454233 ,
GSM454235 ,
GSM454237 ,
GSM454240 ,
GSM454241 ,
GSM454242 ,
GSM454245 ,
GSM454246 ,
GSM454250 ,
GSM454251 ,
GSM454253 ,
GSM454254 ,
GSM454255 ,
GSM454257 ,
GSM454258 ,
GSM454259 ,
GSM454260 ,
GSM454263 ,
GSM454265 ,
GSM454267 ,
GSM454269 ,
GSM454275 ,
GSM454277 Series (1)
GSE18166 Genome-Wide Profiling of Astrocytic Gliomas
Data table header descriptions ID PIMS_ID: DKFZ database (PIMS) feature ID
INTERNATIONAL_ID International Clone ID
CHR Chromosome
MAPPING Chromosomal localization
CHR_MIDPOINT Chromosomal Midpoint Position of the Clone
CHR_START Chromosomal Start Position of the Clone
CHR_END Chromosomal End Position of the Clone
GENE_SYMBOL Gene symbol
GENE_NAME Gene name
ENSEMBL_GENE_ID Ensembl identifier (gene ID)
ENSEMBL_VERSION Ensembl build used to retrieve gene information
ENTREZ_ID Gene ID from entrez genes
CLONE_ID Clone Registry ID
SPOT_ID
Data table ID INTERNATIONAL_ID CHR MAPPING CHR_MIDPOINT CHR_START CHR_END GENE_SYMBOL GENE_NAME ENSEMBL_GENE_ID ENSEMBL_VERSION ENTREZ_ID CLONE_ID SPOT_ID G000001
RP11-465B22
1
1p36.33
1032006
918164
1145847
ISG15;TTLL10;hsa-mir-429;AL390719.47-3;hsa-mir-200b;hsa-mir-200a;AL390719.47-2;AL390719.47-1;RP11-54O7.10;SDF4;TNFRSF18;AGRN;HES4;TNFRSF4;C1orf159
Interferon-induced 17 kDa protein Precursor [Contains Ubiquitin cross-reactive protein(hUCRP)(Interferon-induced 15 kDa protein)];Probable tubulin polyglutamylase TTLL10 (EC 6.-.-.-)(Tubulin--tyrosine ligase-like protein 10);hsa-mir-429 ;cDNA FLJ46328 fis, clone TESTI4044291 ;hsa-mir-200b ;hsa-mir-200a ;NA;Putative uncharacterized protein ENSP00000384592 Fragment ;NA;45 kDa calcium-binding protein Precursor (Cab45)(Stromal cell-derived factor 4)(SDF-4);Tumor necrosis factor receptor superfamily member 18 Precursor (Glucocorticoid-induced TNFR-related protein)(Activation-inducible TNFR family receptor);Agrin Precursor ;Transcription factor HES-4 (Hairy and enhancer of split 4)(bHLH factor Hes4);Tumor necrosis factor receptor superfamily member 4 Precursor (OX40L receptor)(ACT35 antigen)(TAX transcriptionally-activated glycoprotein 1 receptor)(CD134 antigen);Uncharacterized protein C1orf159 Precursor
ENSG00000187608;ENSG00000162571;ENSG00000198976;ENSG00000205231;ENSG00000207730;ENSG00000207607;ENSG00000215916;ENSG00000217801;ENSG00000217453;ENSG00000078808;ENSG00000186891;ENSG00000188157;ENSG00000188290;ENSG00000186827;ENSG00000131591
54_36p
RP11-465B22 G000002
RP11-49J3
1
1p36.31
5954492
5866184
6042798
KCNAB2;NPHP4
Voltage-gated potassium channel subunit beta-2 (K(+) channel subunit beta-2)(Kv-beta-2)(HKvbeta2);Nephrocystin-4 (Nephroretinin)
ENSG00000069424;ENSG00000131697
54_36p
8514;261734
RP11-49J3 G000003
RP11-338N10
1
1p36.23
7742542
7641550
7843532
CAMTA1;PER3;VAMP3;UTS2
Calmodulin-binding transcription activator 1 ;Period circadian protein homolog 3 (Circadian clock protein PERIOD 3)(hPER3)(Cell growth-inhibiting gene 13 protein);Vesicle-associated membrane protein 3 (VAMP-3)(Synaptobrevin-3)(Cellubrevin)(CEB);Urotensin-2 Precursor (Urotensin-II)(U-II)(UII)
ENSG00000171735;ENSG00000049246;ENSG00000049245;ENSG00000049247
54_36p
9341;8863;10911;23261
RP11-338N10 G000004
RP11-285P3
1
1p36.21
14600995
14511126
14690862
RP11-285P3 G000005
RP11-45I3
1
1p36.13
16733595
16660236
16806953
CROCCL2;NBPF1;AL355149.13-3;U1;AL355149.13-1;AL355149.13-2;RP5-875O13.6
ciliary rootlet coiled-coil, rootletin-like 2 (CROCCL2), non-coding RNA;AB23 Fragment ;Putative uncharacterized protein FLJ35883 ;U1 spliceosomal RNA ;NA;NA;NA
ENSG00000080947;ENSG00000179571;ENSG00000197511;ENSG00000206652;ENSG00000209511;ENSG00000209524;ENSG00000219099
54_36p
100133616
RP11-45I3 G000006
RP11-174G17
1
1p36.13
18324594
18255166
18394021
IGSF21
Immunoglobulin superfamily member 21 Precursor
ENSG00000117154
54_36p
84966
RP11-174G17 G000007
RP11-132G19
1
1p36.12
22000737
21904425
22097047
HSPG2;USP48;LDLRAD2;RP11-132G19.3
Basement membrane-specific heparan sulfate proteoglycan core protein Precursor (HSPG)(Perlecan)(PLC);Ubiquitin carboxyl-terminal hydrolase 48 (EC 3.1.2.15)(Ubiquitin thioesterase 48)(Ubiquitin-specific-processing protease 48)(Deubiquitinating enzyme 48);Low-density lipoprotein receptor class A domain-containing protein 2 Precursor ;NA
ENSG00000142798;ENSG00000090686;ENSG00000187942;ENSG00000220235
54_36p
84196;3339;401944
RP11-132G19 G000008
RP11-509F14
1
1p36.11
24442016
24351995
24532035
GRHL3;IL28RA;AL590683.16
Grainyhead-like protein 3 homolog (Sister of mammalian grainyhead)(Transcription factor CP2-like 4);Interleukin-28 receptor alpha chain Precursor (IL-28R-alpha)(IL-28RA)(Cytokine receptor class-II member 12)(Cytokine receptor family 2 member 12)(CRF2-12)(Interferon lambda receptor 1)(IFN-lambda R1)(;NA
ENSG00000158055;ENSG00000185436;ENSG00000221054
54_36p
57822;163702
RP11-509F14 G000009
RP11-84A19
1
1p35.2
32037808
31946121
32129493
BAI2;SPOCD1
Brain-specific angiogenesis inhibitor 2 Precursor ;SPOC domain-containing protein 1
ENSG00000121753;ENSG00000134668
54_36p
576;90853
RP11-84A19 G000010
RP11-277A4
1
1p35.1
32357867
32275078
32440655
KPNA6;TXLNA;CCDC28B;KHDRBS1;TMEM39B;AL445248.7-1;AL445248.7-2
Importin subunit alpha-7 (Karyopherin subunit alpha-6);Alpha-taxilin ;Coiled-coil domain-containing protein 28B ;KH domain-containing, RNA-binding, signal transduction-associated protein 1 (p21 Ras GTPase-activating protein-associated p62)(GAP-associated tyrosine phosphoprotein p62)(Src-associated in mitosis 68 ;Transmembrane protein 39B ;NA;NA
ENSG00000025800;ENSG00000084652;ENSG00000160050;ENSG00000121774;ENSG00000121775;ENSG00000209881;ENSG00000209890
54_36p
23633;200081;10657;55116;79140
RP11-277A4 G000011
RP11-114B7
1
1p35.1
32960430
32874030
33046828
RBBP4;SYNC;YARS;KIAA1522;ZBTB8OS;Y_RNA;AC114489.2-2;AC114489.2-1
Histone-binding protein RBBP4 (Retinoblastoma-binding protein 4)(RBBP-4)(Retinoblastoma-binding protein p48)(Chromatin assembly factor 1 subunit C)(CAF-1 subunit C)(Chromatin assembly factor I p48 sub;Syncoilin (Syncoilin-1)(Syncoilin intermediate filament 1);Tyrosyl-tRNA synthetase, cytoplasmic (EC 6.1.1.1)(Tyrosyl--tRNA ligase)(TyrRS);Uncharacterized protein KIAA1522 ;Protein archease (Protein ZBTB8OS)(Zinc finger and BTB domain-containing opposite strand protein 8);Y RNA ;NA;NA
ENSG00000162521;ENSG00000162520;ENSG00000134684;ENSG00000162522;ENSG00000176261;ENSG00000200591;ENSG00000203311;ENSG00000209921
54_36p
8565;81493;5928;642954;57648;339487;729898
RP11-114B7 G000012
RP11-327P22
1
1p34.3
34972956
34876929
35068982
GJA4;GJB5;GJB3;GJB4;hsa-mir-552;AL121988.10
Gap junction alpha-4 protein (Connexin-37)(Cx37);Gap junction beta-5 protein (Connexin-31.1)(Cx31.1);Gap junction beta-3 protein (Connexin-31)(Cx31);Gap junction beta-4 protein (Connexin-30.3)(Cx30.3);hsa-mir-552 ;NA
ENSG00000187513;ENSG00000189280;ENSG00000188910;ENSG00000189433;ENSG00000207941;ENSG00000216162
54_36p
2701;2707;2709;127534
RP11-327P22 G000013
RP11-113D13
1
1p34.3
39379349
39307926
39450770
MACF1;U6;AL356055.13-1;5S_rRNA
Microtubule-actin cross-linking factor 1, isoforms 1/2/3/5 (Actin cross-linking family protein 7)(Macrophin-1)(Trabeculin-alpha)(620 kDa actin-binding protein)(ABP620);U6 spliceosomal RNA ;NA;5S ribosomal RNA
ENSG00000127603;ENSG00000206654;ENSG00000210142;ENSG00000222378
54_36p
23499
RP11-113D13 G000014
RP11-204L3
RP11-204L3 G000015
RP11-342M1
1
1p34.2
43069854
42987601
43152105
LEPRE1;ERMAP;C1orf50;ZNF691;CCDC23;AC098484.2;RP11-342M1.6;RP11-342M1.7;RP5-848E13.1
Prolyl 3-hydroxylase 1 Precursor (EC 1.14.11.7)(Leucine- and proline-enriched proteoglycan 1)(Leprecan-1)(Growth suppressor 1);Erythroid membrane-associated protein Precursor (hERMAP)(Scianna blood group antigen)(Radin blood group antigen);Uncharacterized protein C1orf50 ;Zinc finger protein 691 ;Coiled-coil domain-containing protein 23 ;NA;NA;NA;NA
ENSG00000117385;ENSG00000164010;ENSG00000164008;ENSG00000164011;ENSG00000177868;ENSG00000210306;ENSG00000220429;ENSG00000216312;ENSG00000219729
54_36p
64175;79078;114625;51058;374969
RP11-342M1 G000016
RP11-184I16
1
1p34.1
44062397
44062032
44062761
ST3GAL3
CMP-N-acetylneuraminate-beta-1,4-galactoside alpha-2,3-sialyltransferase (EC 2.4.99.6)(N-acetyllactosaminide alpha-2,3-sialyltransferase)(Gal beta-1,3(4) GlcNAc alpha-2,3 sialyltransferase)(ST3GalIII)
ENSG00000126091
54_36p
6487
RP11-184I16 G000017
RP11-182I23
1
1p34.1
44518446
44428131
44608760
ERI3;DMAP1
Prion protein-interacting protein (Prion interactor 1);DNA methyltransferase 1-associated protein 1 (DNMT1-associated protein 1)(DNMAP1)
ENSG00000117419;ENSG00000178028
54_36p
79033;55929
RP11-182I23 G000018
RP11-322N21
1
1p34.1
46368313
46259106
46477518
MAST2;POMGNT1;PIK3R3;TSPAN1;C1orf190;RP4-533D7.3
Microtubule-associated serine/threonine-protein kinase 2 (EC 2.7.11.1);Protein O-linked-mannose beta-1,2-N-acetylglucosaminyltransferase 1 (POMGnT1)(EC 2.4.1.-)(UDP-GlcNAc:alpha-D-mannoside beta-1,2-N-acetylglucosaminyltransferase I.2)(GnT I.2);Phosphatidylinositol 3-kinase regulatory subunit gamma (PI3-kinase p85 subunit gamma)(PtdIns-3-kinase p85-gamma)(p55PIK);Tetraspanin-1 (Tspan-1)(Tetraspan NET-1)(Tetraspanin TM4-C);Uncharacterized protein C1orf190 ;NA
ENSG00000086015;ENSG00000085998;ENSG00000117461;ENSG00000117472;ENSG00000171357;ENSG00000216741
54_36p
55624;23139;8503;10103;541468
RP11-322N21 G000019
RP11-8J9
1
1p33
46963248
46884600
47041895
ATPAF1;CYP4B1;KIAA0494;C1orf223;RP11-8J9.5;RP11-8J9.1
ATP synthase mitochondrial F1 complex assembly factor 1 Precursor (ATP11 homolog);Cytochrome P450 4B1 (EC 1.14.14.1)(CYPIVB1)(P450-HP);EF-hand domain-containing protein KIAA0494 ;Uncharacterized protein C1orf223 ;NA;NA
ENSG00000123472;ENSG00000142973;ENSG00000159658;ENSG00000186118;ENSG00000217954;ENSG00000217880
54_36p
64756;1580;9813;374973
RP11-8J9 G000020
RP11-330M19
1
1p33
48102458
48002310
48202605
AL691459.25
ENSG00000204018
54_36p
RP11-330M19
8049 2697 Kbytes .Supplementary file Size Download File type/resource GPL9189_GPR-Aligned_Annotation.txt.gz
1.2 Mb
(ftp) (http) TXT
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