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Status
Public on Dec 13, 2007
Title
Illumina human-6 v1.0 expression beadchip
Technology type
oligonucleotide beads
Distribution
commercial
Organism
Homo sapiens Manufacturer
Illumina Inc.
Manufacture protocol
see manufacturer's website
Description
The Human-6 Expression BeadChip contains six arrays on a single BeadChip, each with >46,000 probes derived from human genes in the National Center for Biotechnology Information (NCBI) Reference Sequence (RefSeq) and UniGene databases.http://www.ncbi.nlm.nih.gov/projects/geo/info/spreadsheet.html.
Submission date
Nov 08, 2007
Last update date
Jan 18, 2013
Organization
Illumina Inc.
E-mail(s)
expression@illumina.com, techsupport@illumina.com Phone
1 800 809 4566
URL
http://www.illumina.com Street address
9885 Towne Centre Drive
City
San Diego
State/province
CA
ZIP/Postal code
92121
Country
USA
Samples (178)
GSM257770 , GSM257793 , GSM257794 , GSM257795 , GSM257796 , GSM257797
GSM257798 ,
GSM257799 ,
GSM257801 ,
GSM257805 ,
GSM263911 ,
GSM263912 ,
GSM263913 ,
GSM263914 ,
GSM277237 ,
GSM277241 ,
GSM320421 ,
GSM320422 ,
GSM320423 ,
GSM320424 ,
GSM320425 ,
GSM320426 ,
GSM320427 ,
GSM320428 ,
GSM320429 ,
GSM320430 ,
GSM320431 ,
GSM320432 ,
GSM320433 ,
GSM320434 ,
GSM320435 ,
GSM320436 ,
GSM320437 ,
GSM320474 ,
GSM320475 ,
GSM320476 ,
GSM320477 ,
GSM320478 ,
GSM320479 ,
GSM320480 ,
GSM320481 ,
GSM320482 ,
GSM320483 ,
GSM320484 ,
GSM320485 ,
GSM320486 ,
GSM320487 ,
GSM320488 ,
GSM320489 ,
GSM320490 ,
GSM320491 ,
GSM320492 ,
GSM320493 ,
GSM320494 ,
GSM320495 ,
GSM320496 ,
GSM320497 ,
GSM320498 ,
GSM320499 ,
GSM320500 ,
GSM320501 ,
GSM320502 ,
GSM320503 ,
GSM320504 ,
GSM320505 ,
GSM320506 ,
GSM401241 ,
GSM401242 ,
GSM401243 ,
GSM401244 ,
GSM401245 ,
GSM401246 ,
GSM401247 ,
GSM401248 ,
GSM401249 ,
GSM401250 ,
GSM401251 ,
GSM401252 ,
GSM401253 ,
GSM401254 ,
GSM401255 ,
GSM401256 ,
GSM401257 ,
GSM401258 ,
GSM401259 ,
GSM401260 ,
GSM401261 ,
GSM401262 ,
GSM401263 ,
GSM401264 ,
GSM434074 ,
GSM434075 ,
GSM434076 ,
GSM434077 ,
GSM777484 ,
GSM777485 ,
GSM777486 ,
GSM777487 ,
GSM777488 ,
GSM777489 ,
GSM879070 ,
GSM879071 ,
GSM879072 ,
GSM879073 ,
GSM879074 ,
GSM879075 ,
GSM879076 ,
GSM879077 ,
GSM879078 ,
GSM879079 ,
GSM879080 ,
GSM879081 ,
GSM879082 ,
GSM879083 ,
GSM879084 ,
GSM879085 ,
GSM879086 ,
GSM879087 ,
GSM879088 ,
GSM879089 ,
GSM879090 ,
GSM879091 ,
GSM879092 ,
GSM879093 ,
GSM879094 ,
GSM879095 ,
GSM879096 ,
GSM879097 ,
GSM879098 ,
GSM879099 ,
GSM879100 ,
GSM879101 ,
GSM879102 ,
GSM879103 ,
GSM879104 ,
GSM879105 ,
GSM879106 ,
GSM879107 ,
GSM879108 ,
GSM879109 ,
GSM879110 ,
GSM879111 ,
GSM879112 ,
GSM879113 ,
GSM879114 ,
GSM879115 ,
GSM879116 ,
GSM879117 ,
GSM1049459 ,
GSM1049460 ,
GSM1049461 ,
GSM1049462 ,
GSM1049463 ,
GSM1049464 ,
GSM1049465 ,
GSM1049466 ,
GSM1049467 ,
GSM1049468 ,
GSM1049469 ,
GSM1049470 ,
GSM3509466 ,
GSM3509467 ,
GSM3509468 ,
GSM3509469 ,
GSM3509470 ,
GSM3509471 ,
GSM3509472 ,
GSM3509473 ,
GSM3509474 ,
GSM3509475 ,
GSM3509476 ,
GSM3509477 ,
GSM3509478 ,
GSM3509479 ,
GSM3509480 ,
GSM3509481 ,
GSM3509482 ,
GSM3509483 Series (12)
GSE10213 Performance comparison of Affymetrix and Illumina microarray technologies_IlluminaDataSet
GSE10431 The tumor suppressor Semaphorin 3B triggers a pro-metastatic program mediated by IL-8 and the tumor microenvironment
GSE10929 Comparison of consecutive microarray platforms
GSE11540 Performance comparison of Affymetrix and Illumina microarray technologies
GSE12771 Lung cancer prediction
GSE16031 A comparison of Illumina bead chips reveals unexpected challenges in the use of newest generation microarrays
GSE17369 A gene expression fingerprint in mental retardation reflects disease causing defects in the histone demethylase KDM5
GSE31351 Transcriptomic analysis of the effect of CT16 (PAGE5) silencing by RNAi in A2058 melanoma cells
GSE31352 Transcriptomic analysis of CT16 (PAGE5) function in A2058 and WM-266-4 melanoma cells
GSE35999 Gene expression profiles in white blood cells of volunteers exposed to a 50 Hz electromagnetic field
GSE42756 Effects of Intrauterine Growth Restriction on Ribosomal Subunit mRNA and Protein Expression in the Frontal Cortex of Near-Term Fetal Baboons
GSE123685 Genome-wide analysis of human reconstructed adipose tissue, human reconstructed connective tissue and native fat
Data table header descriptions ID Probe identifier (not unique across products and species but it is the ONLY unique id in these files)
Search_key Internal id useful for custom design array
Target transcript + type
Gid Genbank id
Transcript Internal transcript id
Accession Genbank accession number GB_ACC
GB_ACC SPOT_ID Symbol Gene symbol from the source database
Type Information about what this probe is targeting
Start Position of the probe relative to the 5' of the source transcript sequence
SEQUENCE Probe sequence
Definition Gene description from the source
Ontology GO annotations from Gene Ontology project: The GO term will be separated by ; and each term will have up to 4 informations: the GO categories follow by (go_function, go_process and go_component) the term itself follow by its id between brackets (ex [goid 5783]), the evidence code and eventually the litterature reference also between brackets (see the Gene Ontology Project website)
Synonym Gene symbol synonyms from Refseq
Data table ID Search_key Target Gid Transcript Accession GB_ACC SPOT_ID Symbol Type Start SEQUENCE Definition Ontology Synonym 2360044
PLAC3
GI_23097300-A
GI_23097300
GI_23097300
NM_021936.1
NM_021936.1 PLAC3
A
3545
GCTTCACTCGCTTCCCAGGGGCTCCGTTCACCAACTACATGAGCTACACG
Homo sapiens placenta-specific 3 (PLAC3), transcript variant 2, mRNA.
PAPPE;PAPP-A2
3940446
COG4
GI_21070955-A
GI_21070955
GI_21070955
NM_015386.1
NM_015386.1 COG4
A
2622
GCAGCCCAGGCCAGCTTTCTGCATGGATGGTCAGTCTCTTGCCCTCAAAC
Homo sapiens component of oligomeric golgi complex 4 (COG4), mRNA.
COD1;DKFZp586E1519
6420736
GI_4505876-A
GI_4505876-A
GI_4505876
GI_4505876
NM_000445.1
NM_000445.1 PLEC1
A
14736
AACACTAACCTGACCGTGGGCGGGGCCTTGCGGTATCCGCCCCCAATAAA
Homo sapiens plectin 1, intermediate filament binding protein 500kDa (PLEC1), transcript variant 1, mRNA.
go_component: intermediate filament [goid 0005882] [evidence NR]; go_component: cytoskeleton [goid 0005856] [evidence IEA]; go_component: kinesin complex [goid 0005871] [evidence IEA]; go_component: plasma membrane [goid 0005886] [evidence NR] [pmid 8633055]; go_function: structural constituent of muscle [goid 0008307] [evidence TAS] [pmid 8696340]; go_function: structural constituent of cytoskeleton [goid 0005200] [evidence NR]; go_function: actin binding [goid 0003779] [evidence IEA]; go_process: cytoskeletal anchoring [goid 0007016] [evidence NR]
PCN;EBS1;EBSO;PLTN
2630279
PTPRD
GI_18860893-A
GI_18860893
GI_18860893
NM_130393.1
NM_130393.1 PTPRD
A
4687
CTACAGGCCCTTCAATATCCATGGAGTCTCTTCTGAGCCATACAGGGCAC
Homo sapiens protein tyrosine phosphatase, receptor type, D (PTPRD), transcript variant 4, mRNA.
go_component: integral to plasma membrane [goid 0005887] [evidence TAS] [pmid 7896816]; go_function: transmembrane receptor protein tyrosine phosphatase activity [goid 0005001] [evidence TAS] [pmid 7896816]; go_function: receptor activity [goid 0004872] [evidence IEA]; go_function: prenylated protein tyrosine phosphatase activity [goid 0004727] [evidence IEA]; go_function: hydrolase activity [goid 0016787] [evidence IEA]; go_process: transmembrane receptor protein tyrosine phosphatase signaling pathway [goid 0007185] [evidence TAS] [pmid 7896816]; go_process: phosphate metabolism [goid 0006796] [evidence NR] [pmid 7896816]; go_process: protein amino acid dephosphorylation [goid 0006470] [evidence TAS] [pmid 7896816]
HPTP;PTPD;HPTPD;HPTP-DELTA;R-PTP-DELTA
3120162
HS6ST2
GI_27597081-A
GI_27597081
GI_27597081
NM_147174.2
NM_147174.2 HS6ST2
A
2272
CTGATAGGTATTGTTGGAAAGCAGGATGAAGCCTGAGCCAGTGGAAAAGC
Homo sapiens heparan sulfate 6-O-sulfotransferase 2 (HS6ST2), mRNA.
6900279
CPT1B
GI_23238255-A
GI_23238255
GI_23238255
NM_152246.1
NM_152246.1 CPT1B
A
2373
CTTTTCCAAGTTCCCAAGGCCTACAGCTGAAGCCCTTAGGTACCTGTGTT
Homo sapiens carnitine palmitoyltransferase 1B (muscle) (CPT1B), nuclear gene encoding mitochondrial protein, transcript variant 3, mRNA.
go_component: mitochondrion [goid 0005739] [evidence P]; go_function: carnitine O-palmitoyltransferase activity [goid 0004095] [evidence P]; go_process: fatty acid beta-oxidation [goid 0006635] [evidence P]
CPT1-M;M-CPT1;KIAA1670
1980670
B4GALT2
GI_13929463-A
GI_13929463
GI_13929463
NM_003780.2
NM_003780.2 B4GALT2
A
1729
GATCTTGGGGTTGGCCTTTGCATGGGAGGCAGGTGGGGCTTGGATCAGTA
Homo sapiens UDP-Gal:betaGlcNAc beta 1,4- galactosyltransferase, polypeptide 2 (B4GALT2), transcript variant 2, mRNA.
go_function: galactosyltransferase activity [goid 0008378] [evidence E] [pmid 9405390]
B4Gal-T2;B4Gal-T3;beta4Gal-T2
670603
SLC22A17
GI_27734993-A
GI_27734993
GI_27734993
NM_016609.2
NM_016609.2 SLC22A17
A
1137
GGGAGGCTGGCCCACACAGAAAGGTGGCAAGAAGATCGGGAAGACTGAGT
Homo sapiens solute carrier family 22 (organic cation transporter), member 17 (SLC22A17), transcript variant 2, mRNA.
go_component: integral to membrane [goid 0016021] [evidence IEA]; go_function: transporter activity [goid 0005215] [evidence IEA]; go_process: transport [goid 0006810] [evidence IEA]
BOCT;BOIT;hBOIT
4920152
SMAP-1
GI_8922201-A
GI_8922201
GI_8922201
NM_017979.1
NM_017979.1 SMAP-1
A
922
GTTTACTGGACATGGGAGAGACTGACCTCATGCTGGCGGCTCTGCGTACG
Homo sapiens smooth muscle cell associated protein-1 (SMAP-1), mRNA.
FLJ10043;IRO039700
1240333
S100A4
GI_9845515-A
GI_9845515
GI_9845515
NM_019554.1
NM_019554.1 S100A4
A
187
GCTGCCCAGCTTCTTGGGGAAAAGGACAGATGAAGCTGCTTTCCAGAAGC
Homo sapiens S100 calcium binding protein A4 (calcium protein, calvasculin, metastasin, murine placental homolog) (S100A4), transcript variant 2, mRNA.
go_function: calcium ion binding [goid 0005509] [evidence TAS] [pmid 8204608]; go_process: invasive growth [goid 0007125] [evidence NR]
42A;18A2;CAPL;MTS1;P9KA;PEL98
6510707
TNFRSF19
GI_23238201-A
GI_23238201
GI_23238201
NM_018647.2
NM_018647.2 TNFRSF19
A
942
TCGGATCCCTCACGCAGTCCATCTGTGGCGAGTTTTCAGATGCCTGGCCT
Homo sapiens tumor necrosis factor receptor superfamily, member 19 (TNFRSF19), transcript variant 1, mRNA.
go_component: integral to membrane [goid 0016021] [evidence NAS] [pmid 10809768]; go_function: tumor necrosis factor receptor activity [goid 0005031] [evidence NAS] [pmid 10809768]; go_function: receptor activity [goid 0004872] [evidence IEA]; go_process: JNK cascade [goid 0007254] [evidence NAS] [pmid 10809768]; go_process: induction of apoptosis [goid 0006917] [evidence NAS] [pmid 10809768]; go_process: apoptosis [goid 0006915] [evidence IEA]
TAJ;TROY;TRADE;TAJ-alpha
2120377
KCNAB1
GI_27436965-A
GI_27436965
GI_27436965
NM_172160.1
NM_172160.1 KCNAB1
A
3060
ATCCAGCGAACTGCTGTATGTATAGAGGAGCTGAGGTGCTGTCTAATGGG
Homo sapiens potassium voltage-gated channel, shaker-related subfamily, beta member 1 (KCNAB1), transcript variant 1, mRNA.
go_component: integral to membrane [goid 0016021] [evidence IEA]; go_component: cytoplasm [goid 0005737] [evidence NR]; go_function: potassium channel regulator activity [goid 0015459] [evidence TAS] [pmid 7499366]; go_function: voltage-gated potassium channel activity [goid 0005249] [evidence IEA]; go_process: potassium ion transport [goid 0006813] [evidence TAS] [pmid 7499366]; go_process: ion transport [goid 0006811] [evidence IEA]
hKvb3;AKR6A3;KCNA1B;Kvb1.3;hKvBeta3;KV-BETA-1
5570131
OTOF
GI_35493859-A
GI_35493859
GI_35493859
NM_194323.1
NM_194323.1 OTOF
A
4657
GCCCGTCAAGTGCTGCCCCTGCCTGTGTCTGGGTTTCTGTTGGCTGTTTT
Homo sapiens otoferlin (OTOF), transcript variant 4, mRNA.
go_component: membrane [goid 0016020] [evidence P] [pmid 10192385]; go_component: cytosol [goid 0005829] [evidence P] [pmid 10192385]; go_component: cellular_component unknown [goid 0008372] [evidence ND]; go_component: integral to membrane [goid 0016021] [evidence IEA] [pmid 10192385]; go_component: membrane fraction [goid 0005624] [evidence P] [pmid 10192385]; go_function: vesicle fusion [goid 0005481] [evidence P] [pmid 10192385]; go_function: molecular_function unknown [goid 0005554] [evidence ND]; go_process: hearing [goid 0007605] [evidence IEA] [pmid 10192385]; go_process: membrane fusion [goid 0006944] [evidence P] [pmid 10192385]; go_process: biological_process unknown [goid 0000004] [evidence ND]
DFNB6;DFNB9;NSRD9;FER1L2
4120338
SLC19A1
GI_34808709-A
GI_34808709
GI_34808709
NM_194255.1
NM_194255.1 SLC19A1
A
2548
GTCTGTCCTTCTGAAGTGTGTCCATCCTGACCTGCGGGTCCTCAGCTGCT
Homo sapiens solute carrier family 19 (folate transporter), member 1 (SLC19A1), transcript variant 2, mRNA.
go_component: membrane fraction [goid 0005624] [evidence P] [pmid 8276792]; go_component: integral to plasma membrane [goid 0005887] [evidence P] [pmid 7826387]; go_function: folate transporter activity [goid 0008517] [evidence E] [pmid 7826387]; go_function: methotrexate transporter activity [goid 0015350] [evidence E] [pmid 8276792]; go_process: folate transport [goid 0015884] [evidence E] [pmid 7826387]
CHMD;FOLT;IFC1;REFC;RFC1
2190593
OTX3
GI_27436935-A
GI_27436935
GI_27436935
NM_172225.1
NM_172225.1 OTX3
A
2458
CTTCTGTAGGCTTCCTGTCCCAGAGCCAATTATGGAAGTAAGGGCTTCCC
Homo sapiens orthodenticle homolog 3 (Drosophila) (OTX3), transcript variant 1, mRNA.
MBX;PAXB
1770215
AF3P21
GI_37577147-A
GI_37577147
GI_37577147
NM_184231.1
NM_184231.1 NCKIPSD
A
2797
CCTGGAGCCTCATGGAACAGGATGATGGCACTGAGAAAGCCAATGACCGA
Homo sapiens NCK interacting protein with SH3 domain (NCKIPSD), transcript variant 2, mRNA.
go_component: intermediate filament [goid 0005882] [evidence NAS] [pmid 10619843]; go_component: nucleus [goid 0005634] [evidence IEA]; go_function: cytoskeletal protein binding [goid 0008092] [evidence NAS] [pmid 10619843]; go_process: NLS-bearing substrate-nucleus import [goid 0006607] [evidence TAS] [pmid 10648423]; go_process: signal transduction [goid 0007165] [evidence TAS] [pmid 10648423]; go_process: cell growth and/or maintenance [goid 0008151] [evidence IEA]; go_process: cytoskeleton organization and biogenesis [goid 0007010] [evidence NAS] [pmid 10619843]
DIP1;ORF1;WISH;AF3P21;SPIN90;WASLBP;MGC23891
780706
AP2A1
GI_19913415-A
GI_19913415
GI_19913415
NM_130787.2
NM_130787.2 AP2A1
A
3158
CTCCACTGGTGACAGAGAAGACACCAGGGTTTGGGGGATGCCTGGGACTT
Homo sapiens adaptor-related protein complex 2, alpha 1 subunit (AP2A1), transcript variant 2, mRNA.
go_component: coated pit [goid 0005905] [evidence IEA]; go_component: Golgi apparatus [goid 0005794] [evidence IEA]; go_component: AP-2 adaptor complex [goid 0030122] [evidence NAS] [pmid 12036598]; go_component: clathrin coat of trans-Golgi network vesicle [goid 0030130] [evidence NAS] [pmid 12036598]; go_function: protein transporter activity [goid 0008565] [evidence IEA]; go_function: structural molecule activity [goid 0005198] [evidence IEA]; go_process: nonselective vesicle assembly [goid 0006902] [evidence P] [pmid 2564002]; go_process: endocytosis [goid 0006897] [evidence NAS] [pmid 12036598]; go_process: intracellular protein transport [goid 0006886] [evidence NAS] [pmid 12036598]; go_process: Golgi to endosome transport [goid 0006895] [evidence NAS] [pmid 12036598]
ADTAA;CLAPA1;AP2-ALPHA
2100458
SLC22A1
GI_23510409-A
GI_23510409
GI_23510409
NM_153187.1
NM_153187.1 SLC22A1
A
1513
GGGAGTGACGCTACTTCTTCCAGAGACCAAGGGGGTCGCTTTGCCAGAGA
Homo sapiens solute carrier family 22 (organic cation transporter), member 1 (SLC22A1), transcript variant 2, mRNA.
go_component: membrane fraction [goid 0005624] [evidence P] [pmid 9187257]; go_component: integral to plasma membrane [goid 0005887] [evidence P] [pmid 9187257]; go_component: integral to membrane [goid 0016021] [evidence IEA]; go_function: organic cation transporter activity [goid 0015101] [evidence P] [pmid 9187257]; go_function: ion transporter activity [goid 0015075] [evidence IEA]; go_process: organic cation transport [goid 0015695] [evidence E] [pmid 9187257]; go_process: ion transport [goid 0006811] [evidence IEA]
OCT1;HOCT1
2680121
SOX30
GI_30581118-A
GI_30581118
GI_30581118
NM_007017.2
NM_007017.2 SOX30
A
2018
CACAGCCCCGACATCAACTCCTTCTAGCATCCAGCAAGTCAATGTCACCG
Homo sapiens SRY (sex determining region Y)-box 30 (SOX30), transcript variant 2, mRNA.
go_component: nucleus [goid 0005634] [evidence IEA]; go_function: RNA polymerase II transcription factor activity [goid 0003702] [evidence TAS] [pmid 10359848]; go_function: DNA binding [goid 0003677] [evidence IEA]; go_function: translation regulator activity [goid 0045182] [evidence IEA]; go_process: spermatogenesis [goid 0007283] [evidence TAS] [pmid 10359848]; go_process: regulation of transcription from Pol II promoter [goid 0006357] [evidence TAS] [pmid 10359848]
1240112
KRT18
GI_40354193-A
GI_40354193
GI_40354193
NM_000224.2
NM_000224.2 KRT18
A
1258
CCGCCTGCTGGAAGATGGCGAGGACTTTAATCTTGGTGATGCCTTGGACA
Homo sapiens keratin 18 (KRT18), transcript variant 1, mRNA.
go_component: intermediate filament [goid 0005882] [evidence TAS] [pmid 2434380]; go_component: kinesin complex [goid 0005871] [evidence IEA]; go_function: structural constituent of cytoskeleton [goid 0005200] [evidence NR]; go_process: embryogenesis and morphogenesis [goid 0007345] [evidence TAS] [pmid 2434380]; go_process: cell shape and cell size control [goid 0007148] [evidence NR]; go_process: morphogenesis [goid 0009653] [evidence TAS]
K18;CYK18
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