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Platform GPL21272 Query DataSets for GPL21272
Status Public on Dec 23, 2015
Title Agilent-048908 8x60K whole genome incl V1-V2 linc BioVacSafe final 048908 [Feature Number version]
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Homo sapiens
Manufacturer Agilent Technologies
Manufacture protocol See manufacturer's web site at: http://www.agilent.com/
 
Description Mattick linc
BROAD linc
Arrays of this design have barcodes that begin with 16048908 or 2548908.
Orientation:
Features are numbered numbered Left-to-Right, Top-to-Bottom as scanned by an Agilent scanner (barcode on the left, DNA on the back surface, scanned through the glass), matching the FeatureNum output from Agilent's Feature Extraction software.
The ID column represents the Agilent Feature Extraction feature number.
Rows and columns are numbered as scanned by an Axon Scanner (barcode on the bottom, DNA on the front surface).
To match data scanned on an Axon scanner, use the RefNumber column contained in the Agilent-provided GAL file as the ID_REF column in sample submissions.
 
Submission date Dec 22, 2015
Last update date Jun 11, 2017
Contact name Hans-Joachim Mollenkopf
E-mail(s) mollenkopf@mpiib-berlin.mpg.de
Phone +49 30 28460 482
Organization name Max-Planck-Institute for Infection Biology
Lab Microarray/Genomics Core Facility
Street address Charitéplatz 1
City Berlin
ZIP/Postal code 10117
Country Germany
 
Samples (3916) GSM2302861, GSM2302862, GSM2302863, GSM2302864, GSM2302865, GSM2302866 
Series (16)
GSE86449 Gene expression profile of human lung epithelial cells with different culture methods.
GSE86627 Safety and immunogenicity of the recombinant BCG vaccine VPM1002, in South African infants
GSE87074 Gene expression profiles of human cervical primary cells from ecto- and endocervix
Relations
Alternative to GPL23572

Data table header descriptions
ID Agilent feature number
COL Column
ROW Row
NAME Name
SPOT_ID Spot identifier
CONTROL_TYPE Control type
REFSEQ RefSeq Accession
GB_ACC GenBank and RefSeq Accessions
ENTREZ_GENE_ID Gene ID
GENE_SYMBOL Gene Symbol
GENE_NAME Gene Name
UNIGENE_ID UniGene ID
ENSEMBL_ID Ensembl ID
ACCESSION_STRING Accession String
CHROMOSOMAL_LOCATION Chromosomal Location
CYTOBAND Cytoband
DESCRIPTION Description
GO_ID GoIDs
SEQUENCE Sequence

Data table
ID COL ROW NAME SPOT_ID CONTROL_TYPE REFSEQ GB_ACC ENTREZ_GENE_ID GENE_SYMBOL GENE_NAME UNIGENE_ID ENSEMBL_ID ACCESSION_STRING CHROMOSOMAL_LOCATION CYTOBAND DESCRIPTION GO_ID SEQUENCE
1 192 328 GE_BrightCorner GE_BrightCorner pos
2 192 326 DarkCorner DarkCorner pos
3 192 324 DarkCorner DarkCorner pos
4 192 322 A_23_P110712 A_23_P110712 FALSE NM_004417 NM_004417 1843 DUSP1 dual specificity phosphatase 1 Hs.171695 ENST00000457103 ref|NM_004417|ens|ENST00000457103|ens|ENST00000239223|gb|AK300487 chr5:172195355-172195296 hs|5q35.1 Homo sapiens dual specificity phosphatase 1 (DUSP1), mRNA [NM_004417] GO:0000188(inactivation of MAPK activity)|GO:0001706(endoderm formation)|GO:0004726(non-membrane spanning protein tyrosine phosphatase activity)|GO:0005515(protein binding)|GO:0005625(soluble fraction)|GO:0005634(nucleus)|GO:0005654(nucleoplasm)|GO:0006470(protein dephosphorylation)|GO:0006979(response to oxidative stress)|GO:0007049(cell cycle)|GO:0008330(protein tyrosine/threonine phosphatase activity)|GO:0009416(response to light stimulus)|GO:0016787(hydrolase activity)|GO:0017017(MAP kinase tyrosine/serine/threonine phosphatase activity)|GO:0032355(response to estradiol stimulus)|GO:0032526(response to retinoic acid)|GO:0032870(cellular response to hormone stimulus)|GO:0033574(response to testosterone stimulus)|GO:0035556(intracellular signal transduction)|GO:0042542(response to hydrogen peroxide)|GO:0042981(regulation of apoptosis)|GO:0043065(positive regulation of apoptosis)|GO:0045768(positive regulation of anti-apoptosis)|GO:0051384(response to glucocorticoid stimulus)|GO:0051591(response to cAMP)|GO:0051592(response to calcium ion) TGTCTACTCCTAGAAGAACCAAATACCTCAATTTTTGTTTTTGAGTACTGTACTATCCTG
5 192 320 A_33_P3373765 A_33_P3373765 FALSE NM_000797 NM_000797 1815 DRD4 dopamine receptor D4 Hs.99922 ENST00000176183 ref|NM_000797|ens|ENST00000176183|gb|L12398|tc|NP087834 chr11:640644-640703 hs|11p15.5 Homo sapiens dopamine receptor D4 (DRD4), mRNA [NM_000797] GO:0000187(activation of MAPK activity)|GO:0001591(dopamine receptor activity, coupled via Gi/Go)|GO:0001662(behavioral fear response)|GO:0001963(synaptic transmission, dopaminergic)|GO:0001975(response to amphetamine)|GO:0004871(signal transducer activity)|GO:0004872(receptor activity)|GO:0004930(G-protein coupled receptor activity)|GO:0004952(dopamine receptor activity)|GO:0005515(protein binding)|GO:0005737(cytoplasm)|GO:0005886(plasma membrane)|GO:0005887(integral to plasma membrane)|GO:0005938(cell cortex)|GO:0006874(cellular calcium ion homeostasis)|GO:0007194(negative regulation of adenylate cyclase activity)|GO:0007195(inhibition of adenylate cyclase activity by dopamine receptor signaling pathway)|GO:0007212(dopamine receptor signaling pathway)|GO:0007614(short-term memory)|GO:0008144(drug binding)|GO:0008344(adult locomotory behavior)|GO:0008355(olfactory learning)|GO:0012506(vesicle membrane)|GO:0015459(potassium channel regulator activity)|GO:0016020(membrane)|GO:0017124(SH3 domain binding)|GO:0030424(axon)|GO:0030818(negative regulation of cAMP biosynthetic process)|GO:0032417(positive regulation of sodium:hydrogen antiporter activity)|GO:0033674(positive regulation of kinase activity)|GO:0034776(response to histamine)|GO:0035176(social behavior)|GO:0035240(dopamine binding)|GO:0042053(regulation of dopamine metabolic process)|GO:0042417(dopamine metabolic process)|GO:0042596(fear response)|GO:0043025(neuronal cell body)|GO:0043195(terminal button)|GO:0043197(dendritic spine)|GO:0046928(regulation of neurotransmitter secretion)|GO:0048148(behavioral response to cocaine)|GO:0048149(behavioral response to ethanol)|GO:0050482(arachidonic acid secretion)|GO:0050709(negative regulation of protein secretion)|GO:0050848(regulation of calcium-mediated signaling)|GO:0051586(positive regulation of dopamine uptake)|GO:0051927(negative regulation of calcium ion transport via voltage-gated calcium channel activity)|GO:0060080(regulation of inhibitory postsynaptic membrane potential) CTCAGGGACCAAGGAGATGGGGAGGGCGCTTTTGTACGTTAATTAAACAAATTCCTTCCC
6 192 318 A_33_P3325606 A_33_P3325606 FALSE NM_001242575 NM_001242575 100130451 LOC100130451 uncharacterized LOC100130451 ref|NM_001242575|gb|AK124960|tc|THC2486930 chr2:214141360-214141301 hs|2q34 Homo sapiens uncharacterized protein LOC100130451 (LOC100130451), mRNA [NM_001242575] GAGTTGCTTGAACCTTTATTCTAACATTTCCTTAAACAAGCCTCACCATTGACCTTTCTT
7 192 316 A_33_P3260322 A_33_P3260322 FALSE chr9:127279618-127279559 hs|9q33.3 ATGCATGTTTAGCAAGTGTTAGGTACTGTATTTGAACCAATAAATGTGAATCCTTCTGCA
8 192 314 A_21_P0013747 A_21_P0013747 FALSE XLOC_l2_015438 linc|TCONS_l2_00030118 chrX:1881853-1881912 hs|Xp22.33 BROAD Institute lincRNA (XLOC_l2_015438), lincRNA [TCONS_l2_00030118] TATAAGAAGGGCCCTAAATGCAATGACAGCTGTTCTAAGAGACAGAAGAGGAGACGCAGA
9 192 312 A_23_P258340 A_23_P258340 FALSE NM_021130 NM_021130 5478 PPIA peptidylprolyl isomerase A (cyclophilin A) Hs.356331 ref|NM_021130|ref|NM_001123068|ref|NM_001164261|ref|NM_001164262 chr7:44839400-44839459 hs|7p13 Homo sapiens peptidylprolyl isomerase A (cyclophilin A) (PPIA), mRNA [NM_021130] GO:0002576(platelet degranulation)|GO:0003755(peptidyl-prolyl cis-trans isomerase activity)|GO:0005515(protein binding)|GO:0005576(extracellular region)|GO:0005634(nucleus)|GO:0005737(cytoplasm)|GO:0005829(cytosol)|GO:0006278(RNA-dependent DNA replication)|GO:0006457(protein folding)|GO:0007596(blood coagulation)|GO:0016032(viral reproduction)|GO:0016853(isomerase activity)|GO:0019047(provirus integration)|GO:0019059(initiation of viral infection)|GO:0019061(uncoating of virus)|GO:0030168(platelet activation)|GO:0030260(entry into host cell)|GO:0042277(peptide binding)|GO:0044419(interspecies interaction between organisms)|GO:0045069(regulation of viral genome replication)|GO:0046790(virion binding)|GO:0050900(leukocyte migration)|GO:0051082(unfolded protein binding) ATCTTGTCCATGGCAAATGCTGGACCCAACACAAATGGTTCCCAGTTTTTCATCTGCACT
10 192 310 A_33_P3271480 A_33_P3271480 FALSE NR_026984 NR_026984 90784 LOC90784 uncharacterized LOC90784 Hs.594051 ref|NR_026984|gb|BC073824|tc|THC2496614 chr2:86247401-86247342 hs|2p11.2 Homo sapiens uncharacterized LOC90784 (LOC90784), non-coding RNA [NR_026984] GCCCAGCCTCATTTGTACTTCAGTTTGCAATTCTCTATTAATAAATCTAAGCATCTTTTC
11 192 308 A_23_P257231 A_23_P257231 FALSE NM_031279 NM_031279 64850 AGXT2L1 alanine-glyoxylate aminotransferase 2-like 1 Hs.106576 ref|NM_031279|ref|NM_001146590|ref|NM_001146627|ref|NR_027474 chr4:109663325-109663266 hs|4q25 Homo sapiens alanine-glyoxylate aminotransferase 2-like 1 (AGXT2L1), transcript variant 1, mRNA [NM_031279] GO:0005575(cellular_component)|GO:0005739(mitochondrion)|GO:0006520(cellular amino acid metabolic process)|GO:0008453(alanine-glyoxylate transaminase activity)|GO:0016740(transferase activity)|GO:0030170(pyridoxal phosphate binding) AGAGCAAAGTATAACAGGTGCCTTCACTTTTGAGACTTAGTGCCTTAAAATATGTATTCT
12 192 306 A_19_P00328977 A_19_P00328977 FALSE lincRNA:chr5:54162493-54208143_R chr5:54171393-54171334 hs|5q11.2 lincRNA:chr5:54162493-54208143 reverse strand TCCTGTCTTCCTGTCTGCTCCATTGCTCAGGTCTTTCCAGAAGCCATTGCCTGAAACCCT
13 192 304 A_33_P3483909 A_33_P3483909 FALSE AK127155 Hs.99443 ENST00000355500 ens|ENST00000355500|gb|AK127155|tc|THC2487562 chr11:36291254-36291195 hs|11p13 chromosome 11 open reading frame 55 [Source:HGNC Symbol;Acc:23262] [ENST00000355500] GTGATTAGTTCTGATGACTACTGACACCTGTCATTGGAACCAAAAGATTCCTCTTTTGCT
14 192 302 A_21_P0002860 A_21_P0002860 FALSE XLOC_003166 ENST00000465795 ens|ENST00000465795|tc|THC2713992|linc|TCONS_00005789 chr3:78088020-78087961 hs|3p12.3 BROAD Institute lincRNA (XLOC_003166), lincRNA [TCONS_00005789] ATCCAGGTTAATCACGCTACCCTTGGTTATCATCACATGTATTTCTGAAATTGTCTTTTA
15 192 300 A_21_P0000174 A_21_P0000174 FALSE AK309191 C5orf56 chromosome 5 open reading frame 56 gb|AK309191 chr5:131822490-131822549 hs|5q31.1 CCTCTTGGCCTTGCTCTTAGCATCTCGGCTGGACTTCGACTTTCTTTCTGTGGGGCAGAC
16 192 298 A_23_P139297 A_23_P139297 FALSE NM_017583 NM_017583 54765 TRIM44 tripartite motif containing 44 Hs.192103 ENST00000299413 ref|NM_017583|ens|ENST00000299413|gb|AK021823|gb|BC024031 chr11:35829049-35829108 hs|11p13 Homo sapiens tripartite motif containing 44 (TRIM44), mRNA [NM_017583] GO:0005515(protein binding)|GO:0005622(intracellular)|GO:0008270(zinc ion binding)|GO:0046872(metal ion binding) GGACTTCCTTGCTTTTCTCTACTTCCAAATCACAATTTCTTACAACCAAGCTTTGTGCTC
17 192 296 A_21_P0011163 A_21_P0011163 FALSE BC040271 XLOC_l2_003860 Hs.559193 ENST00000422994 ens|ENST00000422994|linc|TCONS_l2_00007012|linc|TCONS_l2_00007472 chr13:111749082-111749141 hs|13q34 BROAD Institute lincRNA (XLOC_l2_003860), lincRNA [TCONS_l2_00007012] TTCTAAGGCAGTATTTGTTTCAGGCTTTGCGACCAATCAGCAGTTTTCACACCCAGTCCT
18 192 294 A_33_P3386099 A_33_P3386099 FALSE NM_001114123 NM_001114123 2002 ELK1 ELK1, member of ETS oncogene family Hs.181128 ENST00000343894 ref|NM_001114123|ref|NM_005229|ens|ENST00000343894|ens|ENST00000480157 chrX:47500773-47500714 hs|Xp11.23 Homo sapiens ELK1, member of ETS oncogene family (ELK1), transcript variant 1, mRNA [NM_001114123] GO:0002224(toll-like receptor signaling pathway)|GO:0002755(MyD88-dependent toll-like receptor signaling pathway)|GO:0002756(MyD88-independent toll-like receptor signaling pathway)|GO:0003700(sequence-specific DNA binding transcription factor activity)|GO:0005515(protein binding)|GO:0005634(nucleus)|GO:0005654(nucleoplasm)|GO:0008063(Toll signaling pathway)|GO:0034130(toll-like receptor 1 signaling pathway)|GO:0034134(toll-like receptor 2 signaling pathway)|GO:0034138(toll-like receptor 3 signaling pathway)|GO:0034142(toll-like receptor 4 signaling pathway)|GO:0043565(sequence-specific DNA binding)|GO:0045087(innate immune response)|GO:0045893(positive regulation of transcription, DNA-dependent)|GO:0045944(positive regulation of transcription from RNA polymerase II promoter)|GO:0048011(nerve growth factor receptor signaling pathway)|GO:0051403(stress-activated MAPK cascade) TCATCTCCTGGACTTCACGGGATGGTGGTGAATTCAAGCTGGTGGATGCAGAGGAGGTGG
19 192 292 A_19_P00316933 A_19_P00316933 FALSE XLOC_006805 ENST00000519241 ens|ENST00000519241|ens|ENST00000519314|tc|THC2648003|linc|TCONS_00014707 chr8:58063204-58063263 hs|8q12.1 BC025020 Oact2 protein {Mus musculus} (exp=-1; wgp=0; cg=0), partial (4%) [THC2648003] TTGTGTAGCCGCCAGCTTCCATCTTTCTCCAGGCAGAACGCTGGCCCTCAGCACATCTTT
20 192 290 A_24_P146892 A_24_P146892 FALSE NM_032790 NM_032790 84876 ORAI1 ORAI calcium release-activated calcium modulator 1 Hs.55148 ENST00000330079 ref|NM_032790|ens|ENST00000330079|gb|AK027372|gb|BC013386 chr12:122079698-122079757 hs|12q24.31 Homo sapiens ORAI calcium release-activated calcium modulator 1 (ORAI1), mRNA [NM_032790] GO:0005216(ion channel activity)|GO:0005515(protein binding)|GO:0005886(plasma membrane)|GO:0005887(integral to plasma membrane)|GO:0006811(ion transport)|GO:0007596(blood coagulation)|GO:0015279(store-operated calcium channel activity)|GO:0030168(platelet activation)|GO:0051924(regulation of calcium ion transport)|GO:0051928(positive regulation of calcium ion transport) TTTCTGCACTTTGAAACTGTCCTCTAAGAGAATAAGCATTTCCTGTTCTCCCAGCTCCAG

Total number of rows: 62976

Table truncated, full table size 33251 Kbytes.




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