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Platform GPL20604 Query DataSets for GPL20604
Status Public on Jan 15, 2016
Title Agilent-041648 LincRNA 60K Microarray PVD version 2 (probe name 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 New version of the custom lincRNA expression array. The missing probe group 028004_028004_D_20100409_10 is included
eatures 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 probe names
 
Submission date Jun 23, 2015
Last update date Jan 15, 2016
Contact name Pieter mestdagh
E-mail(s) pieter.mestdagh@ugent.be
Organization name Center for Medical Genetics
Street address De Pintelaan 185
City Gent
ZIP/Postal code 9000
Country Belgium
 
Samples (65) GSM1717959, GSM1717960, GSM1717961, GSM1717962, GSM1717963, GSM1717964 
Series (6)
GSE70176 Targeting the lineage-specific long non-coding RNA LINC01212 as an effective anti-melanoma therapeutic strategy [1]
GSE70180 Targeting the lineage-specific long non-coding RNA LINC01212 as an effective anti-melanoma therapeutic strategy
GSE79979 LIN28B is overexpressed in specific subtypes of pediatric leukemia and regulates lncRNA H19 [Oci-AML3]

Data table header descriptions
ID Agilent probe name
SPOT_ID Spot identifier
CONTROL_TYPE Control type
REFSEQ RefSeqAccession
GB_ACC GenBank Accession number
LOCUSLINK_ID LocuslinkID
GENE_SYMBOL Gene Symbol
GENE_NAME Gene Name
UNIGENE_ID UnigeneID
ENSEMBL_ID EnsemblID
TIGR_ID TIGRID
ACCESSION_STRING Accession String
CHROMOSOMAL_LOCATION Chromosomal Location
CYTOBAND Cytoband
DESCRIPTION Description
GO_ID GoIDs
SEQUENCE Sequence

Data table
ID SPOT_ID CONTROL_TYPE REFSEQ GB_ACC LOCUSLINK_ID GENE_SYMBOL GENE_NAME UNIGENE_ID ENSEMBL_ID TIGR_ID ACCESSION_STRING CHROMOSOMAL_LOCATION CYTOBAND DESCRIPTION GO_ID SEQUENCE
A_23_P100001 A_23_P100001 FALSE NM_207446 NM_207446 FAM174B ENST00000327355 ref|NM_207446|ens|ENST00000327355|gb|CR606671|gb|AK075564 chr15:93160848-93160789 Homo sapiens family with sequence similarity 174, member B (FAM174B), mRNA [NM_207446] ATCTCATGGAAAAGCTGGATTCCTCTGCCTTACGCAGAAACACCCGGGCTCCATCTGCCA
A_23_P100022 A_23_P100022 FALSE NM_014848 NM_014848 SV2B ENST00000330276 ref|NM_014848|ref|NM_001167580|ens|ENST00000330276|ens|ENST00000545111 chr15:91838329-91838388 Homo sapiens synaptic vesicle glycoprotein 2B (SV2B), transcript variant 1, mRNA [NM_014848] ATGTCGGCTGTGGAGGGTTAAAGGGATGAGGCTTTCCTTTGTTTAGCAAATCTGTTCACA
A_23_P100056 A_23_P100056 FALSE NM_194272 NM_194272 RBPMS2 ENST00000300069 ref|NM_194272|ens|ENST00000300069|gb|AK127873|gb|AK124123 chr15:65032375-65032316 Homo sapiens RNA binding protein with multiple splicing 2 (RBPMS2), mRNA [NM_194272] CCCTGTCAGATAAGTTTAATGTTTAGTTTGAGGCATGAAGAAGAAAAGGGTTTCCATTCT
A_23_P100074 A_23_P100074 FALSE NM_020371 NM_020371 57099 AVEN apoptosis, caspase activation inhibitor Hs.555966 ENST00000306730 ref|NM_020371|ens|ENST00000306730|gb|AF283508|gb|BC010488 chr15:34158739-34158680 hs|15q14 Homo sapiens apoptosis, caspase activation inhibitor (AVEN), mRNA [NM_020371] GO:0005515(protein binding)|GO:0005622(intracellular)|GO:0005624(membrane fraction)|GO:0006915(apoptosis)|GO:0006916(anti-apoptosis)|GO:0012505(endomembrane system)|GO:0016020(membrane) GACCAGCCAGTTTACAAGCATGTCTCAAGCTAGTGTGTTCCATTATGCTCACAGCAGTAA
A_23_P100127 A_23_P100127 FALSE NM_170589 NM_170589 57082 CASC5 cancer susceptibility candidate 5 Hs.181855 ENST00000260369 ref|NM_170589|ref|NM_144508|ens|ENST00000260369|ens|ENST00000533001 chr15:40917525-40917584 hs|15q15.1 Homo sapiens cancer susceptibility candidate 5 (CASC5), transcript variant 1, mRNA [NM_170589] GO:0000087(M phase of mitotic cell cycle)|GO:0000236(mitotic prometaphase)|GO:0000278(mitotic cell cycle)|GO:0000777(condensed chromosome kinetochore)|GO:0001669(acrosomal vesicle)|GO:0001675(acrosome assembly)|GO:0005515(protein binding)|GO:0005634(nucleus)|GO:0005654(nucleoplasm)|GO:0005694(chromosome)|GO:0005730(nucleolus)|GO:0005829(cytosol)|GO:0006334(nucleosome assembly)|GO:0007059(chromosome segregation)|GO:0008608(attachment of spindle microtubules to kinetochore)|GO:0010923(negative regulation of phosphatase activity)|GO:0034080(CenH3-containing nucleosome assembly at centromere)|GO:0051301(cell division)|GO:0071173(spindle assembly checkpoint) CGGTCTCTAGCAAAGATTCAGGCATTGGATCTGTTGCAGGTAAACTGAACCTAAGTCCTT
A_23_P100141 A_23_P100141 FALSE NM_023076 NM_023076 64718 UNKL unkempt homolog (Drosophila)-like Hs.643536 ENST00000397464 ref|NM_023076|ref|NM_001193388|ref|NM_001193389|ens|ENST00000397464 chr16:1415345-1415286 hs|16p13.3 Homo sapiens unkempt homolog (Drosophila)-like (UNKL), transcript variant 3, mRNA [NM_023076] GO:0003676(nucleic acid binding)|GO:0005634(nucleus)|GO:0005737(cytoplasm)|GO:0008270(zinc ion binding)|GO:0016874(ligase activity)|GO:0046872(metal ion binding) AGCAGAGGGGATCCAACGTCAGAGCTTTTAGAATTACTTTTTTAAGCAGCTGTCTTCTGG
A_23_P100189 A_23_P100189 FALSE NM_002761 NM_002761 5619 PRM1 protamine 1 Hs.2909 ENST00000312511 ref|NM_002761|ens|ENST00000312511|gb|Y00443|gb|AY651260 chr16:11374862-11374803 hs|16p13.13 Homo sapiens protamine 1 (PRM1), mRNA [NM_002761] GO:0000786(nucleosome)|GO:0003677(DNA binding)|GO:0005634(nucleus)|GO:0005654(nucleoplasm)|GO:0005694(chromosome)|GO:0006323(DNA packaging)|GO:0006997(nucleus organization)|GO:0007275(multicellular organismal development)|GO:0007283(spermatogenesis)|GO:0007286(spermatid development)|GO:0030154(cell differentiation)|GO:0030261(chromosome condensation) GTAGAAGACACTAATTGCACAAAATAGCACATCCACCAAACTCCTGCCTGAGAATGTTAC
A_23_P100196 A_23_P100196 FALSE NM_005153 NM_005153 9100 USP10 ubiquitin specific peptidase 10 Hs.136778 ENST00000219473 ref|NM_005153|ens|ENST00000219473|ens|ENST00000397953|ens|ENST00000540269 chr16:84812831-84812890 hs|16q24.1 Homo sapiens ubiquitin specific peptidase 10 (USP10), mRNA [NM_005153] GO:0002039(p53 binding)|GO:0004221(ubiquitin thiolesterase activity)|GO:0004843(ubiquitin-specific protease activity)|GO:0005515(protein binding)|GO:0005634(nucleus)|GO:0005737(cytoplasm)|GO:0005769(early endosome)|GO:0006281(DNA repair)|GO:0006508(proteolysis)|GO:0006511(ubiquitin-dependent protein catabolic process)|GO:0008233(peptidase activity)|GO:0008234(cysteine-type peptidase activity)|GO:0016579(protein deubiquitination)|GO:0030330(DNA damage response, signal transduction by p53 class mediator)|GO:0042980(cystic fibrosis transmembrane conductance regulator binding)|GO:0045111(intermediate filament cytoskeleton) TTGGGGTTCGTGCACAACACAGCTTCTGTTGACTCTAACTTCCAAATCAAAATCATTTGG
A_23_P100203 A_23_P100203 FALSE NM_001537 NM_001537 3281 HSBP1 heat shock factor binding protein 1 Hs.250899 ENST00000433866 ref|NM_001537|ens|ENST00000433866|gb|AK172732|gb|BX537440 chr16:83846244-83846303 hs|16q23.3 Homo sapiens heat shock factor binding protein 1 (HSBP1), mRNA [NM_001537] GO:0000122(negative regulation of transcription from RNA polymerase II promoter)|GO:0003714(transcription corepressor activity)|GO:0005634(nucleus)|GO:0005856(cytoskeleton)|GO:0006936(muscle contraction) ACAAATTACATGGGGAACATAAAGGAGTGAGATCCTTCTGTGATAAAATGAATTCACCAC
A_23_P100220 A_23_P100220 FALSE NM_024939 NM_024939 80004 ESRP2 epithelial splicing regulatory protein 2 Hs.592053 ENST00000251366 ref|NM_024939|ens|ENST00000251366|gb|BC030146|gb|BC052309 chr16:68263113-68263054 hs|16q22.1 Homo sapiens epithelial splicing regulatory protein 2 (ESRP2), mRNA [NM_024939] GO:0000166(nucleotide binding)|GO:0003729(mRNA binding)|GO:0005634(nucleus)|GO:0006397(mRNA processing)|GO:0043484(regulation of RNA splicing) CTCAACTGCTGGCTCTTCTTCCCTTTGTATTTGTGTAAGGAGCACTGCACTCCCATAAAA
A_23_P100240 A_23_P100240 FALSE NM_004062 NM_004062 1014 CDH16 cadherin 16, KSP-cadherin Hs.513660 ref|NM_004062|ref|NM_001204744|ref|NM_001204745|ref|NM_001204746 chr16:66942101-66942042 hs|16q22.1 Homo sapiens cadherin 16, KSP-cadherin (CDH16), transcript variant 1, mRNA [NM_004062] GO:0005509(calcium ion binding)|GO:0005886(plasma membrane)|GO:0007155(cell adhesion)|GO:0007156(homophilic cell adhesion)|GO:0016021(integral to membrane) GGGAGTGCTCCAAATGTCAGGGTGTTTGCCCAATAATAAAGCCCCAGAGAACTGGGCTGG
A_23_P10025 A_23_P10025 FALSE NM_006159 NM_006159 4753 NELL2 NEL-like 2 (chicken) Hs.505326 ref|NM_006159|ref|NM_001145108|ref|NM_001145107|ref|NM_001145110 chr12:44902496-44902437 hs|12q12 Homo sapiens NEL-like 2 (chicken) (NELL2), transcript variant 2, mRNA [NM_006159] GO:0005198(structural molecule activity)|GO:0005509(calcium ion binding)|GO:0005515(protein binding)|GO:0005576(extracellular region)|GO:0007155(cell adhesion)|GO:0040008(regulation of growth) ACATCACCATGTAGAAGAATGGGCGTACAGTATATACCGTGACATCCTGAACCCTGGATA
A_23_P100292 A_23_P100292 FALSE AK024487 90850 ZNF598 zinc finger protein 598 Hs.343828 gb|AK024487|gb|BC010243|gb|BC029270|gb|BC041015 chr16:2047756-2047697 hs|16p13.3 Homo sapiens mRNA for FLJ00086 protein, partial cds. [AK024487] GO:0005622(intracellular)|GO:0008270(zinc ion binding)|GO:0046872(metal ion binding) TGAATCTTTTTATGAGACAAGCTGAATCTGGGATCTCAAATTGCCTCTGACCTTTTATAA
A_23_P100315 A_23_P100315 FALSE NM_020664 NM_020664 DECR2 ENST00000439661 ref|NM_020664|ens|ENST00000439661|ens|ENST00000382934|ens|ENST00000461749 chr16:462221-462280 Homo sapiens 2,4-dienoyl CoA reductase 2, peroxisomal (DECR2), mRNA [NM_020664] CATGGATCCCGAGACTTGTGTTCTCTTGGCTGAAAACACTGAGGTGCTCCCATCTGTGCG
A_23_P100326 A_23_P100326 FALSE NM_001039476 NM_001039476 NPRL3 ENST00000399953 ref|NM_001039476|ref|NM_001077350|ens|ENST00000399953|ens|ENST00000262313 chr16:135898-135839 Homo sapiens nitrogen permease regulator-like 3 (S. cerevisiae) (NPRL3), transcript variant 2, mRNA [NM_001039476] AGCTAGCTCCAGACATGGGTTGATCACCTAGAGGAGCTCTGGCTAAGGCACAGTTTTCTA
A_23_P100344 A_23_P100344 FALSE NM_014321 NM_014321 23594 ORC6 origin recognition complex, subunit 6 Hs.49760 ENST00000219097 ref|NM_014321|ref|NR_037620|ens|ENST00000219097|gb|BC050725 chr16:46731519-46731578 hs|16q11.2 Homo sapiens origin recognition complex, subunit 6 (ORC6), transcript variant 1, mRNA [NM_014321] GO:0000075(cell cycle checkpoint)|GO:0000082(G1/S transition of mitotic cell cycle)|GO:0000084(S phase of mitotic cell cycle)|GO:0000216(M/G1 transition of mitotic cell cycle)|GO:0000278(mitotic cell cycle)|GO:0000808(origin recognition complex)|GO:0003677(DNA binding)|GO:0005634(nucleus)|GO:0005654(nucleoplasm)|GO:0005664(nuclear origin of replication recognition complex)|GO:0006260(DNA replication) ACATTCCAAACTGATAGTACATTGCCATCTCCAGGAAGACTTGACGGCTTTGGGATTTTG
A_23_P100355 A_23_P100355 FALSE NM_002720 NM_002720 5531 PPP4C protein phosphatase 4, catalytic subunit Hs.534338 ENST00000279387 ref|NM_002720|ens|ENST00000279387|gb|BT019746|gb|AB464104 chr16:30096047-30096106 hs|16p11.2 Homo sapiens protein phosphatase 4, catalytic subunit (PPP4C), mRNA [NM_002720] GO:0000226(microtubule cytoskeleton organization)|GO:0004704(NF-kappaB-inducing kinase activity)|GO:0004722(protein serine/threonine phosphatase activity)|GO:0005515(protein binding)|GO:0005634(nucleus)|GO:0005737(cytoplasm)|GO:0005813(centrosome)|GO:0005856(cytoskeleton)|GO:0010569(regulation of double-strand break repair via homologous recombination)|GO:0016787(hydrolase activity)|GO:0046872(metal ion binding) TGGCCCAGTTCAACGCAGCCAATGACATTGACATGATCTGCCGTGCCCACCAACTGGTGA
A_23_P100386 A_23_P100386 FALSE NM_152456 NM_152456 146433 IL34 interleukin 34 Hs.461214 ENST00000429149 ref|NM_152456|ref|NM_001172771|ref|NM_001172772|ens|ENST00000429149 chr16:70688562-70690551 hs|16q22.1 Homo sapiens interleukin 34 (IL34), transcript variant 1, mRNA [NM_152456] GO:0001934(positive regulation of protein phosphorylation)|GO:0005125(cytokine activity)|GO:0005157(macrophage colony-stimulating factor receptor binding)|GO:0005576(extracellular region)|GO:0005615(extracellular space)|GO:0008083(growth factor activity)|GO:0008284(positive regulation of cell proliferation) ACTTCAGTACATGAAACACTACTTCCCCATCAACTACAAGATCAGTGTGCCTTACGAGGG
A_23_P100392 A_23_P100392 FALSE NM_007108 NM_007108 6923 TCEB2 transcription elongation factor B (SIII), polypeptide 2 (18kDa, elongin B) Hs.172772 ENST00000409906 ref|NM_007108|ref|NM_207013|ens|ENST00000409906|ens|ENST00000262306 chr16:2821589-2821530 hs|16p13.3 Homo sapiens transcription elongation factor B (SIII), polypeptide 2 (18kDa, elongin B) (TCEB2), transcript variant 1, mRNA [NM_007108] GO:0005515(protein binding)|GO:0005634(nucleus)|GO:0005654(nucleoplasm)|GO:0005829(cytosol)|GO:0006355(regulation of transcription, DNA-dependent)|GO:0006366(transcription from RNA polymerase II promoter)|GO:0006368(transcription elongation from RNA polymerase II promoter)|GO:0006461(protein complex assembly)|GO:0010467(gene expression)|GO:0016032(viral reproduction)|GO:0050434(positive regulation of viral transcription) CAGACGATGGCCAAGAGCAGAAACACAAGCTGGAGCCAGTGTCCTGGTTTGACAGCATGT
A_23_P100420 A_23_P100420 FALSE NM_015144 NM_015144 23174 ZCCHC14 zinc finger, CCHC domain containing 14 Hs.156231 ENST00000268616 ref|NM_015144|ens|ENST00000268616|gb|AB030243|gb|AB011151 chr16:87440191-87440132 hs|16q24.2 Homo sapiens zinc finger, CCHC domain containing 14 (ZCCHC14), mRNA [NM_015144] GO:0003676(nucleic acid binding)|GO:0007154(cell communication)|GO:0008270(zinc ion binding)|GO:0035091(phosphatidylinositol binding)|GO:0046872(metal ion binding) GCTTTGGTACTGAAACTGGACACCTTGTGTACTCGATACCTTCACAGCTTCTATTGGACA

Total number of rows: 57244

Table truncated, full table size 19446 Kbytes.




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Supplementary file Size Download File type/resource
GPL20604_041648_D_GEO_20120615.txt.gz 7.0 Mb (ftp)(http) TXT

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