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Platform GPL16018 Query DataSets for GPL16018
Status Public on Mar 20, 2013
Title Agilent-029585 BosTaurus_AlHV-1_60K_v1.0
Technology type in situ oligonucleotide
Distribution custom-commercial
Organisms Bos taurus; Alcelaphine gammaherpesvirus 1
Manufacturer Agilent
Manufacture protocol See manufacturer's web site at http://www.agilent.com/
 
Description The microarray was custom designed for Agilent 8x60K slides. It targets both AlHV-1 by tiling array and Bos taurus transcripts: the AlHV-1 tiling has a 15bp sliding step between each 60-mer probe; Bos taurus transcripts were targeted with all 60-mer probes from Agilent's B. taurus (Bovine) Oligo Microarray v2_1. Probe design was performed by Agilent.
 
Submission date Sep 05, 2012
Last update date Sep 06, 2012
Contact name Leonor Palmeira
Organization name University of Liege
Department Faculty of Veterinary Medicine
Lab Immunology-Vaccinology
Street address Bd Colonster 20
City Liege
ZIP/Postal code 4000
Country Belgium
 
Samples (16) GSM998316, GSM998351, GSM998352, GSM998353, GSM998354, GSM998355 
Series (1)
GSE40644 Transcriptional analysis of Bos taurus and AlHV-1 in MDBK infected cells and in lymph nodes of infected calves

Data table header descriptions
ID
COL Column
ROW Row
NAME Probe Name
SPOT_ID Spot identifier
CONTROL_TYPE Control type ('FALSE' for non-control probes; 'pos' or 'neg' for control probes; 'ignore' for empty wells)
GB_ACC GenBank Accession number
LOCUSLINK_ID Locuslink ID
GENE_SYMBOL Gene name
GENE_NAME Gene description
UNIGENE_ID UniGene ID
ENSEMBL_ID Ensembl Transcript ID
ACCESSION_STRING Accession String
CHROMOSOMAL_LOCATION Chromosomal Location
DESCRIPTION Description
GO_ID Gene Ontolgy Annotation
SEQUENCE Sequence
RANGE_GB RefSeq accession.version of genome
RANGE_START Start position (relative to the RANGE_GB accession) // tiling array part
RANGE_END End position (relative to the RANGE_GB accession) // tiling array part
RANGE_STRAND Strand represented (relative to the RANGE_GB accession) // tiling array part

Data table
ID COL ROW NAME SPOT_ID CONTROL_TYPE GB_ACC LOCUSLINK_ID GENE_SYMBOL GENE_NAME UNIGENE_ID ENSEMBL_ID ACCESSION_STRING CHROMOSOMAL_LOCATION DESCRIPTION GO_ID SEQUENCE RANGE_GB RANGE_START RANGE_END RANGE_STRAND
1 192 328 GE_BrightCorner GE_BrightCorner pos
2 192 326 DarkCorner DarkCorner pos
3 192 324 DarkCorner DarkCorner pos
4 192 322 A_73_P286131 A_73_P286131 FALSE NM_001101237 615255 GMFB glia maturation factor, beta Bt.16111 ENSBTAT00000043708 ref|NM_001101237|ens|ENSBTAT00000043708|ens|ENSBTAT00000043707|gb|BC151658 chr10:68681672-68681613 Bos taurus glia maturation factor, beta (GMFB), mRNA [NM_001101237] GO:0003779(actin binding)|GO:0005622(intracellular)|GO:0008083(growth factor activity) GCTAGCAAAGGCATTTTATTTTTAAATTTTGGTGTATCTCCCATTCGTATGTGCTTTGCA
5 192 320 CUST_7191_PI425399611 CUST_7191_PI425399611 FALSE ref|NC_0025... unmapped GTGAGGGTTTATTTTTCCTGACTTAGAAGAGATATGGCTGAGTTTGCTGACAAATAGAAT NC_002531.1 22699 22758 -
6 192 318 CUST_7905_PI425399597 CUST_7905_PI425399597 FALSE ref|NC_002531.1|gi|10140926 unmapped GCACCTGGCCCATCTGGGCTATCTCGTTCAGGCCCCTCTGGTCCCTCAGGGCCTTCTCCT NC_002531.1 118561 118620 +
7 192 316 A_73_P387861 A_73_P387861 FALSE NM_001101256 616371 C8H9orf150 hypothetical LOC616371 Bt.56455 ENSBTAT00000035504 ref|NM_001101256|ens|ENSBTAT00000035504|gb|BC147906|tc|TC362008 chr8:33333881-33333868 Bos taurus hypothetical LOC616371 (C8H9orf150), mRNA [NM_001101256] GATTGGTGTGCAATTAACTTGTATTTATCTTCCTTCTCCGCTGCTAATTTTTGGTGTGAA
8 192 314 A_73_P056816 A_73_P056816 FALSE XM_002693854 524282 LOC524282 similar to olfactory receptor Olfr1134 ENSBTAT00000056401 ens|ENSBTAT00000056401|ens|ENSBTAT00000020621|ens|ENSBTAT00000054913|ens|ENSBTAT00000051955 unmapped ACACTCCTGTTTATGTATTTCAGACCCAGCTCCAGTTACTCCATGGACACAGACAAAACG
9 192 312 A_73_P068976 A_73_P068976 FALSE XM_002696570 540109 CRTC3 CREB regulated transcription coactivator 3 Bt.45260 ENSBTAT00000014501 ens|ENSBTAT00000014501|gb|XM_591546|ref|XM_002696570 chr21:21740289-21740230 PREDICTED: Bos taurus hypothetical LOC540109 (CRTC3), mRNA [XM_591546] TCCTTTCATTTGAGACCAAACCTGTATTCCAACTGCGGGAATTTCCCAAACACTGTCCTG
10 192 310 A_73_P316416 A_73_P316416 FALSE NM_001098015 511970 QRICH1 glutamine-rich 1 Bt.52379 ENSBTAT00000025183 ref|NM_001098015|ens|ENSBTAT00000025183|gb|BC140621|gb|BC119972 chr22:51893862-51893921 Bos taurus glutamine-rich 1 (QRICH1), mRNA [NM_001098015] GO:0003674(molecular_function)|GO:0005575(cellular_component)|GO:0008150(biological_process) AGAAATGTGGCCCCTTCCTTTCCTCCAGAAAGATGGAATTAATGATGGATGGACCTTCCA
11 192 308 A_73_P398796 A_73_P398796 FALSE NM_001193253 507204 NLK nemo-like kinase Bt.43996 ref|NM_001193253|tc|TC365544|ref|XM_002695742 chr19:19633388-19633447 Bos taurus nemo-like kinase (NLK), mRNA [NM_001193253] GAGAACTAGCTTGCACATTTTAGGTCTGTGAAATTTTGTGAGACTTTTCCTGCACTGGAC
12 192 306 A_73_P393216 A_73_P393216 FALSE NM_001101981 513828 TBC1D2 TBC1 domain family, member 2 Bt.20886 ENSBTAT00000026052 ref|NM_001101981|ens|ENSBTAT00000026052|gb|BC149120|tc|TC363748 chr8:66206947-66206888 Bos taurus TBC1 domain family, member 2 (TBC1D2), mRNA [NM_001101981] TACAGGATAGCCTGGAAATCTACCAGTACCTGCATTTCTTCACCAAGACCATCTGTGACA
13 192 304 CUST_5239_PI425399597 CUST_5239_PI425399597 FALSE ref|NC_002531.1|gi|10140926 unmapped ACACCCCCAGGATTAACTAATACCCTCTTGCTCACAGCAGGAGAGCATAACTCAGGCATA NC_002531.1 78571 78630 +
14 192 302 A_73_P089016 A_73_P089016 FALSE XM_002686964 616626 C4H7orf49 hypothetical LOC616626 Bt.105052 ENSBTAT00000002323 ens|ENSBTAT00000002323|gb|BC142124|ref|XM_002686964|ref|XM_868692 chr4:102511807-102511748 Bos taurus cDNA clone IMAGE:8221623. [BC142124] ATGAGGCGATCACGTGCTGTACAGATTGTCAGTGTAACAGATGCTGAAGAATACACAAAG
15 192 300 A_73_110957 A_73_110957 FALSE NM_001078037 613567 STX8 syntaxin 8 Bt.64576 ENSBTAT00000044575 ref|NM_001078037|ens|ENSBTAT00000044575|gb|BC102537|gb|DT829939 chr19:29295209-29210929 Bos taurus syntaxin 8 (STX8), mRNA [NM_001078037] GO:0006810(transport)|GO:0016020(membrane)|GO:0016021(integral to membrane)|GO:0031625(ubiquitin protein ligase binding) TGTGAATCTGGTGGACAGGAAGTCCACGTCTTGTGGGATGATAATGGTGATTTTACTGCT
16 192 298 CUST_2895_PI425399597 CUST_2895_PI425399597 FALSE ref|NC_002531.1|gi|10140926 unmapped CCTCACTAGCTTGGCATTTGGTGTGCTAATCTTAAGGCCTTGCTCCATTCTTTAGCCTTG NC_002531.1 43411 43470 +
17 192 296 A_73_P078281 A_73_P078281 FALSE NM_001083459 531493 SNRPE small nuclear ribonucleoprotein polypeptide E Bt.36560 ENSBTAT00000057036 ref|NM_001083459|ens|ENSBTAT00000057036|ens|ENSBTAT00000011044|ens|ENSBTAT00000022848 chr16:629173-631624 Bos taurus small nuclear ribonucleoprotein polypeptide E (SNRPE), mRNA [NM_001083459] GO:0003723(RNA binding)|GO:0005634(nucleus)|GO:0005681(spliceosomal complex)|GO:0005683(U7 snRNP)|GO:0006397(mRNA processing)|GO:0008380(RNA splicing) CTGGGTCGGATCATGCTAAAAGGAGATAACATTACTCTGATCCAAAGCGTCTCCAACTAG
18 192 294 A_73_115975 A_73_115975 FALSE XM_614107 534359 CLVS2 clavesin 2 Bt.84225 ENSBTAT00000028105 ens|ENSBTAT00000028105 chr9:29410743-29403465 GGAAAAGGATATTTTTGCATGGTAACAACCTGAACAGCCTGCACCAACTAATTCACCCTG
19 192 292 CUST_5640_PI425399597 CUST_5640_PI425399597 FALSE ref|NC_002531.1|gi|10140926 unmapped TCCTTTCATGTTGTGTTAGTTTCAGACTCAGGAGATGTCAGTATAGACATCTCTGCAGAG NC_002531.1 84586 84645 +
20 192 290 A_73_P244105 A_73_P244105 FALSE NM_001103328 100125285 SNX21 sorting nexin family member 21 Bt.78295 ref|NM_001103328|gb|BC151344 chr13:75381386-75381445 Bos taurus sorting nexin family member 21 (SNX21), mRNA [NM_001103328] AAAGTGAAAGTCTGACGCTGCCTCTCCAGCTTATGAATACCTGGGGGCCGTGACCCAGGT

Total number of rows: 62976

Table truncated, full table size 22692 Kbytes.




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