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Platform GPL6100 Query DataSets for GPL6100
Status Public on Dec 13, 2007
Title Illumina mouseRef-8 v1.0 expression beadchip
Technology type oligonucleotide beads
Distribution commercial
Organism Mus musculus
Manufacturer Illumina Inc.
Manufacture protocol see manufacturer's website
 
Description The Mouse-8 BeadChip can be used to study expression of over 24,000 mouse transcripts based on MEEBO, RefSeq and RIKEN FANTOM2 content. researchers can generate whole-genome expression profiles for 8 samples in parallel on a single BeadChip.

Please use the GEO Data Submission Report Plug-in v1.0 for Gene Expression which may be downloaded from https://icom.illumina.com/icom/software.ilmn?id=234 to format the normalized and raw data. These should be submitted as part of a GEOarchive. Instructions for assembling a GEOarchive may be found at 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) [email protected], [email protected]
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 (81) GSM264760, GSM264950, GSM264951, GSM264952, GSM264953, GSM264954 
Series (7)
GSE10470 Gene Expression Study in WT and ATF4 KO embryonic neurons
GSE15848 Functional genomic analysis of frataxin deficiency, Illumina data
GSE15849 Functional genomic analysis of frataxin deficiency

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
1450041 scl00227525.1_330 scl00227525.1_330-S GI_31342318 scl00227525.1_330 NM_175683.2 NM_175683.2 Dclre1c S 2725 CTGGGCAGCCGAGTATCAAGGTTATCGATGAAAACACTAAACACCTGAAG Mus musculus DNA cross-link repair 1C PSO2 homolog (S. cerevisiae) (Dclre1c) mRNA. 9930121L06Rik;Artemis;Snm1l
4540037 scl0003883.1_511 scl0003883.1_511-S GI_27229284 scl0003883.1_511 NM_148922.2 NM_148922.2 Mdm1 S 2653 GCCTTCTGTATACACAGGTGCAGTGTTAAGATGATTGGACTTTGAAAAGC Mus musculus transformed mouse 3T3 cell double minute 1 (Mdm1) mRNA. Mdm-1
1780056 scl16326.12.4_133 scl16326.12.4_133-S GI_6677654 scl16326.12.4_133 NM_009581.1 NM_009581.1 Zp3r S 20 ATTAATAGGTCATTTAGACTTTGCAATTAGTGGACAGAGTCTCCACGCAG Mus musculus zona pellucida 3 receptor (Zp3r) mRNA. go_component: acrosome [goid 0001669] [evidence IDA] [pmid 9890753]; go_component: extracellular space [goid 0005615] [evidence TAS] [pmid 12466851]; go_function: protein binding [goid 0005515] [evidence IPI] [pmid 7604284]; go_process: fertilization (sensu Animalia) [goid 0007338] [evidence IDA] [pmid 9890753]; go_process: binding of sperm to zona pellucida [goid 0007339] [evidence IDA] [pmid 7604284] SP56
610408 scl00269955.1_25 scl00269955.1_25-S GI_27734101 scl00269955.1_25 NM_173445.1 NM_173445.1 E430018M08Rik S 1920 CGACCCTGCTGTGTGGAGTACTTTGTAGAAAGACAACTTGAAGTAAGGGC Mus musculus RIKEN cDNA E430018M08 gene (E430018M08Rik) mRNA. 5830436H09
610369 scl0011717.2_283 scl0011717.2_283-S GI_6753047 scl0011717.2_283 NM_009667.1 NM_009667.1 Ampd3 S 1979 ACCGATGACCCCATGCAGTTTCACTACACAAAGAAGCGCTCATGGAGGAG Mus musculus AMP deaminase 3 (Ampd3) mRNA. go_function: hydrolase activity acting on carbon-nitrogen (but not peptide) bonds in cyclic amidines [goid 0016814] [evidence IEA]; go_function: AMP deaminase activity [goid 0003876] [evidence IEA]; go_function: hydrolase activity [goid 0016787] [evidence IEA]; go_function: deaminase activity [goid 0019239] [evidence IEA]; go_process: nucleotide metabolism [goid 0009117] [evidence IEA]; go_process: purine ribonucleoside monophosphate biosynthesis [goid 0009168] [evidence IEA]
1450014 scl52892.1.1_103 scl52892.1.1_103-S GI_31342363 scl52892.1.1_103 NM_176907.2 NM_176907.2 D830016O14Rik S 1919 GGTGTCTTTAACAAATCCCTCCAAAGTGAGCTTAATTTGACAAACATGGA Mus musculus RIKEN cDNA D830016O14 gene (D830016O14Rik) mRNA.
380019 scl0012946.2_3 scl0012946.2_3-S GI_7304978 scl0012946.2_3 NM_013499.1 NM_013499.1 Crry S 400 CGGAACCCAGCGCCATTTCTGGGTGGGACTGCTTTCTACACCATTTGCCG Mus musculus complement receptor related protein (Crry) mRNA. go_function: receptor activity [goid 0004872] [evidence IEA]; go_process: negative regulation of complement activation [goid 0045916] [evidence IMP] [pmid 10642554] Mcp;mCRY
6860707 scl33480.16_131 scl33480.16_131-S GI_31541972 scl33480.16_131 NM_026274.2 NM_026274.2 4930470D19Rik S 3301 TGAATTGTTGACTCTGTCTTCATCAAAAGTGTTTTATATCCCTCTCAGGG Mus musculus RIKEN cDNA 4930470D19 gene (4930470D19Rik) mRNA.
3780279 scl0018762.1_190 scl0018762.1_190-S GI_6679354 scl0018762.1_190 NM_008860.1 NM_008860.1 Prkcz S 1762 CATCAACCCACTTCTGCTGTCTGCTGAGGAGTCCGTGTGAGGCCATGAGC Mus musculus protein kinase C zeta (Prkcz) mRNA. go_function: protein kinase activity [goid 0004672] [evidence IEA]; go_function: protein serine/threonine kinase activity [goid 0004674] [evidence IEA]; go_function: ATP binding [goid 0005524] [evidence IEA]; go_function: transferase activity [goid 0016740] [evidence IEA]; go_function: diacylglycerol binding [goid 0019992] [evidence IEA]; go_function: protein-tyrosine kinase activity [goid 0004713] [evidence ISS] [pmid 12466851]; go_function: kinase activity [goid 0016301] [evidence IEA]; go_function: protein binding [goid 0005515] [evidence IPI] [pmid 12618484]; go_process: protein amino acid phosphorylation [goid 0006468] [evidence IEA]; go_process: intracellular signaling cascade [goid 0007242] [evidence IEA] Pkcz;zetaPKC
1850619 scl00063.1_124 scl00063.1_124-S GI_23308725 scl00063.1_124 NM_016680.2 NM_016680.2 Sfrs16 S 1894 CTGCCTCCCATGGGACTCCAGCTGGCCCCCAAGTCCCAGACTCTTGACTG Mus musculus splicing factor arginine/serine-rich 16 (suppressor-of-white-apricot homolog Drosophila) (Sfrs16) transcript variant L mRNA. go_component: nucleus [goid 0005634] [evidence IEA]; go_process: mRNA processing [goid 0006397] [evidence IEA]; go_process: nuclear mRNA splicing via spliceosome [goid 0000398] [evidence IEA] Clasp;Swap2
610088 scl45217.22.1_37 scl45217.22.1_37-S GI_39930442 scl45217.22.1_37 NM_028315.1 NM_028315.1 2810028N01Rik S 2884 CTCAACAGCAACAAAATGGAGAGCATACTTACAGACTCCTGTGCGATAGC Mus musculus RIKEN cDNA 2810028N01 gene (2810028N01Rik) mRNA. go_function: RNA binding [goid 0003723] [evidence ISS] [pmid 12466851]; go_function: ribonuclease activity [goid 0004540] [evidence ISS] [pmid 12466851]
870181 scl056379.2_58 scl056379.2_58-S GI_31543034 scl056379.2_58 NM_019659 NM_019659 Kcnj1 S 2732 CCTGGAGTGTGTATGATGCTAACACCGAATGGTTCTTGTGTTTCTCTGCC Mus musculus potassium inwardly-rectifying channel subfamily J member 1 (Kcnj1) mRNA. go_component: membrane [goid 0016020] [evidence IEA]; go_component: integral to membrane [goid 0016021] [evidence TAS] [pmid 12466851]; go_function: voltage-gated ion channel activity [goid 0005244] [evidence IEA]; go_function: ion channel activity [goid 0005216] [evidence IEA]; go_function: inward rectifier potassium channel activity [goid 0005242] [evidence IEA]; go_function: potassium channel activity [goid 0005267] [evidence IEA]; go_function: ATP binding [goid 0005524] [evidence IEA]; go_process: potassium ion transport [goid 0006813] [evidence IEA]; go_process: ion transport [goid 0006811] [evidence IEA] ROMK-2;Romk2
870400 scl0268448.7_23 scl0268448.7_23-S GI_30842821 scl0268448.7_23 NM_174852.2 NM_174852.2 Phf12 S 2222 CGCTTTAACCGTACCCTCTTTCCCAGCCAACTCTACTGCCATGGTGGACC Mus musculus PHD finger protein 12 (Phf12) mRNA. 2410142K10Rik;F630045O13;mKIAA1523;PF1
6290162 scl44375.15.1_26 scl44375.15.1_26-S GI_30794199 scl44375.15.1_26 NM_029898.1 NM_029898.1 C030011J08Rik S 2048 GTGAGATTACTCTAGTTTATATGAGCAAAGTCTTAATTTAGTAAGCTGCA Mus musculus RIKEN cDNA C030011J08 gene (C030011J08Rik) mRNA. go_function: DNA binding [goid 0003677] [evidence ISS] [pmid 12466851]; go_function: transcription factor activity [goid 0003700] [evidence ISS] [pmid 12466851]; go_process: regulation of transcription DNA-dependent [goid 0006355] [evidence ISS] [pmid 12466851]
4480390 scl0018933.1_65 scl0018933.1_65-S GI_6755115 scl0018933.1_65 NM_011127.1 NM_011127.1 Prrx1 S 633 CTCAAGTCCTACTCAGGAGACGTGACTGCTGTGGAGCAACCCATCGTACC Mus musculus paired related homeobox 1 (Prrx1) mRNA. go_component: nucleus [goid 0005634] [evidence IEA]; go_component: transcription factor complex [goid 0005667] [evidence IEA]; go_function: transcription factor activity [goid 0003700] [evidence IEA]; go_function: DNA binding [goid 0003677] [evidence IEA]; go_process: regulation of transcription DNA-dependent [goid 0006355] [evidence IEA]; go_process: development [goid 0007275] [evidence ISS] [pmid 12466851] A230024N07Rik;K-2;mHox;Pmx1;Prx1
5220112 scl0026384.1_20 scl0026384.1_20-S GI_6754029 scl0026384.1_20 NM_011937 NM_011937 Gnpda1 S 80 CCCAGGCCAGTGAGTGGGCGGCCAAGTATATTAGGAACCGTATCATCCAG Mus musculus glucosamine-6-phosphate deaminase 1 (Gnpda1) mRNA. go_function: catalytic activity [goid 0003824] [evidence IEA]; go_function: glucosamine-6-phosphate deaminase activity [goid 0004342] [evidence ISS] [pmid 12965206]; go_function: hydrolase activity [goid 0016787] [evidence IEA]; go_process: acrosome reaction [goid 0007340] [evidence TAS] [pmid 10481053]; go_process: carbohydrate metabolism [goid 0005975] [evidence IEA]; go_process: N-acetylglucosamine metabolism [goid 0006044] [evidence IEA]; go_process: fructose 6-phosphate metabolism [goid 0006002] [evidence ISS] [pmid 12965206]; go_process: glucosamine metabolism [goid 0006041] [evidence ISS] [pmid 12965206]; go_process: fructose biosynthesis [goid 0046370] [evidence ISS] [pmid 12965206] Gnp1;GNPDA;Gnpi;oscillin
5220736 scl29237.16.1_12 scl29237.16.1_12-S GI_9507108 scl29237.16.1_12 NM_019481.1 NM_019481.1 Slc13a1 S 2147 TAACATTGCAAACATCAACTTATTATTTGAAAATATTTTCTTATGAAACT Mus musculus solute carrier family 13 (sodium/sulphate symporters) member 1 (Slc13a1) mRNA. go_component: integral to plasma membrane [goid 0005887] [evidence ISS] [pmid 10766815]; go_component: membrane [goid 0016020] [evidence ISS] [pmid 12466851]; go_component: integral to membrane [goid 0016021] [evidence TAS] [pmid 12466851]; go_component: extracellular space [goid 0005615] [evidence TAS] [pmid 12466851]; go_function: sulfate porter activity [goid 0008271] [evidence IDA] [pmid 10766815]; go_function: symporter activity [goid 0015293] [evidence IEA]; go_function: transporter activity [goid 0005215] [evidence ISS] [pmid 12466851]; go_process: sulfate transport [goid 0008272] [evidence IDA] [pmid 10766815]; go_process: sodium ion transport [goid 0006814] [evidence ISS] [pmid 12466851]; go_process: symport [goid 0015983] [evidence IEA]; go_process: transport [goid 0006810] [evidence ISS] [pmid 12466851] Nas1;NaSi-1
4480546 scl0074102.2_20 scl0074102.2_20-S GI_31543731 scl0074102.2_20 NM_028756.2 NM_028756.2 Slc35a5 S 3795 GTGGAAGCCCTGTTGCTTGGGAGGTAGCTATTGTGGCTTTGTTACTGCTA Mus musculus solute carrier family 35 member A5 (Slc35a5) mRNA. 1010001J06Rik;D16Ertd450e
6370603 scl18491.1.2_327 scl18491.1.2_327-S GI_33563253 scl18491.1.2_327 NM_010226.1 NM_010226.1 Fkhl18 S 1243 GGGATGTGGGGAAATGGAACCCTTAAGCTTTTCTCTGTGGTTCTCAGGGC Mus musculus forkhead-like 18 (Drosophila) (Fkhl18) mRNA. go_component: transcription factor complex [goid 0005667] [evidence IEA]; go_component: nucleus [goid 0005634] [evidence IEA]; go_function: DNA binding [goid 0003677] [evidence IEA]; go_function: transcription factor activity [goid 0003700] [evidence IEA]; go_process: regulation of transcription DNA-dependent [goid 0006355] [evidence IEA] Fkh3;FREAC10
3840139 scl16334.7.1_2 scl16334.7.1_2-S GI_21703997 scl16334.7.1_2 NM_145507.1 NM_145507.1 Dars S 539 CTGAACCTCGCCTGCCCTTGCAGCTGGATGATGCCATTCGGCCTGAAGTG Mus musculus aspartyl-tRNA synthetase (Dars) mRNA. go_component: cytoplasm [goid 0005737] [evidence IEA]; go_component: intracellular [goid 0005622] [evidence ISS] [pmid 12466851]; go_function: aspartate-tRNA ligase activity [goid 0004815] [evidence ISS] [pmid 12466851]; go_function: nucleic acid binding [goid 0003676] [evidence ISS] [pmid 12466851]; go_function: ATP binding [goid 0005524] [evidence ISS] [pmid 12466851]; go_function: ligase activity [goid 0016874] [evidence ISS] [pmid 12466851]; go_function: tRNA ligase activity [goid 0004812] [evidence ISS] [pmid 12466851]; go_process: aspartyl-tRNA aminoacylation [goid 0006422] [evidence ISS] [pmid 12466851]; go_process: tRNA aminoacylation for protein translation [goid 0006418] [evidence ISS] [pmid 12466851]; go_process: protein biosynthesis [goid 0006412] [evidence ISS] [pmid 12466851] 5730439G15Rik

Total number of rows: 23983

Table truncated, full table size 10809 Kbytes.






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