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Platform GPL3069 Query DataSets for GPL3069
Status Public on Nov 16, 2005
Title Adelaide Microarray Facility CompuGen OligoLibrary Mouse 22k v3.0
Technology type spotted oligonucleotide
Distribution non-commercial
Organism Mus musculus
Manufacturer Adelaide Microarray Facility, University of Adelaide, Australia
Manufacture protocol CompuGen Mouse OligoLibrary V2.0 comprising 21,991 65-mers representing 21,587 unique genes. Additional locally made control plate spotted. Spots printed onto Corning CMT-GAPS slides using a 4x16 pinhead robot. Each print head printed an array of 480 spots arranges as a 24 rows by 20 columns (23040 features per array). See www.microarray.adelaide.edu.au for printing details.
Support glass
Coating unknown
 
Description 4x16 print groups, 24rows x 20 cols per print-tip group. Platform contains single copy of the CompuGen Mouse OligoLibrary v2.0 (IDs start with CGEN), plus a in house produced control plate (IDs start with AMC). This spotting layout is version 3.0, and is similar (identical) to version 1.0. The last few columns of this description also contain positions of a given spot in the previous layout (version 2.1). this was unique for the CompuGen library, but not for all control spots. The control plate spotted twice in this layout (last 16 rows of col 1 in each block), but only once in the version 2.1 layout (in the last 8 rows of col 1 in each block)).
 
Web link http://www.microarray.adelaide.edu.au
http://www.labonchip.com
Contributor(s) Connolly A, Van der Hoek M, Wilkinson CR
Submission date Nov 10, 2005
Last update date Nov 16, 2005
Contact name Christopher Wilkinson
E-mail(s) christopher.wilkinson@adelaide.edu.au
Phone 618 8161 6363
Organization name Child Health Research Institute
Street address 72 King William Road
City North Adelaide
State/province South Australia
ZIP/Postal code 5006
Country Australia
 
Samples (12) GSM385369, GSM385370, GSM385371, GSM385372, GSM385373, GSM385374 
Series (2)
GSE15345 Expression of survivin in lung eosinophils is associated with pathology in a mouse model of allergic asthma 1
GSE15429 Expression of survivin in lung eosinophils is associated with pathology in a mouse model of allergic asthma

Data table header descriptions
ID Unique Spot ID based on CompuGen ID, or ID in local control plate
Index index based on (row-1)*20 + col + (block - 1)*(480)
Block print tip group 1-48. 1 is top left, 48 is top right, 1-4 is top row, 5-8 is second row etc
Row within grid row (1..24)
Col
SpotType Spot Type (Gene, HouseKeeping, Control, Buffer)
GB_ACC GenBank Accession
Description GenBank Description
CGENPlate 384 well Plate ID from CompuGen OligoLibrary
CGENLocn Location within Plate from CompuGen OligoLibrary
CGENID Unique CompuGen ID (or Adelaide Microarray ID for control spots)
CGENACC Original GenBank Accession in CompuGen Library Description File
CGENDescription Original GenBank Description in CompuGen Library Description File
AccMatch Original GenBank Accession in CompuGen Library Description File
DesMatch Percentage overlap between CompuGen Description, and updated GenBank description supplied by Adelaide Microarray Facility
GBStatus Status of GenBank Accession (eg unchanged, replaced, under review)
UGCluster Mouse UniGene Cluster ID (Build 148)
GeneName Official gene name (NCBI)
Symbol Official Symbol (NCBI)
Aliases Gene Aliases
EntrezGeneID Entrez Gene Accession ID
UGRepAcc Unigene Representative Protein Accession (from UGCluster via source.stanford.edu)
LLRepProtAcc Entrez Gene Representative Protein Accession (from UGCluster via source.stanford.edu)
Chromosome Chromosomal location (from UGCluster via source.stanford.edu)
Cytoband Cytoband (from UGCluster via source.stanford.edu)
SumFunc Summary Function (from UGCluster via source.stanford.edu)
GO Gene Ontology annotations (from UGCluster via source.stanford.edu)
GOabr
OtherDesignations (from UGCluster via source.stanford.edu)
MGI MGI ID
HsEntrezGene Human Entrez Gene ID via MGI mapping with file MGItoHsGeneID.txt
HsSymbol Official Human Gene Symbol
Date
IndexRun2 index of this spot in print layout version 2.1
BlockRun2 print tip group 1-48 in layout version 2.1. 1 is top left, 48 is top right, 1-4 is top row, 5-8 is second row etc
RowRun2 within grid row (1..24) for layout version 2.1
ColumnRun2 within grid column (1..20) for layout version 2.1
SPOT_ID

Data table
ID Index Block Row Col SpotType GB_ACC Description CGENPlate CGENLocn CGENID CGENACC CGENDescription AccMatch DesMatch GBStatus UGCluster GeneName Symbol Aliases EntrezGeneID UGRepAcc LLRepProtAcc Chromosome Cytoband SumFunc GO GOabr OtherDesignations MGI HsEntrezGene HsSymbol Date IndexRun2 BlockRun2 RowRun2 ColumnRun2 SPOT_ID
CGEN_MOUSE_EXT_3103324_1 1 1 1 1 Gene AF401681 Mus musculus LNX2 mRNA, complete cds 29 L1 CGEN_MOUSE_EXT_3103324_1 AF401681 Mus musculus LNX2 mRNA, complete cds 1 1 Unchanged Mm.272203 ligand of numb-protein X 2 Lnx2 MGI:2155959, 9630046H24 140887 AF401681 NP_542985 5 5 G3 molecular function|PDZ domain binding|IDA|GO:0030165|MGI|11922143//biological process|intracellular signaling cascade|ISS|GO:0007242|MGI|12466851//molecular function|protein binding|IPI|GO:0005515|MGI|11922143//biological process|protein homooligomerization|IDA|GO:0051260|MGI|11922143//biological process|protein ubiquitination|IEA|GO:0016567|MGI|na//cellular component|ubiquitin ligase complex|IEA|GO:0000151|MGI|na//molecular function|ubiquitin-protein ligase activity|IEA|GO:0004842|MGI|na//molecular function|zinc ion binding|IEA|GO:0008270|MGI|na PDZ domain binding|intracellular signaling cascade|protein binding|protein homooligomerization|protein ubiquitination|ubiquitin ligase complex|ubiquitin-protein ligase activity|zinc ion binding PDZ domain containing ring finger 1 MGI:2155959 222484 LNX2 15072005 251 1 13 11
CGEN_MOUSE_EXT_3102892_1 2 1 1 2 Gene AF029238 Mus musculus hybridoma 4F10 Ig heavy chain mRNA, partial cds 28 D1 CGEN_MOUSE_EXT_3102892_1 AF029238 Mus musculus hybridoma 4F10 Ig heavy chain mRNA, partial cds 1 1 Unchanged Mm.291537 Immunoglobulin heavy chain (gamma polypeptide) Ighg ||||Ighg||Immunoglobulin heavy chain (gamma polypeptide)|| 380794; 16059 BC092269 NP_997616 12 12 F1 biological process|immune response|IEA|GO:0006955|MGI|na immune response MGI:2144967 15072005 11 1 1 11
CGEN_MOUSE_EXT_3102172_1 3 1 1 3 Gene S45356 immunoglobulin heavy chain variable=anti-human IL-2R [mice, mRNA Partial, 488 nt] 26 L1 CGEN_MOUSE_EXT_3102172_1 S45356 immunoglobulin heavy chain variable=anti-human IL-2R [mice, mRNA Partial, 488 nt] 1 1 Unchanged 15072005 252 1 13 12
CGEN_MOUSE_EXT_3101740_1 4 1 1 4 Gene M97872 Mouse hybridoma Ig rearranged H-chain mRNA V-region, partial cds 25 D1 CGEN_MOUSE_EXT_3101740_1 M97872 Mouse hybridoma Ig rearranged H-chain mRNA V-region, partial cds 1 1 Unchanged Mm.313360 Immunogloblin heavy chain variable region XM_111361 12 15072005 12 1 1 12
CGEN_MOUSE_EXT_3101020_1 5 1 1 5 Gene Z22547 M.musculus immunoglobulin light chain gene, variable region 23 L1 CGEN_MOUSE_EXT_3101020_1 Z22547 M.musculus immunoglobulin light chain gene, variable region 1 1 Unchanged Mm.333124 Immunoglobulin kappa chain, constant region Igk-C ||||Igk-C||Immunoglobulin kappa chain, constant region|| 16071; 384422; 16114; 16098; 243469 BG969221 6 15072005 253 1 13 13
CGEN_MOUSE_EXT_3100588_1 6 1 1 6 Gene AB051897 Mus musculus Scya6, Scya9, Scya16-ps, Scya5 genes for small inducible cytokine A6 precursor, small inducible cytokine A9 precursor, Scya16 pseudogene, small inducible cytokine A5 precursor, complete cds 22 D1 CGEN_MOUSE_EXT_3100588_1 AB051897 Mus musculus Scya6, Scya9, Scya16-ps, Scya5 genes for small inducible cytokine A6 precursor, small inducible cytokine A9 precursor, Scya16 pseudogene, small inducible cytokine A5 precursor, complete cds., product = Scya16 pseudogene, gene = Scya16-ps, location = join(79112..79299,80281..80402,81449..82663), pseudo = , codon_start = 1, note = LEC pseudogene, name = CDS 1 0.9 Unchanged chemokine (C-C motif) ligand 16, pseudogene Ccl16-ps MGI:1341246, HCC-4, LEC, LMC, NCC-4, Scya16-ps, human CC chemokine 4, lymphocyte and monocyte chemoattactant, small inducible cytokine A16, pseudogene 20294 11 11 47.4 cM MGI:1341246 6360 CCL16 15072005 13 1 1 13
AMC_CTRL_011314v2_Empty 7 1 1 7 Buffer Empty 20 L1 AMC_CTRL_011314v2_Empty 1 1 Unchanged 15072005 254 1 13 14 -- EMPTY
CGEN_MOUSE_3007117_1 8 1 1 8 Gene M15434 Mouse histone H3.21 mRNA, 3' flank 19 D1 CGEN_MOUSE_3007117_1 M15434 Mouse histone H3.21 mRNA, 3' flank 1 1 Unchanged Mm.261657 Histone 1, H3g Hist1h3g ||Hist1h3g||M32460||H3.1-221||histone 1, H3g|| 97908 NM_145073 NP_659539 13 13 A2-A3 molecular function|DNA binding|IEA|GO:0003677|MGI|na//cellular component|chromosome|IEA|GO:0005694|MGI|na//biological process|chromosome organization and biogenesis (sensu Eukaryota)|IEA|GO:0007001|MGI|na//cellular component|nucleosome|IEA|GO:0000786|MGI|na//biological process|nucleosome assembly|IEA|GO:0006334|MGI|na//cellular component|nucleus|IEA|GO:0005634|MGI|na DNA binding|chromosome|chromosome organization and biogenesis (sensu Eukaryota)|nucleosome|nucleosome assembly|nucleus MGI:2145541 8355 HIST1H3G 15072005 14 1 1 14
CGEN_MOUSE_3006397_1 9 1 1 9 Gene NM_011672 Mus musculus ubiquitin fusion degradation 1 like (Ufd1l), mRNA 17 L1 CGEN_MOUSE_3006397_1 NM_011672 Mus musculus ubiquitin fusion degradation 1 like (Ufd1l), mRNA 1 1 Unchanged Mm.237594 ubiquitin fusion degradation 1 like Ufd1l MGI:109353, Ufd1 22230 AK035202 NP_035802 16 16 11.75 cM biological process|ubiquitin cycle|IEA|GO:0006512|MGI|na//biological process|ubiquitin-dependent protein catabolism|IEA|GO:0006511|MGI|na ubiquitin cycle|ubiquitin-dependent protein catabolism MGI:109353 7353 UFD1L 15072005 255 1 13 15
CGEN_MOUSE_3005965_1 10 1 1 10 Gene NM_020623 Mus musculus parathyroid hormone (Pth), mRNA 16 D1 CGEN_MOUSE_3005965_1 NM_020623 Mus musculus parathyroid hormone (Pth), mRNA 1 1 Unchanged Mm.284168 Parathyroid hormone Pth ||Pth||Parathyroid hormone|| 19226 CK790919 NP_065648 7 biological process|calcium ion homeostasis|TAS|GO:0006874|MGI|11606467//cellular component|extracellular region|ISS|GO:0005576|MGI|12466851//cellular component|extracellular space|IDA|GO:0005615|MGI|11606467,12466851//cellular component|extracellular space|TAS|GO:0005615|MGI|11606467,12466851//molecular function|hormone activity|IDA|GO:0005179|MGI|11606467,12466851//molecular function|hormone activity|ISS|GO:0005179|MGI|11606467,12466851 calcium ion homeostasis|extracellular region|extracellular space|extracellular space|hormone activity|hormone activity MGI:97799 5741 PTH 15072005 15 1 1 15
CGEN_MOUSE_3005245_1 11 1 1 11 Gene NM_007737 Mus musculus procollagen, type V, alpha 2 (Col5a2), mRNA 14 L1 CGEN_MOUSE_3005245_1 NM_007737 Mus musculus procollagen, type V, alpha 2 (Col5a2), mRNA 1 1 Unchanged Mm.10299 procollagen, type V, alpha 2 Col5a2 MGI:88458, D230017N05 12832 AK084803 NP_031763 1 1 C1 biological process|cell adhesion|IEA|GO:0007155|MGI|na//biological process|cellular physiological process|ISS|GO:0050875|MGI|12466851//cellular component|collagen|IEA|GO:0005581|MGI|na//cellular component|collagen type V|ISS|GO:0005588|MGI|12466851//cellular component|extracellular matrix (sensu Metazoa)|ISS|GO:0005578|MGI|12466851//molecular function|extracellular matrix structural constituent|ISS|GO:0005201|MGI|12466851//molecular function|extracellular matrix structural constituent conferring tensile strength|IEA|GO:0030020|MGI|na//cellular component|extracellular space|TAS|GO:0005615|MGI|12466851//molecular function|structural molecule activity|IEA|GO:0005198|MGI|na cell adhesion|cellular physiological process|collagen|collagen type V|extracellular matrix (sensu Metazoa)|extracellular matrix structural constituent|extracellular matrix structural constituent conferring tensile strength|extracellular space|structural molecule activity MGI:88458 1290 COL5A2 15072005 256 1 13 16
CGEN_MOUSE_3004813_1 12 1 1 12 Gene NM_011379 Mus musculus signal-induced proliferation associated gene 1 (Sipa1), mRNA 13 D1 CGEN_MOUSE_3004813_1 NM_011379 Mus musculus signal-induced proliferation associated gene 1 (Sipa1), mRNA 1 1 Unchanged Mm.3072 Signal-induced proliferation associated gene 1 Sipa1 ||Sipa1||Signal-induced proliferation associated gene 1|| 20469 AK220472 NP_035509 19 molecular function|GTPase activator activity|IEA|GO:0005096|MGI|na//cellular component|nucleus|IDA|GO:0005634|MGI|7799964//molecular function|protein binding|IEA|GO:0005515|MGI|na//biological process|regulation of cell cycle|IDA|GO:0000074|MGI|7799964 GTPase activator activity|nucleus|protein binding|regulation of cell cycle MGI:107576 6494 SIPA1 15072005 16 1 1 16
CGEN_MOUSE_3004093_1 13 1 1 13 Gene J03458 Mouse filaggrin mRNA, 3' end 11 L1 CGEN_MOUSE_3004093_1 J03458 Mouse filaggrin mRNA, 3' end 1 1 Unchanged Mm.162684 Filaggrin Flg ||Filaggrin||profilaggrin||Flg|| 14246 XM_485270 3 molecular function|calcium ion binding|IEA|GO:0005509|MGI|na//cellular component|cornified envelope|IDA|GO:0001533|MGI|11572870//biological process|cytoskeleton organization and biogenesis|TAS|GO:0007010|MGI|11572870//biological process|development|IEA|GO:0007275|MGI|na calcium ion binding|cornified envelope|cytoskeleton organization and biogenesis|development MGI:95553 2312 FLG 15072005 257 1 13 17
CGEN_MOUSE_3003661_1 14 1 1 14 Gene NM_008871 Mus musculus serine (or cysteine) proteinase inhibitor, clade E, member 1 (Serpine1), mRNA 10 D1 CGEN_MOUSE_3003661_1 NM_008871 Mus musculus serine (or cysteine) proteinase inhibitor, clade E (nexin, plasminogen activator inhibitor type 1), member 1 (Serpine1), mRNA 1 0.9 Unchanged Mm.250422 Serine (or cysteine) proteinase inhibitor, clade E, member 1 Serpine1 ||||PAI-1||PAI1||Serpine1||Planh1||serine (or cysteine) proteinase inhibitor, clade E, member 1|| 18787 M33960 NP_032897 5 5 G2 molecular function|endopeptidase inhibitor activity|IEA|GO:0004866|MGI|na//cellular component|extracellular space|TAS|GO:0005615|MGI|12466851//molecular function|plasminogen activator activity|IEA|GO:0008243|MGI|na//molecular function|protein binding|IPI|GO:0005515|MGI|8939962//biological process|regulation of angiogenesis|IDA|GO:0045765|MGI|11818362//molecular function|serine-type endopeptidase inhibitor activity|IEA|GO:0004867|MGI|na endopeptidase inhibitor activity|extracellular space|plasminogen activator activity|protein binding|regulation of angiogenesis|serine-type endopeptidase inhibitor activity MGI:97608 5054 SERPINE1 15072005 17 1 1 17
CGEN_MOUSE_3002941_1 15 1 1 15 Gene AF245444 Mus musculus kainate receptor GluR7 3 subunit mRNA, partial cds 8 L1 CGEN_MOUSE_3002941_1 AF245444 Mus musculus kainate receptor GluR7 3 subunit mRNA, partial cds 1 1 Unchanged Mm.348374 Glutamate receptor, ionotropic, kainate 3 Grik3 ||||Glur-7||Glur7||Grik3||Glutamate receptor, ionotropic, kainate 3|| 14807 XM_131647 4 molecular function|glutamate-gated ion channel activity|ISS|GO:0005234|MGI|12466851//cellular component|integral to membrane|IEA|GO:0016021|MGI|na//molecular function|ion channel activity|IEA|GO:0005216|MGI|na//biological process|ion transport|IEA|GO:0006811|MGI|na//molecular function|ionotropic glutamate receptor activity|ISS|GO:0004970|MGI|12223554,12466851//molecular function|ionotropic glutamate receptor activity|TAS|GO:0004970|MGI|12223554,12466851//cellular component|ionotropic glutamate receptor complex|IC|GO:0008328|MGI|12223554//cellular component|membrane|ISS|GO:0016020|MGI|12466851//molecular function|potassium channel activity|ISS|GO:0005267|MGI|12466851//biological process|potassium ion transport|ISS|GO:0006813|MGI|12466851//molecular function|protein self binding|TAS|GO:0042802|MGI|12223554//molecular function|receptor activity|IEA|GO:0004872|MGI|na//biological process|synaptic transmission|IEA|GO:0007268|MGI|na//biological process|transport|ISS|GO:0006810|MGI|12466851//molecular function|transporter activity|ISS|GO:0005215|MGI|12466851 glutamate-gated ion channel activity|integral to membrane|ion channel activity|ion transport|ionotropic glutamate receptor activity|ionotropic glutamate receptor activity|ionotropic glutamate receptor complex|membrane|potassium channel activity|potassium ion transport|protein self binding|receptor activity|synaptic transmission|transport|transporter activity MGI:95816 2899 GRIK3 15072005 258 1 13 18
CGEN_MOUSE_3002509_1 16 1 1 16 Gene AF291660 Mus musculus carbonic anhydrase VII (Car7) mRNA, partial cds 7 D1 CGEN_MOUSE_3002509_1 AF291660 Mus musculus carbonic anhydrase VII (Car7) mRNA, partial cds 1 1 Unchanged Mm.129265 Carbonic anhydrase 7 Car7 ||Car7||Carbonic anhydrase 7|| 12354 BC038270 NP_444300 8 8 D1 molecular function|carbonate dehydratase activity|ISS|GO:0004089|MGI|12466851//molecular function|lyase activity|ISS|GO:0016829|MGI|12466851//biological process|one-carbon compound metabolism|ISS|GO:0006730|MGI|12466851//molecular function|zinc ion binding|ISS|GO:0008270|MGI|12466851 carbonate dehydratase activity|lyase activity|one-carbon compound metabolism|zinc ion binding MGI:103100 766 CA7 15072005 18 1 1 18
CGEN_MOUSE_3001789_1 17 1 1 17 Gene U89415 Mus musculus strain BALB/c elongation factor 2 mRNA, partial cds 5 L1 CGEN_MOUSE_3001789_1 U89415 Mus musculus strain BALB/c elongation factor 2 mRNA, partial cds 1 1 Unchanged Mm.289431 Eukaryotic translation elongation factor 2 Eef2 ||Eef2||Ef-2||Eukaryotic translation elongation factor 2|| 13629 NM_007907 NP_031933 10 10 C1 molecular function|GTP binding|IEA|GO:0005525|MGI|na//biological process|protein biosynthesis|IEA|GO:0006412|MGI|na//molecular function|translation elongation factor activity|IEA|GO:0003746|MGI|na GTP binding|protein biosynthesis|translation elongation factor activity MGI:95288 1938 EEF2 15072005 259 1 13 19
CGEN_MOUSE_3001357_1 18 1 1 18 Gene NM_008260 Mus musculus forkhead box A3 (Foxa3), mRNA 4 D1 CGEN_MOUSE_3001357_1 NM_008260 Mus musculus forkhead box A3 (Foxa3), mRNA 1 1 Unchanged Mm.42260 Forkhead box A3 Foxa3 ||||Foxa3||Hnf3g||Tcf-3g||forkhead box A3|| 15377 X74938 NP_032286 7 molecular function|DNA binding|IEA|GO:0003677|MGI|na//biological process|cell glucose homeostasis|IMP|GO:0001678|MGI|11546810//biological process|cellular response to starvation|IMP|GO:0009267|MGI|11546810//cellular component|nucleus|IEA|GO:0005634|MGI|na//biological process|regulation of transcription, DNA-dependent|IMP|GO:0006355|MGI|11546810//biological process|transcription|IEA|GO:0006350|MGI|na//molecular function|transcription factor activity|IEA|GO:0003700|MGI|na//cellular component|transcription factor complex|IEA|GO:0005667|MGI|na//molecular function|transcription regulator activity|IMP|GO:0030528|MGI|11546810 DNA binding|cell glucose homeostasis|cellular response to starvation|nucleus|regulation of transcription, DNA-dependent|transcription|transcription factor activity|transcription factor complex|transcription regulator activity MGI:1347477 3171 FOXA3 15072005 19 1 1 19
CGEN_MOUSE_3000637_1 19 1 1 19 Gene M61737 M.musculus adipocyte-specific mRNA, partial cds 2 L1 CGEN_MOUSE_3000637_1 M61737 M.musculus adipocyte-specific mRNA, partial cds 1 1 Unchanged Mm.10026 Cell death-inducing DFFA-like effector c Cidec ||CIDE-3alpha||||Cidec||Fsp27||cell death-inducing DFFA-like effector c|| 14311 M61737 NP_848460 6 6 E3 biological process|apoptosis|IEA|GO:0006915|MGI|na//cellular component|cytosol|ISS|GO:0005829|MGI|12429024//biological process|induction of apoptosis|ISS|GO:0006917|MGI|12429024//cellular component|intracellular|IEA|GO:0005622|MGI|na//molecular function|protein binding|IEA|GO:0005515|MGI|na apoptosis|cytosol|induction of apoptosis|intracellular|protein binding MGI:95585 63924 CIDEC 15072005 260 1 13 20
CGEN_MOUSE_3000205_1 20 1 1 20 Gene NM_021480 Mus musculus L-threonine dehydrogenase (Tdh), mRNA 1 D1 CGEN_MOUSE_3000205_1 NM_021480 Mus musculus L-threonine dehydrogenase (Tdh), mRNA 1 1 Unchanged Mm.6128 L-threonine dehydrogenase Tdh ||Tdh||L-threonine dehydrogenase|| 58865 BC058860 NP_067455 14 14 C3 molecular function|L-threonine 3-dehydrogenase activity|IEA|GO:0008743|MGI|na//molecular function|oxidoreductase activity|IEA|GO:0016491|MGI|na L-threonine 3-dehydrogenase activity|oxidoreductase activity MGI:1926231 15072005 20 1 1 20

Total number of rows: 23040

Table truncated, full table size 17844 Kbytes.




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