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Platform GPL5102 Query DataSets for GPL5102
Status Public on Apr 19, 2007
Title Operon Homo sapiens 21K (Hs Operon Vw)
Technology type spotted oligonucleotide
Distribution non-commercial
Organism Homo sapiens
Manufacturer Printed by UCSF Functional Genomics Core Facility
Manufacture protocol Long oligonucleotides were designed and synthesized by Operon Biotechnologies (Operon Biotechnologies, Huntsville, AL). The Human Genome Oligo Set Version 2 includes 21,329 oligonucleotides, mostly 69-mers that were based upon UniGene build 147. Oligonucleotides were dissolved in 3XSSC at a concentration of 40um in preparation for spotting on aminosilane-coated slides (Schott Nexterion, Elmsford, NY). A custom-built microarrayer equipped with Majer Precision MicroQuill 2000 pins was used to print each batch of 255 slides. A detailed description of the microarrayer (MGuide) is available at the Brown lab's website (Stanford Univeristy). After printing, the slides were stored at room temperature in desiccators.
 
 
Submission date Apr 18, 2007
Last update date Jan 18, 2013
Contact name Yuanyuan Xiao
E-mail(s) yuanyuan.xiao@ucsf.edu
Organization name UCSF
Department Epidemiology and Biostatistics
Street address 185 Berry Street, Lobby4, Suite 5700
City San Francisco
State/province CA
ZIP/Postal code 94107
Country USA
 
Samples (3) GSM183347, GSM183349, GSM183353
Series (1)
GSE7557 Human bronchial epithelial cells_Passage 3 vs. passage 0

Data table header descriptions
ID
GB_ACC GenBank Accession
Unigene Unigene ID
GeneID Entrez Gene ID
Organism Organism
Name Gene Name
Description Gene Description
Symbol Gene Symbol
Chromosome Chromosome
Protein_Acc Protein Accession
MapLocation Chromosome location
Synonyms Synonyms
Summary_Func
SEQUENCE Sequence
SPOT_ID
Unigene_Build Unigene bulid version

Data table
ID GB_ACC Unigene GeneID Organism Name Description Symbol Chromosome Protein_Acc MapLocation Synonyms Summary_Func SEQUENCE SPOT_ID Unigene_Build
H200000001 NM_000015 Hs.2 10 Hs N-acetyltransferase 2 (arylamine N-acetyltransferase) N-acetyltransferase 2 (arylamine N-acetyltransferase) NAT2 8 NP_000006 8p22 AAC2 "The intronless NAT2 gene encodes N-acetyltransferase 2 (arylamine N-acetyltransferase 2). This enzyme functions to both activate and deactivate arylamine and hydrazine drugs and carcinogens. Polymorphisms in this gene are reponsible for the N-acetylation polymorphism in which human populations segregate into rapid,intermediate, and slow acetylator phenotypes. Polymorphisms in NAT2 are also associated with higher incidences of cancer and drug toxicity.A second arylamine N-acetyltransferase gene (NAT1) is located near NAT2." TGGGGAGAAATCTCGTGCCCAAACCTGGTGATGGATCCCTTACTATTTAGAATAAGGAACAAAATAAAC UniGene Build #182 Homo sapiens
H200000002 AF153821 Hs.4 125 Hs "Alcohol dehydrogenase IB (class I), beta polypeptide" "alcohol dehydrogenase IB (class I), beta polypeptide" ADH1B 4 NP_000659 4q21-q23 ADH2 "The protein encoded by this gene is a member of the alcohol dehydrogenase family. Members of this enzyme family metabolize a wide variety of substrates, including ethanol, retinol, other aliphatic alcohols, hydroxysteroids, and lipid peroxidation products. This encoded protein, consisting of several homo- and heterodimers of alpha, beta, and gamma subunits, exhibits high activity for ethanol oxidation and plays a major role in ethanol catabolism. Three genes encoding alpha, beta and gamma subunits are tandemly organized in a genomic segment as a gene cluster." TCCTGCTAGTGACACAGAAGCTGACATCCAGCTCCCACCCGCCTTCCTCCCAGGTTCGGGGAGCAGGTA UniGene Build #182 Homo sapiens
H200000003 NM_001815 Hs.11 1084 Hs Carcinoembryonic antigen-related cell adhesion molecule 3 carcinoembryonic antigen-related cell adhesion molecule 3 CEACAM3 19 NP_001806 19q13.2 CD66D|CEA|CGM1|MGC119875|W264|W282 CCAAAACTGGAAGGCCGTGGTCCCTCCCACAGCTCTGCCTTCTCGATGTCCCCTCTCTCCACTGCCTAG UniGene Build #182 Homo sapiens
H200000004 NM_001817 Hs.12 1089 Hs Carcinoembryonic antigen-related cell adhesion molecule 4 carcinoembryonic antigen-related cell adhesion molecule 4 CEACAM4 19 NP_001808 19q13.2 CGM7|CGM7_HUMAN|NCA TGAATAAAGAGGACCCTTCCTCTCATTGGCTCTTTTTCTGCTCACGGGAACTTAGCAGAAACTCACCTG UniGene Build #182 Homo sapiens
H200000005 NM_000359 Hs.508950 7051 Hs "Transglutaminase 1 (K polypeptide epidermal type I, protein-glutamine-gamma-glutamyltransferase)" "transglutaminase 1 (K polypeptide epidermal type I, protein-glutamine-gamma-glutamyltransferase)" TGM1 14 NP_000350 14q11.2 ICR2|KTG|LI|LI1|TGASE|TGK GAAGGCTCTGGGTTACAGAGGCCCAAGATCCTCAACGTTGGGGACATTGGAGGCAATGAAACAGTGACA UniGene Build #182 Homo sapiens
H200000006 NM_000140 Hs.465221 2235 Hs Ferrochelatase (protoporphyria) ferrochelatase (protoporphyria) FECH 18 NP_000131 18q21.3 EPP|FCE Ferrochelatase is localized to the mitochondrion where it catalyzes the insertion of ferrous form of iron into protoporphyrin IX in the heme synthesis pathway. Defects in ferrochelatase are associated with protoporphyria. ATGGGTTACAGAATGCTAGGGAGGCAATTTGGTTACCTGCAATGGCTGCTTTTGCCAGCGAGGCCACCA UniGene Build #182 Homo sapiens
H200000007 NM_000170 Hs.149156 2731 Hs "Glycine dehydrogenase (decarboxylating; glycine decarboxylase, glycine cleavage system protein P)" glycine dehydrogenase (decarboxylating) GLDC 9 NP_000161 9p22 GCE|GCSP|HYGN1|MGC138198|MGC138200|NKH "The enzyme system for cleavage of glycine (glycine cleavage system; GCS; EC 2.1.2.10), which is confined to the mitochondria, is composed of 4 protein components: P protein (a pyridoxal phosphate-dependent glycine decarboxylase), H protein (a lipoic acid-containing protein), T protein (a tetrahydrofolate-requiring enzyme), and L protein (a lipoamide dehydrogenase). Glycine encephalopathy (GCE; MIM 605899) may be due to a defect in any one of these enzymes; see MIM 238310, MIM 238330, and MIM 238331.[supplied by OMIM]" TATGGAGATCAGCACCTGGTTTGTACCTGCCCACCCATGGAAGTTTATGAGTCTCCATTTTCTGAACAA UniGene Build #182 Homo sapiens
H200000008 NM_000139 Hs.386748 2206 Hs "Membrane-spanning 4-domains, subfamily A, member 1" "membrane-spanning 4-domains, subfamily A, member 2 (Fc fragment of IgE, high affinity I, receptor for; beta polypeptide)" MS4A2 11 NP_000130 11q13 APY|ATOPY|FCER1B|FCERI|IGEL|IGER|IGHER|MS4A1 "The allergic response involves the binding of allergen to receptor-bound IgE followed by cell activation and the release of mediators responsible for the manifestations of allergy. The IgE-receptor, a tetramer composed of an alpha, beta, and 2 disulfide-linked gamma chains, is found on the surface of mast cells and basophils. This gene encodes the beta subunit of the high affinity IgE receptor which is a member of the membrane-spanning 4A gene family. Members of this nascent protein family are characterized by common structural features and similar intron/exon splice boundaries and display unique expression patterns among hematopoietic cells and nonlymphoid tissues. This family member is localized to 11q12, among a cluster of family members." GTCATCTTCTCCATGAAGACCACTGAATGAACACCTTTTCATCCAGCCTTAATTTCTTGCTCCATAACT UniGene Build #182 Homo sapiens
H200000009 M64322 Hs.402773 5778 Hs "Protein tyrosine phosphatase, non-receptor type 7" "protein tyrosine phosphatase, non-receptor type 7" PTPN7 1 NP_542156 1q32.1 BPTP-4|HEPTP|LC-PTP|LPTP|PTPNI "The protein encoded by this gene is a member of the protein tyrosine phosphatase (PTP) family. PTPs are known to be signaling molecules that regulate a variety of cellular processes including cell growth, differentiation, mitotic cycle, and oncogenic transformation. This gene is preferentially expressed in a variety of hematopoietic cells, and is an early response gene in lymphokine stimulated cells. The noncatalytic N-terminus of this PTP can interact with MAP kinases and suppress the MAP kinase activities. This PTP was shown to be involved in the regulation of T cell antigen receptor (TCR) signaling, which was thought to function through dephosphorylating the molecules related to MAP kinase pathway. Three alternatively spliced transcript variants of this gene, which encode two distinct isoforms, are reported." CATGGTTGCTGGCCACTCCCACCAACTACTCTTAGGGAGGCTAAGCAGTCTCTGTTTTGACCTTCCATG UniGene Build #182 Homo sapiens
H200000010 NM_000595 Hs.36 4049 Hs "Lymphotoxin alpha (TNF superfamily, member 1)" "lymphotoxin alpha (TNF superfamily, member 1)" LTA 6 NP_000586 6p21.3 LT|TNFB|TNFSF1 "Lymphotoxin alpha, a member of the tumor necrosis factor family, is a cytokine produced by lymphocytes. LTA is highly inducible, secreted, and exists as homotrimeric molecule. LTA forms heterotrimers with lymphotoxin-beta which anchors lymphotoxin-alpha to the cell surface. LTA mediates a large variety of inflammatory, immunostimulatory, and antiviral responses. LTA is also involved in the formation of secondary lymphoid organs during development and plays a role in apoptosis." CATGGAGGAGCTTGGGGGATGACTAGAGGCAGGGAGGGGACTATTTATGAAGGCAAAAAAATTAAATTA UniGene Build #182 Homo sapiens
H200000011 NM_000019 Hs.232375 38 Hs Acetyl-Coenzyme A acetyltransferase 1 (acetoacetyl Coenzyme A thiolase) acetyl-Coenzyme A acetyltransferase 1 (acetoacetyl Coenzyme A thiolase) ACAT1 11 NP_000010 11q22.3-q23.1 ACAT|MAT|T2|THIL "This gene encodes a mitochondrially localized enzyme that catalyzes the reversible formation of acetoacetyl-CoA from two molecules of acetyl-CoA. This gene spans approximately 27 kb and contains 12 exons interrupted by 11 introns. Defects in this gene are associated with the alpha-methylacetoaceticaciduria disorder, an inborn error of isoleucine catabolism characterized by urinary excretion of 2-methyl-3-hydroxybutyric acid, 2-methylacetoacetic acid, tiglylglycine, and butanone." GAACAGGACGCTTATGCTATTAATTCTTATACCAGAAGTAAAGCAGCATGGGAAGCTGGGAAATTTGGA UniGene Build #182 Homo sapiens
H200000012 NM_001816 Hs.41 1088 Hs Carcinoembryonic antigen-related cell adhesion molecule 8 carcinoembryonic antigen-related cell adhesion molecule 8 CEACAM8 19 NP_001807 19q13.2 CD66b|CD67|CGM6|NCA-95 TGATAACTTTAAGATCACGCCACTGGACTGTCTATGAACTTGCAAACAGGCTGATACCTTTGTGAAGTT UniGene Build #182 Homo sapiens
H200000013 NM_002825 Hs.371249 5764 Hs "Pleiotrophin (heparin binding growth factor 8, neurite growth-promoting factor 1)" "pleiotrophin (heparin binding growth factor 8, neurite growth-promoting factor 1)" PTN 7 NP_002816 7q33-q34 HARP|HBGF8|HBNF|NEGF1 TCAGAATGAGTATTTGGTTTAGAGTTTGGCAACATATGCCATATGCTGGCTGCCATGAACAAAGGTGGC UniGene Build #182 Homo sapiens
H200000014 NM_000952 Hs.46 5724 Hs Platelet-activating factor receptor platelet-activating factor receptor PTAFR 1 NP_000943 1p35-p34.3 PAFR "PTAFR shows structural characteristics of the rhodopsin (MIM 180380) gene family and binds platelet-activating factor (PAF). PAF is a phospholipid (1-0-alkyl-2-acetyl-sn-glycero-3-phosphorylcholine) that has been implicated as a mediator in diverse pathologic processes, such as allergy, asthma, septic shock, arterial thrombosis, and inflammatory processes.[supplied by OMIM]" GTGCTGTGGGTCTTTGCCCGCCTGTACCCTTGCAAGAAATTCAATGAGATAAAGATCTTCATGGTGAAC UniGene Build #182 Homo sapiens
H200000015 D13265 Hs.446291 4481 Hs Macrophage scavenger receptor 1 macrophage scavenger receptor 1 MSR1 8 NP_619730 8p22 CD204|SCARA1|SR-A|phSR1|phSR2 "This gene encodes the class A macrophage scavenger receptors, which include three different types (1, 2, 3) generated by alternative splicing of this gene. These receptors or isoforms are macrophage-specific trimeric integral membrane glycoproteins and ha" CTACCATCTCATTAAAAGGCCCTTCACCTCTGGACAAGTCATCTGCAACAACTGACTTCCAAGATCCTT UniGene Build #182 Homo sapiens
H200000016 NM_002641 Hs.137154 5277 Hs "Phosphatidylinositol glycan, class A (paroxysmal nocturnal hemoglobinuria)" "phosphatidylinositol glycan anchor biosynthesis, class A (paroxysmal nocturnal hemoglobinuria)" PIGA X NP_065206 Xp22.1 GPI3|PIG-A "This gene encodes a protein required for synthesis of N-acetylglucosaminyl phosphatidylinositol (GlcNAc-PI), the first intermediate in the biosynthetic pathway of GPI anchor. The GPI anchor is a glycolipid found on many blood cells and which serves to anchor proteins to the cell surface. Paroxysmal nocturnal hemoglobinuria, an acquired hematologic disorder, has been shown to result from mutations in this gene. Three mRNA species have been described that result from alternative splicing of exon 2." TGCACTGGTCGGTATATGGAAACACATTGCTCTACCCTGCTACTTAGTTGATTTTAAAGTGAATTTACA UniGene Build #182 Homo sapiens
H200000017 NM_002764 Hs.56 5631 Hs Phosphoribosyl pyrophosphate synthetase 1 phosphoribosyl pyrophosphate synthetase 1 PRPS1 X NP_002755 Xq21-q27 KIAA0967|PRS I|PRSI CAGGATATTAGAGGTTATCCGAACTGGGGAAAGACGGATTGAGATTAACTGCTGGACCTCCTACCTGCA UniGene Build #182 Homo sapiens
H200000018 NM_002835 Hs.61812 5782 Hs "Protein tyrosine phosphatase, non-receptor type 12" "protein tyrosine phosphatase, non-receptor type 12" PTPN12 7 NP_002826 7q11.23 PTP-PEST|PTPG1 "The protein encoded by this gene is a member of the protein tyrosine phosphatase (PTP) family. PTPs are known to be signaling molecules that regulate a variety of cellular processes including cell growth, differentiation, mitotic cycle, and oncogenic transformation. This PTP contains a C-terminal PEST motif, which serves as a protein-protein interaction domain, and may be related to protein intracellular half-life. This PTP was found to bind and dephosphorylate the product of oncogene c-ABL, thus may play a role in oncogenesis. This PTP was shown to interact with, and dephosphorylate, various of cytoskeleton and cell adhesion molecules, such as p130 (Cas), CAKbeta/PTK2B, PSTPIP1, and paxillin, which suggested its regulatory roles in controlling cell shape and mobility." AGAAATGTGATCATCCAGCGGGAGGTATTCACTATGAAATGTGCATAGAATGTCCACCTACTTTCAGTG UniGene Build #182 Homo sapiens
H200000019 NM_003000 Hs.465924 6390 Hs "Succinate dehydrogenase complex, subunit B, iron sulfur (Ip)" "succinate dehydrogenase complex, subunit B, iron sulfur (Ip)" SDHB 1 NP_002991 1p36.1-p35 IP|PGL4|SDH|SDH1|SDHIP "Complex II of the respiratory chain, which is specifically involved in the oxidation of succinate, carries electrons from FADH to CoQ. The complex is composed of four nuclear-encoded subunits and is localized in the mitochondrial inner membrane. The iron-sulfur subunit is highly conserved and contains three cysteine-rich clusters which may comprise the iron-sulfur centers of the enzyme." AGACAAGGCTGGAGACAAACCTCATATGCAGACTTATAAGGTTGACCTTAATAAATGTGGCCCCATGGT UniGene Build #182 Homo sapiens
H200000020 NM_016232 Hs.66 9173 Hs Interleukin 1 receptor-like 1 interleukin 1 receptor-like 1 IL1RL1 2 NP_775661 2q12 DER4|FIT-1|MGC32623|ST2|ST2L|ST2V|T1 "The protein encoded by this gene is a member of the interleukin 1 receptor family. Studies of the similar gene in mouse suggested that this receptor can be induced by proinflammatory stimuli, and may be involved in the function of helper T cells. This gene, interleukin 1 receptor, type I (IL1R1), interleukin 1 receptor, type II (IL1R2) and interleukin 1 receptor-like 2 (IL1RL2) form a cytokine receptor gene cluster in a region mapped to chromosome 2q12. Three alternatively spliced transcript variants encoding distinct isoforms have been reported." TCCAAATTCTGGAAGCACGTGAGGTACCAAATGCCTGTGCCAAGCAAAATTCCCAGAAAGGCCTCTAGT UniGene Build #182 Homo sapiens

Total number of rows: 21348

Table truncated, full table size 9196 Kbytes.




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