Gene Expression Omnibus (GEO) Overview Version:2014-04-12Japanese page
An overview of the GEO entries broken down by the measurement platforms and the features of the measured samples.
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Data Unit : [ DataSet / Sample / Platform ] Show explanation>> <<Hide explanation
DataSet : Series(GSE) x Platform(GPL). A set of related gene expression data.
Sample : Biological materials.
platform : Methods or instruments used for the gene expression profilings.
The numbers shown in the tabs are the numbers of the data (series, samples or platforms) belonging to the groups.
  Human
(3,985)
  Primates
(80)
  Rodents
(1,907)
  Mammals
(359)
  Vertebrates
(450)
  Invertebrates
(1,139)
  Plants
(2,490)
  Bacteria
(1,901)
  Viruses
(90)
  Phages
(11)
  Unclassified
(542)
  All
(13,032)
 
  SAGE NlaIII
(83)
  SAGE RsaI
(1)
  SAGE Sau3A
(5)
  MPSS
(18)
  GeneChip
(809)
  Tiling Array
(1,310)
  cDNA Array
(2,770)
  Oligo Array
(5,679)
  Bead Array
(210)
  Protein Array
(1)
  Antibody
(28)
  RT-PCR
(209)
  HT-Seq
(1,710)
  Other
(187)
  All
(13,032)
 
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Platform ID Title Number of the probes Institute Submission date Manufacturer Species Platform class Reasoning of the classification
Keywords used for the classification are shown with bold font.
1 GPL17968 Wnt Signaling phospho antibody array 227 St George's University of London 2013-11-20 Full Moon BioSystems, Inc Mus musculus
Mus musculus
Antibody antibody, Wnt Signaling phospho antibody array,
2 GPL6245 S&S serum biomarker chips, 120 antibodies 126 University of Michigan 2007-12-05 Whatman Schleicher & Schuell Homo sapiens
Homo sapiens
Antibody antibody, S&S serum biomarker chips, 120 antibodies,
3 GPL17219 RayBiotech Mouse Cytokine Antibody Array 2 34 Shanghai Jiao Tong University School of Medicine 2013-05-30 RayBiotech, Inc. Mus musculus
Mus musculus
Antibody antibody, RayBiotech Mouse Cytokine Antibody Array 2,
4 GPL14561 RayBio Human Cytokine Antibody Array G Series 2000; 8-8 array 54 Medical University Innsbruck 2011-09-09 RayBiotech, Inc. Homo sapiens
Homo sapiens
Antibody antibody, RayBio Human Cytokine Antibody Array G Series 2000; 8-8 array, Human 8 - 8 arrays.gal
5 GPL14560 RayBio Human Cytokine Antibody Array G Series 2000; 7-8 array 60 Medical University Innsbruck 2011-09-09 RayBiotech, Inc. Homo sapiens
Homo sapiens
Antibody antibody, RayBio Human Cytokine Antibody Array G Series 2000; 7-8 array, Human 7 - 8 arrays.gal
6 GPL14559 RayBio Human Cytokine Antibody Array G Series 2000; 6-8 array 60 Medical University Innsbruck 2011-09-09 RayBiotech, Inc. Homo sapiens
Homo sapiens
Antibody antibody, RayBio Human Cytokine Antibody Array G Series 2000; 6-8 array, Human 6 - 8 arrays.gal
7 GPL10337 RayBio Homo sapiens 0.1K apoptosis array 112 UMDNJ/NJ Medical School 2010-04-17 RayBiotech, Inc. Homo sapiens
Homo sapiens
Antibody antibody, RayBio Homo sapiens 0.1K apoptosis array, Principle of the Assay With RayBio® Human Apoptosis Antibody Array kit, researchers can now simultaneously detect the relative level of 43 apoptosis related proteins in cell lysates. By monitoring the changes in protein levels in different experimental model systems, researchers can study pathway activation without spending excess time and effort in performing immunoprecipitations and/or Western Blotting. With RayBio® Human Apoptosis Antibody Array kit, each of the capture antibodies is printed on the membranes, and then treated or untreated cell lysate is added into antibody array membranes. After extensive washing, the membranes are incubated with a cocktail of biotin-conjugated anti-apoptotic protein antibodies. After incubation with HRP-Streptavidin, the signals are visualized by chemiluminescence
8 GPL17868 RayBio C-Series Human Cytokine Antibody Array 5 0 NCBI/NLM/NIH 2013-10-31 RayBiotech Homo sapiens
Homo sapiens
Antibody antibody, RayBio C-Series Human Cytokine Antibody Array 5,
9 GPL1909 Proteomic analysis of pervanadate-induced tyrosine-phosphorylated proteins in hepatocellular carcinoma WRL 68 cells 2,110 Institute of Biochemistry and Cell Biology 2005-03-14 Homo sapiens
Homo sapiens
Antibody MS, Proteomic analysis of pervanadate-induced tyrosine-phosphorylated proteins in hepatocellular carcinoma WRL 68 cells, Proteomic analysis of pervanadate-induced tyrosine-phosphorylated proteins in hepatocellular carcinoma WRL 68 cells Protein tyrosine phosphorylation plays critical roles in modulating biological processes such as cellular proliferation, differentiation, migration, apoptosis and metabolism. To profile tyrosine phosphorylated (pTyr) proteins as well as search novel pTyr proteins as cross-talk points among different cellular pathways, we developed a rapid and efficient approach to identify cellular pTyr proteins and their complexes by a combination of subcellular proteomics approach with signal transduction strategies. Human hepatocytic cells from WRL68 cell line were treated with pervanadate (POV), subfractionated into four fractions and then subjected to immunoaffinity purification with anti-pTyr antibody. The eluted mixtures of the anti-pTyr purification were identified by LC-MS/MS. Subcellular fractionation and affinity purification of tyrosine-phosphorylated proteins: WRL68 cells were first grown to 80% confluence in MEM complete medium and then the medium replaced with serum free media. After 15 h, the cells were either untreated or stimulated with 0.1 mM pervanadate (1 mM sodium orthovanadate, 3 mM H2O2) for 10 min. 150-mm cultures of WRL 68 cells were rinsed twice with 4? PBS and then scraped from the dish in 750?l of hypotonic buffer (10 mM Tris, 1 mM NaF, 10 mM IAA, pH 7.5) containing a cocktail of protein inhibitors. After a 20-min incubation on ice, the cells were passed about five times through a 25-g needle. The resulting lysate was subjected to a 15min centrifugation at 1000 rpm at 4?, after which the pellet was resuspended in 250?l of hypotonic buffer and re-extracted by a second round of the trituration and centrifugation. The supernatants of the first and second spins were combined, adjusted to 0.25 M NaCl, and separated into cytosolic (supernatant) and membrane (pellet) fractions bycentrifugation at 19,000 rpm (43,000 g) for 90 min at 4?. All the pellets and total cell lysate were resuspended in RIPA buffer (50 mM Tris-HCl, 150 mM NaCl, 1% Triton X-100, 0.1% SDS, 1% deoxycholic acid sodium) containing 1mM pervanadate with a cocktail of protein inhibitors with sonication aid. Cleared cell lysates were incubated overnight at 4? with 30?l monoclonal anti-phosphotyrosine-agrose (Sigma). Precipitated immune complexes were washed three times with 1×HNTG (20 mM HEPES, 150 mM NaCl, 0.1% Triton X-100, 10% Glycerol, pH 7.5) and then eluted with 100 mM phenyl phosphate (Sigma) in lysis buffer at 4?. Enzyme digestion, mass spectrometry and protein identification: The sample was digested according to the published method. Chromatography was performed using a surveyor LC system (Thermo Finnigan,SanJose,CA) on C18 reverse phase column(RP, 180 µm x 150 mm, BioBasic® C18, 5 µm, Thermo Hypersil-Keystone). The pump flow rate is split 1:100 for a colum flow rate of 1.5 µL/min.The column effluent is directly electrosprayed using the orthogonal metal needle source without further splitting.Mobile phase A is 0.1% formic acid in water,and the B mobile phase is 0.1% formic acid in acetonitrile. The separation of peptides obtained by enzymatic digest of bile sample was achieved with a gradient of 2-80% B over 360 min.The column effluent from the reverse phase column was analyzed by LCQ Deca XP ion-trap mass spectrometer.The micro-electrospray interface uses a 30 µm metal needle that is orthogonal to the inlet of the LCQ.The mass spectrometer was set that one full MS scan was followed by three MS/MS scans on the three most intense ion from the MS spectrum with the following Dynamic Exclusion™ settings: repeat count, 1; repeat duration, 0.5 min; exclusion duration, 3.0 min. The acquired MS/MS spectra were automatically searched against protein database for human proteins (SWISS-PROT/TrEMBL) using the TurboSEQUEST program in the BioWorks™ 3.0 software suite. An accepted SEQUEST result had to have a ?Cn score of at least 0.1 (regardless of charge state) and Xcorr (one charge?1.5, two charges?2.0, three charges?2.5). Single peptides that alone identify a protein were manually validated after meeting the above criteria. Bioinformatics analysis: The pI and MW of the proteins were analyzed using ExPASy proteomics tools accessed from http://cn.expasy.org/tools/#proteome. The grand average hydropathicity (GRAVY) values were determined according to Kyte-Doolittle. The protein subcellular location annotation was from SwissProt &TrEMBL protein database (http://us.expasy.org/sprot/). The protein function family was categorized according to Gene Ontology (GO) annotation terms extracted by InterPro (http://www.ebi.ac.uk./interpro/). The annotation of protein phosphorylation was from SwissProt &TrEMBL protein database (http://us.expasy.org/sprot/) and PhosphoSite (http://www.phosphosite.org). The kinases were annotated according to human kinome.
10 GPL10888 NYUDM Human 507 antibodies v1.0 510 New York University 2010-09-07 RayBiotech Inc. Homo sapiens
Homo sapiens
Antibody antibody, NYUDM Human 507 antibodies v1.0,
11 GPL10899 NYUDM Human 40 antibodies v1.0 42 New York University 2010-09-09 RayBiotech Inc. Homo sapiens
Homo sapiens
Antibody antibody, NYUDM Human 40 antibodies v1.0, Circular feature type
12 GPL16986 MUG homo sapiens 8 v KAM 1.2 812 Medical University Graz 2013-04-09 Kinexus Bioinformatics Corp., Vancouver, Canada, (www.kinexus.ca) Homo sapiens
Homo sapiens
Antibody antibody, MUG homo sapiens 8 v KAM 1.2,
13 GPL11222 mTOR Signaling Phospho Specific Antibody Microarray 140 University of Louisville 2010-11-17 Full Moon Biosystems, Inc. USA Homo sapiens
Homo sapiens
Antibody antibody, mTOR Signaling Phospho Specific Antibody Microarray, PI3K/mTOR specific Phospho-antibody array
14 GPL1509 Mouse Full Powerblot Western Array (BD) 851 Technion - Israel institute of Technology 2004-10-14 Mus musculus
Mus musculus
Antibody antibody, Mouse Full Powerblot Western Array (BD), The Full Poweblot Western Blotting Screening Service, Consisting of over 1,000 monoclonal Antibodies visualized using the Odyssey® Infrared Imaging System Keywords = powerblot Keywords = mAb
15 GPL16265 Mouse Cytokine Antibody Array 3 66 The First Affiliated Hospital of Harbin Medical University 2012-11-09 Ray Biotech Mus musculus
Mus musculus
Antibody antibody, Mouse Cytokine Antibody Array 3, RayBio® Mouse Cytokine Antibody Array 3 (8 membrane arrays) with accessories, for simultaneous detection of 62 Cytokines in 8 samples.
16 GPL13165 Medsaic Human DotScan antibody microarray v3 57 Brigham and Women's Hospital 2011-02-14 Medsaic; Eveleigh, NSW, Australia Homo sapiens
Homo sapiens
Antibody spotted peptide or protein, Medsaic Human DotScan antibody microarray v3,
17 GPL11264 Medsaic Human DotScan antibody microarray v2 161 Brigham and Women's Hospital 2010-12-01 Medsaic; Eveleigh, NSW, Australia Homo sapiens
Homo sapiens
Antibody spotted peptide or protein, Medsaic Human DotScan antibody microarray v2,
18 GPL11263 Medsaic Human DotScan antibody microarray v1 126 Brigham and Women's Hospital 2010-12-01 Medsaic; Eveleigh, NSW, Australia Homo sapiens
Homo sapiens
Antibody spotted peptide or protein, Medsaic Human DotScan antibody microarray v1,
19 GPL7696 Luminex Kinase Phosphorylation Immunosandwich Assay 69 The Broad Institute 2008-11-24 The Broad Institute, Cancer Program, Golub Lab Homo sapiens
Homo sapiens
Antibody antibody, Luminex Kinase Phosphorylation Immunosandwich Assay,
20 GPL13757 Kinexus KAM-1.2FN 800 Ab microarray 800 Hospital for Sick Children 2011-06-21 Kinexus Bioinformatics Corportation, Vancouver, BC, Canada Homo sapiens
Homo sapiens
Antibody antibody, Kinexus KAM-1.2FN 800 Ab microarray, Contains 800 (500 pan-specific and 300 phosphorylation-site specific) antibodies. Most of the antibodies cross-react with mouse.
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