Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

These are the micro-array results of a differential gene expression microarray experiments and the subsequent analysis steps performed on them. The up/down- regulation ratio was obtained by measuring WT cells against MK5 activated cells. See material and methods for technical information as well as the data usage policy.

MK5 Proteome Analysis - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.


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Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].
Gene Rank Filtered description Value Type Network Comparison Type green Interaction Map red network_comparison
Results: HTML CSV LaTeX Showing element 51 to 100 of 9634 in total
Value Type  : Measured
Network Comparison Type  : Divided
Rank
Filtered
description
green
Interaction Map
red
network_comparison
13 1 cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912] 1281.5 High confidence 398.5 3.21581
jumonji domain containing 1; zinc finger protein; testis-specific protein a. [refseq;acc:nm_018433] 2959.19 Low confidence 1927.68 1.5351
14 0 cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946] 6.50325 High confidence 130.512 20.0687
guanine nucleotide-binding protein beta subunit-like protein 1 (g protein beta-subunit like protein 1) (wd40 repeat containing protein deleted in vcfs) (wdvcf protein) (fksg1 protein) (dgcrk3). [swissprot;acc:q9byb4] 59 Low confidence 0.00001 5900000
1 ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2] 1281.5 High confidence 398.5 3.21581
trypsin iii precursor (ec 3.4.21.4) (brain trypsinogen) (mesotrypsinogen) (trypsin iv). [swissprot;acc:p35030] 2998.1 Low confidence 1972.65 1.51983
15 0 lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851] 2740.13 485.286 5.64642
succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial precursor (cybs) (succinate-ubiquinone reductase membrane anchor subunit) (qps2) (cii-4) (succinate dehydrogenase complex subunit d) (succinate-ubiquinone oxidoreductase cytochrome b small subunit). [swissprot;acc:o14521] 156 High confidence 10 15.6
1 trypsin i precursor (ec 3.4.21.4) (cationic trypsinogen). [swissprot;acc:p07477] 3007.85 Low confidence 1983.91 1.51612
xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266] 871 High confidence 2671 3.06659
16 0 protein kinase, lysine deficient 3. [refseq;acc:nm_020922] 704.5 Low confidence 125 5.636
protein transport protein sec24c (sec24-related protein c). [swissprot;acc:p53992] 15 High confidence 1 15
1 28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5] 28492 Low confidence 21185 1.34491
protein x 0004. [refseq;acc:nm_016301] 871 High confidence 2671 3.06659
17 0 mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849] 58 859 14.8103
ptd016 protein. [refseq;acc:nm_016125] 158 Low confidence 30 5.26667
1 dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8] 1365 High confidence 460 2.96739
mitochondrial solute carrier protein. [refseq;acc:nm_145305] 28492 Low confidence 21185 1.34491
18 0 60s ribosomal protein l37a. [swissprot;acc:p12751] 26.1599 High confidence 305.45 11.6763
camp-regulated phosphoprotein 19 (arpp-19) [contains: camp-regulated phosphoprotein 16 (arpp-16)]. [swissprot;acc:p56211] 19 Low confidence 99 5.21053
1 cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [swissprot;acc:p18847] 7251 5492.04 1.32027
protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256] 1865.5 High confidence 677.5 2.75351
19 0 25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [swissprot;acc:o15528] 26.1599 305.45 11.6763
fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402] 662 Low confidence 153 4.3268
1 25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [swissprot;acc:o15528] 3915.4 3032.56 1.29112
microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083] 1865.5 High confidence 677.5 2.75351
20 0 beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938] 139 Low confidence 570 4.10072
ero1-like. [refseq;acc:nm_014584] 0.00001 High confidence 82 8200000
1 protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726] 1865.5 677.5 2.75351
retinoblastoma-associated factor 600. [refseq;acc:nm_020765] 9368.87 Low confidence 7256.71 1.29106
21 0 potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281] 434.911 111.278 3.90833
syntaxin 10 (syn10). [swissprot;acc:o60499] 17.6611 High confidence 118.878 6.73106
1 cytochrome p450 27, mitochondrial precursor (ec 1.14.-.-) (cytochrome p-450c27/25) (sterol 26-hydroxylase) (sterol 27-hydroxylase) (vitamin d(3) 25-hydroxylase) (5-beta-cholestane-3-alpha,7-alpha,12-alpha-triol 27-hydroxylase). [swissprot;acc:q02318] 3917.88 Low confidence 3035.43 1.29072
ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485] 1865.5 High confidence 677.5 2.75351
22 0 carbohydrate (n-acetylglucosamine 6-o) sulfotransferase 6; macular dystrophy, corneal, 1; carbohydate sulfotransferase 6; corneal n-acetylglucosamine 6-sulfotransferase. [refseq;acc:nm_021615] 0.00001 Low confidence 37 3700000
similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517] High confidence 60 6000000
1 cytochrome p450 24a1, mitochondrial precursor (ec 1.14.-.-) (p450- cc24) (vitamin d(3) 24-hydroxylase) (1,25-dihydroxyvitamin d(3) 24- hydroxylase) (24-ohase). [swissprot;acc:q07973] 3997.02 Low confidence 3126.88 1.27828
protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949] 1865.5 High confidence 677.5 2.75351
23 0 carbohydrate (n-acetylglucosamine-6-o) sulfotransferase 2; carbohydrate (chondroitin 6/keratan) sulfotransferase 2. [refseq;acc:nm_004267] 0.00001 Low confidence 37 3700000
guanine nucleotide-binding protein beta subunit-like protein 1 (g protein beta-subunit like protein 1) (wd40 repeat containing protein deleted in vcfs) (wdvcf protein) (fksg1 protein) (dgcrk3). [swissprot;acc:q9byb4] 59 High confidence 0.00001 5900000
1 carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976] 32028.5 Low confidence 40899 1.27696
gbp protein isoform a. [refseq;acc:nm_017870] 1894.39 High confidence 699.76 2.7072
24 0 cathepsin z precursor (ec 3.4.22.-) (cathepsin x) (cathepsin p). [swissprot;acc:q9ubr2] 493 Low confidence 154 3.2013
ptd016 protein. [refseq;acc:nm_016125] 158 High confidence 30 5.26667
1 atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915] 4577.5 Low confidence 5720.25 1.24965
protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690] 2108.52 High confidence 950.561 2.21818
25 0 lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [refseq;acc:nm_003893] 39.8063 Low confidence 12.6208 3.15402
potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110] 773 High confidence 148 5.22297
1 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262] 892.67 1833.01 2.0534
histidine triad nucleotide-binding protein 1 (adenosine 5'- monophosphoramidase) (protein kinase c inhibitor 1) (protein kinase c- interacting protein 1) (pkci-1). [swissprot;acc:p49773] 4691.96 Low confidence 5847.46 1.24627

Legend:
- Rank is the rank after comparing the two networks
- Gene is the ensembl human gene identifier measured by 1 or more probes on the microarray
- Value Type describes how the microarray measurement was processed. Ranked indicates that we sorted all measurements and use the rank as red and green value. Measured is the normal measurement. Squared and Rooted are the square and square root respecitcely. This might be valueable to compensate for non linear light distributions.
- Network Comparison Type describes whether we divided the red and green types or whether we sutractcted them
- Interaction Map specifies whether we used only the hig hconfidence protein-protein interactions or also included the low confidence interactions.
- Filtered specifies whether we only included the high confidence microarry measurements or not.
- http://analysis.yellowcouch.org/