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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Rank Gene description Value Type Network Comparison Type Interaction Map Filtered network_comparison red green
Results: HTML CSV LaTeX Showing element 1 to 50 of 8289 in total
Value Type  : Measured
Network Comparison Type  : Divided
Filtered  : 1
Rank
description
Interaction Map
network_comparison
red
green
1 lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279] Low confidence 4.4149 2399.5 543.5
rad50-interacting protein 1. [refseq;acc:nm_021930] High confidence 5.31521 450.5 2394.5
2 cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802] Low confidence 4.4149 2399.5 543.5
rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6] High confidence 5.31521 450.5 2394.5
3 cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534] Low confidence 4.4149 2399.5 543.5
homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774] High confidence 3.71868 2597.5 698.5
4 hbs1-like. [refseq;acc:nm_006620]
lysosome-associated membrane glycoprotein 2 precursor (lamp-2) (cd107b antigen). [swissprot;acc:p13473] Low confidence 4.4149 2399.5 543.5
5 junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2] High confidence 3.39764 1153.5 339.5
oxysterol binding protein-related protein 6 (osbp-related protein 6) (orp-6). [swissprot;acc:q9bzf3] Low confidence 2.86965 736.5 2113.5
6 junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39] High confidence 3.39764 1153.5 339.5
oxysterol binding protein-related protein 3 (osbp-related protein 3) (orp-3). [swissprot;acc:q9h4l5] Low confidence 2.86965 736.5 2113.5
7 oxysterol binding protein-related protein 7 (osbp-related protein 7) (orp-7). [swissprot;acc:q9bzf2]
sphingomyelin phosphodiesterase 2 (ec 3.1.4.12) (neutral sphingomyelinase) (nsmase) (n-smase) (lyso-platelet activating factor- phospholipase c) (lyso-paf-plc). [swissprot;acc:o60906] High confidence 3.39764 1153.5 339.5
8 db83 protein. [swissprot;acc:p57088]
phosphatidylinositol-glycan biosynthesis, class f protein (pig-f). [swissprot;acc:q07326] Low confidence 1.54317 3278 5058.5
9 n33 protein. [swissprot;acc:q13454]
tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106] High confidence 3.21581 398.5 1281.5
10 implantation-associated protein. [refseq;acc:nm_032121] Low confidence 1.54317 3278 5058.5
tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616] High confidence 3.21581 398.5 1281.5
11 dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]
thyroid receptor interacting protein 8 (trip-8) (fragment). [swissprot;acc:q15652] Low confidence 1.53861 1917.64 2950.5
12 cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627] High confidence 3.21581 398.5 1281.5
gbp protein isoform a. [refseq;acc:nm_017870] Low confidence 1.5371 1921.96 2954.24
13 cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912] High confidence 3.21581 398.5 1281.5
jumonji domain containing 1; zinc finger protein; testis-specific protein a. [refseq;acc:nm_018433] Low confidence 1.5351 1927.68 2959.19
14 ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2] High confidence 3.21581 398.5 1281.5
trypsin iii precursor (ec 3.4.21.4) (brain trypsinogen) (mesotrypsinogen) (trypsin iv). [swissprot;acc:p35030] Low confidence 1.51983 1972.65 2998.1
15 trypsin i precursor (ec 3.4.21.4) (cationic trypsinogen). [swissprot;acc:p07477] 1.51612 1983.91 3007.85
xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266] High confidence 3.06659 2671 871
16 28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5] Low confidence 1.34491 21185 28492
protein x 0004. [refseq;acc:nm_016301] High confidence 3.06659 2671 871
17 dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8] 2.96739 460 1365
mitochondrial solute carrier protein. [refseq;acc:nm_145305] Low confidence 1.34491 21185 28492
18 cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [swissprot;acc:p18847] 1.32027 5492.04 7251
protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256] High confidence 2.75351 677.5 1865.5
19 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] Low confidence 1.29112 3032.56 3915.4
microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083] High confidence 2.75351 677.5 1865.5
20 protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726]
retinoblastoma-associated factor 600. [refseq;acc:nm_020765] Low confidence 1.29106 7256.71 9368.87
21 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] 1.29072 3035.43 3917.88
ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485] High confidence 2.75351 677.5 1865.5
22 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] Low confidence 1.27828 3126.88 3997.02
protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949] High confidence 2.75351 677.5 1865.5
23 carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976] Low confidence 1.27696 40899 32028.5
gbp protein isoform a. [refseq;acc:nm_017870] High confidence 2.7072 699.76 1894.39
24 atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915] Low confidence 1.24965 5720.25 4577.5
protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690] High confidence 2.21818 950.561 2108.52
25 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262] 2.0534 1833.01 892.67
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] Low confidence 1.24627 5847.46 4691.96

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/