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

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.


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Gene Rank Filtered description Value Type Network Comparison Type green Interaction Map red network_comparison
Results: HTML CSV LaTeX Showing element 501 to 550 of 9634 in total
Value Type  : Measured
Network Comparison Type  : Divided
Rank
Filtered
description
green
Interaction Map
red
network_comparison
126 0 calcyphosine. [swissprot;acc:q13938] 635.875 High confidence 472.524 1.3457
fos-related antigen 2. [swissprot;acc:p15408] 2407.27 Low confidence 3205.98 1.33179
1 cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326] 18164.9 High confidence 24250 1.33499
melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365] 10318.5 Low confidence 11285.3 1.0937
127 0 lipopolysaccharide-binding protein precursor (lbp). [swissprot;acc:p18428] 64 High confidence 86 1.34375
ubiquinol-cytochrome c reductase complex 7.2 kda protein (ec 1.10.2.2) (cytochrome c1, nonheme 7 kda protein) (complex iii subunit x) (7.2 kda cytochrome c1-associated protein subunit) (hspc119). [swissprot;acc:q9udw1] 511.5 Low confidence 680.5 1.3304
1 melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355] 10318.5 11285.3 1.0937
transcription factor jun-d. [swissprot;acc:p17535] 7523.39 High confidence 5638.2 1.33436
128 0 double-stranded rna-specific editase 1 (ec 3.5.-.-) (dsrna adenosine deaminase) (rna editing deaminase 1) (rna editing enzyme 1). [swissprot;acc:p78563] 391 Low confidence 294 1.32993
mitochondrial 28s ribosomal protein s22 (s22mt) (mrp-s22) (gk002). [swissprot;acc:p82650] 60.8613 High confidence 81.504 1.33918
1 luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019] 5810.82 4355.61 1.3341
melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363] 10318.5 Low confidence 11285.3 1.0937
129 0 amiloride-sensitive sodium channel delta-subunit (epithelial na+ channel delta subunit) (delta enac) (nonvoltage-gated sodium channel 1 delta subunit) (scned) (delta nach). [swissprot;acc:p51172] 194.326 146.219 1.32901
protein hspc134 (protein cda04). [swissprot;acc:q9by43] 454.837 High confidence 606.485 1.33341
1 luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032] 5811.49 4358.13 1.33348
melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366] 10318.5 Low confidence 11285.3 1.0937
130 0 maspin precursor (protease inhibitor 5). [swissprot;acc:p36952] 56 High confidence 42 1.33333
phosphatidylinositol 4-kinase alpha (ec 2.7.1.67) (pi4-kinase) (ptdins-4-kinase) (pi4k-alpha). [swissprot;acc:p42356] 937.501 Low confidence 707.801 1.32453
1 forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457] 2978.53 High confidence 2234.68 1.33287
melanoma-associated antigen d2 (mage-d2 antigen) (breast cancer associated gene 1 protein) (bcg-1) (11b6) (hepatocellular carcinoma associated protein jcl-1). [swissprot;acc:q9unf1] 10318.5 Low confidence 11285.3 1.0937
131 0 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] 851.77 645.504 1.31954
serpin b11. [swissprot;acc:q96p15] 56 High confidence 42 1.33333
1 forkhead box protein p1 (hspc215). [swissprot;acc:q9h334] 2978.57 2234.73 1.33285
trophinin. [swissprot;acc:q12816] 10318.5 Low confidence 11285.3 1.0937
132 0 cytoplasmic antiproteinase 2 (cap2) (cap-2) (protease inhibitor 8) (serpin b8). [swissprot;acc:p50452] 56 High confidence 42 1.33333
wd-repeat protein 5 (wd-repeat protein big-3). [swissprot;acc:q9ugp9] 191.971 Low confidence 251.947 1.31242
1 dual specificity mitogen-activated protein kinase kinase 4 (ec 2.7.1.-) (map kinase kinase 4) (jnk activating kinase 1) (c-jun n- terminal kinase kinase 1) (jnkk) (sapk/erk kinase 1) (sek1). [swissprot;acc:p45985] 5441.83 5948.88 1.09318
forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1] 2980.35 High confidence 2236.61 1.33253
133 0 bifunctional 3'-phosphoadenosine 5'-phosphosulfate synthethase 2 (paps synthethase 2) (papss 2) (sulfurylase kinase 2) (sk2) (sk 2) [includes: sulfate adenylyltransferase (ec 2.7.7.4) (sulfate adenylate transferase) (sat) (atp-sulfurylase); adenylylsulfate kinase (ec 2.7.1.25) (adenylylsulfate 3'-phosphotransferase) (aps kinase) (adenosine-5'-phosphosulfate 3'-phosphotransferase) (3'- phosphoadenosine-5'-phosphosulfate synthetase)]. [swissprot;acc:o95340] 335 252 1.32937
cdc42-binding protein kinase beta; cdc42-binding protein kinase beta (dmpk-like); mrck beta; dmpk-like. [refseq;acc:nm_006035] 1139 Low confidence 874 1.3032
1 gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278] 17580.4 High confidence 23421.5 1.33225
ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464] 7662.77 Low confidence 7013 1.09265
134 0 mms19-like (met18 homolog, s. cerevisiae); homolog of yeast mms19; mms19 (met18 s. cerevisiae)-like. [refseq;acc:nm_022362] 346.751 High confidence 260.986 1.32862
presenilin-like protein 1 (ec 3.4.99.-) (sppl2b protein). [swissprot;acc:q8tct7] 1139 Low confidence 874 1.3032
1 ba127l20.1 (novel glutathione-s-transferase). [sptrembl;acc:q9h4y5] 7286.66 6670.21 1.09242
gaba-a receptor-associated protein. [sptrembl;acc:q9by60] 16426.1 High confidence 21785.2 1.32626
135 0 maguk p55 subfamily member 2 (mpp2 protein) (discs, large homolog 2). [swissprot;acc:q14168] 203.832 Low confidence 265.513 1.30261
rna polymerase i transcription factor rrn3. [refseq;acc:nm_018427] 613.614 High confidence 814.485 1.32736
1 apg3p; pc3-96 protein. [refseq;acc:nm_022488] 16426.1 21785.2 1.32626
high-mobility group 20a. [refseq;acc:nm_018200] 7916.96 Low confidence 7248.24 1.09226
136 0 blood group rh(ce) polypeptide (rhesus c/e antigens) (rh30a) (rhixb) (rh polypeptide 1) (rhpi). [swissprot;acc:p18577] 154.324 200.834 1.30138
transcription factor e2f2 (e2f-2). [swissprot;acc:q14209] 1150.51 High confidence 1526.38 1.3267
1 nuclear transcription factor y subunit gamma (nf-y protein chain c) (nuclear factor yc) (nf-yc) (ccaat-binding transcription factor subunit c) (cbf-c) (transactivator hsm-1/2). [swissprot;acc:q13952] 4763.34 3620.77 1.31556
ribosomal protein s6 kinase, 52kda, polypeptide 1; ribosomal protein s6 kinase, 52kd, polypeptide 1. [refseq;acc:nm_012424] 7667.34 Low confidence 7020.48 1.09214
137 0 blood group rh(d) polypeptide (rhesus d antigen) (rhxiii) (rh polypeptide 2) (rhpii). [swissprot;acc:q02161] 154.279 200.759 1.30127
heat shock factor binding protein 1. [swissprot;acc:o75506] 1233.41 High confidence 1631.18 1.3225
1 ccaat-binding transcription factor subunit b (cbf-b) (nf-y protein chain a) (nf-ya) (caat-box dna binding protein subunit a). [swissprot;acc:p23511] 4763.34 3620.77 1.31556
t-box transcription factor tbx19 (t-box protein 19). [swissprot;acc:o60806] 6699.58 Low confidence 6139.6 1.09121
138 0 blood group rh(ce) polypeptide (rhesus c/e antigens) (rh30a) (rhixb) (rh polypeptide 1) (rhpi). [swissprot;acc:p18577] 154.279 200.759 1.30127
ubiquitin-conjugating enzyme e2-17 kda 3 (ec 6.3.2.19) (ubiquitin- protein ligase) (ubiquitin carrier protein) (e2(17)kb 3). [swissprot;acc:p47986] 154.804 High confidence 204.382 1.32026

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/