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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Gene Rank description Network Comparison Type Value Type Interaction Map Filtered red network_comparison green
Results: HTML CSV LaTeX Showing element 501 to 550 of 9634 in total
Network Comparison Type  : Divided
Value Type  : Measured
Rank
description
Interaction Map
Filtered
red
network_comparison
green
126 calcyphosine. [swissprot;acc:q13938] High confidence 0 472.524 1.3457 635.875
cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326] 1 24250 1.33499 18164.9
fos-related antigen 2. [swissprot;acc:p15408] Low confidence 0 3205.98 1.33179 2407.27
melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365] 1 11285.3 1.0937 10318.5
127 lipopolysaccharide-binding protein precursor (lbp). [swissprot;acc:p18428] High confidence 0 86 1.34375 64
melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355] Low confidence 1 11285.3 1.0937 10318.5
transcription factor jun-d. [swissprot;acc:p17535] High confidence 5638.2 1.33436 7523.39
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] Low confidence 0 680.5 1.3304 511.5
128 double-stranded rna-specific editase 1 (ec 3.5.-.-) (dsrna adenosine deaminase) (rna editing deaminase 1) (rna editing enzyme 1). [swissprot;acc:p78563] 294 1.32993 391
luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019] High confidence 1 4355.61 1.3341 5810.82
melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363] Low confidence 11285.3 1.0937 10318.5
mitochondrial 28s ribosomal protein s22 (s22mt) (mrp-s22) (gk002). [swissprot;acc:p82650] High confidence 0 81.504 1.33918 60.8613
129 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] Low confidence 146.219 1.32901 194.326
luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032] High confidence 1 4358.13 1.33348 5811.49
melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366] Low confidence 11285.3 1.0937 10318.5
protein hspc134 (protein cda04). [swissprot;acc:q9by43] High confidence 0 606.485 1.33341 454.837
130 forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457] 1 2234.68 1.33287 2978.53
maspin precursor (protease inhibitor 5). [swissprot;acc:p36952] 0 42 1.33333 56
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] Low confidence 1 11285.3 1.0937 10318.5
phosphatidylinositol 4-kinase alpha (ec 2.7.1.67) (pi4-kinase) (ptdins-4-kinase) (pi4k-alpha). [swissprot;acc:p42356] 0 707.801 1.32453 937.501
131 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] 645.504 1.31954 851.77
forkhead box protein p1 (hspc215). [swissprot;acc:q9h334] High confidence 1 2234.73 1.33285 2978.57
serpin b11. [swissprot;acc:q96p15] 0 42 1.33333 56
trophinin. [swissprot;acc:q12816] Low confidence 1 11285.3 1.0937 10318.5
132 cytoplasmic antiproteinase 2 (cap2) (cap-2) (protease inhibitor 8) (serpin b8). [swissprot;acc:p50452] High confidence 0 42 1.33333 56
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] Low confidence 1 5948.88 1.09318 5441.83
forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1] High confidence 2236.61 1.33253 2980.35
wd-repeat protein 5 (wd-repeat protein big-3). [swissprot;acc:q9ugp9] Low confidence 0 251.947 1.31242 191.971
133 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] High confidence 252 1.32937 335
cdc42-binding protein kinase beta; cdc42-binding protein kinase beta (dmpk-like); mrck beta; dmpk-like. [refseq;acc:nm_006035] Low confidence 874 1.3032 1139
gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278] High confidence 1 23421.5 1.33225 17580.4
ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464] Low confidence 7013 1.09265 7662.77
134 ba127l20.1 (novel glutathione-s-transferase). [sptrembl;acc:q9h4y5] 6670.21 1.09242 7286.66
gaba-a receptor-associated protein. [sptrembl;acc:q9by60] High confidence 21785.2 1.32626 16426.1
mms19-like (met18 homolog, s. cerevisiae); homolog of yeast mms19; mms19 (met18 s. cerevisiae)-like. [refseq;acc:nm_022362] 0 260.986 1.32862 346.751
presenilin-like protein 1 (ec 3.4.99.-) (sppl2b protein). [swissprot;acc:q8tct7] Low confidence 874 1.3032 1139
135 apg3p; pc3-96 protein. [refseq;acc:nm_022488] High confidence 1 21785.2 1.32626 16426.1
high-mobility group 20a. [refseq;acc:nm_018200] Low confidence 7248.24 1.09226 7916.96
maguk p55 subfamily member 2 (mpp2 protein) (discs, large homolog 2). [swissprot;acc:q14168] 0 265.513 1.30261 203.832
rna polymerase i transcription factor rrn3. [refseq;acc:nm_018427] High confidence 814.485 1.32736 613.614
136 blood group rh(ce) polypeptide (rhesus c/e antigens) (rh30a) (rhixb) (rh polypeptide 1) (rhpi). [swissprot;acc:p18577] Low confidence 200.834 1.30138 154.324
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] High confidence 1 3620.77 1.31556 4763.34
ribosomal protein s6 kinase, 52kda, polypeptide 1; ribosomal protein s6 kinase, 52kd, polypeptide 1. [refseq;acc:nm_012424] Low confidence 7020.48 1.09214 7667.34
transcription factor e2f2 (e2f-2). [swissprot;acc:q14209] High confidence 0 1526.38 1.3267 1150.51
137 blood group rh(d) polypeptide (rhesus d antigen) (rhxiii) (rh polypeptide 2) (rhpii). [swissprot;acc:q02161] Low confidence 200.759 1.30127 154.279
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] High confidence 1 3620.77 1.31556 4763.34
heat shock factor binding protein 1. [swissprot;acc:o75506] 0 1631.18 1.3225 1233.41
t-box transcription factor tbx19 (t-box protein 19). [swissprot;acc:o60806] Low confidence 1 6139.6 1.09121 6699.58
138 blood group rh(ce) polypeptide (rhesus c/e antigens) (rh30a) (rhixb) (rh polypeptide 1) (rhpi). [swissprot;acc:p18577] 0 200.759 1.30127 154.279
glutathione transferase omega 1 (ec 2.5.1.18) (gsto 1-1). [swissprot;acc:p78417] 1 6709 1.09008 7313.38

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/