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

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/