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 Value Type description Network Comparison Type Interaction Map Filtered red network_comparison green
Results: HTML CSV LaTeX Showing element 325 to 374 of 25824 in total
Interaction Map  : High confidence
Filtered  : 1
Rank
Value Type
description
Network Comparison Type
red
network_comparison
green
41 Squared fip1-like 1; rearranged in hypereosinophilia. [refseq;acc:nm_030917] Subtracted 214143 75806 138337
microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8] Divided 144912 1.78562 81155
Rooted guanine nucleotide-binding protein g(k), alpha subunit (g(i) alpha-3). [swissprot;acc:p08754] 40.2797 1.65281 24.3705
proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100] Subtracted 60.8365 16.8868 77.7233
42 Measured gaba-a receptor-associated protein. [sptrembl;acc:q9by60] 21785.2 5359.1 16426.1
guanine nucleotide-binding protein beta subunit 5 (transducin beta chain 5). [swissprot;acc:o14775] Divided 1857.32 1.93827 958.237
Ranked proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100] 204.641 1.2714 160.957
t-lak cell-originated protein kinase; spermatogenesis-related protein kinase; pdz-binding kinase; pbk; mapkk-like protein kinase; serine/threonine protein kinase. [refseq;acc:nm_018492] Subtracted 332.874 65.628 267.246
Squared cleavage and polyadenylation specificity factor, 73 kda subunit (cpsf 73 kda subunit). [swissprot;acc:q9ukf6] 211446 74024 137422
microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492] Divided 144911 1.78561 81154.7
Rooted guanine nucleotide-binding protein beta subunit 5 (transducin beta chain 5). [swissprot;acc:o14775] 40.225 1.62821 24.7051
jun dimerization protein. [refseq;acc:nm_130469] Subtracted 60.8365 16.8868 77.7233
43 Measured apg3p; pc3-96 protein. [refseq;acc:nm_022488] 21785.2 5359.1 16426.1
guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [swissprot;acc:p16520] Divided 1881.02 1.83093 1027.36
Ranked jun dimerization protein. [refseq;acc:nm_130469] 204.641 1.2714 160.957
kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [refseq;acc:nm_006558] Subtracted 332.874 65.628 267.246
Squared cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326] Divided 144876 1.78558 81136.5
myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0] Subtracted 110342 73956 184298
Rooted fos-related antigen 2. [swissprot;acc:p15408] 60.8675 16.8493 77.7168
guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 1 (transducin beta chain 1). [swissprot;acc:p04901] Divided 40.6302 1.59677 25.4452
44 Measured deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233] Subtracted 28136.5 5321.1 33457.6
guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 1 (transducin beta chain 1). [swissprot;acc:p04901] Divided 1931.34 1.82652 1057.39
Ranked fos-related antigen 2. [swissprot;acc:p15408] 204.641 1.2707 161.046
kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559] Subtracted 332.874 65.628 267.246
Squared gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278] Divided 139741 1.78117 78454.6
myosin vc (myosin 5c). [swissprot;acc:q9nqx4] Subtracted 110342 73956 184298
Rooted guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [swissprot;acc:q9hav0] Divided 40.5691 1.59556 25.4263
protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539] Subtracted 60.8692 16.8473 77.7165
45 Measured guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [swissprot;acc:q9hav0] Divided 1926.69 1.82448 1056.02
protein phosphatase 1, regulatory subunit 7; sds22. [refseq;acc:nm_002712] Subtracted 27642.5 5202.1 22440.4
Ranked kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688] 332.874 65.628 267.246
protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539] Divided 204.641 1.27066 161.051
Squared gaba-a receptor-associated protein. [sptrembl;acc:q9by60] 129597 1.77148 73157.5
myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1] Subtracted 110342 73956 184298
Rooted fos-related antigen 1 (fra-1). [swissprot;acc:p15407] 60.875 16.8402 77.7152
guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [swissprot;acc:p16520] Divided 40.081 1.59339 25.1546
46 Measured cleavage and polyadenylation specific factor 4, 30kd subunit; cleavage-polyadenylation specificity factor, 30kd; no arches-like (zebrafish) zinc finger protein; cleavage-polyadenylation specificity factor. [refseq;acc:nm_006693] Subtracted 24896.4 4464.7 20431.7
neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784] Divided 779.167 1.78438 1390.33
Ranked fos-related antigen 1 (fra-1). [swissprot;acc:p15407] 204.642 1.27053 161.068
neuralized-like. [refseq;acc:nm_004210] Subtracted 332.326 65.378 266.948
Squared apg3p; pc3-96 protein. [refseq;acc:nm_022488] Divided 129597 1.77148 73157.5
poly(a) polymerase alpha (ec 2.7.7.19) (pap) (polynucleotide adenylyltransferase alpha) (fragment). [swissprot;acc:p51003] Subtracted 210445 73666 136779
Rooted deltex 2. [refseq;acc:nm_020892] Divided 27.634 1.5909 43.9629
melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801] Subtracted 137.446 16.623 120.823
47 Measured chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873] Divided 779.167 1.78438 1390.33
trs85 homolog. [swissprot;acc:q9y2l5] Subtracted 24896.4 4464.7 20431.7
Ranked gbp protein isoform a. [refseq;acc:nm_017870] Divided 325.586 1.26938 256.492
tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106] Subtracted 350 60 290
Squared exocyst complex component sec5. [swissprot;acc:q96kp1] 210335 73619 136716
ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395] Divided 98517.9 1.73059 56927.2

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/