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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Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].
Rank Gene Hugo description Network Comparison Type Value Type Interaction Map Filtered red network_comparison green
Results: HTML CSV LaTeX Showing element 336 to 385 of 25824 in total
Interaction Map  : High confidence
Filtered  : 1
Rank
Hugo
description
Network Comparison Type
Value Type
red
network_comparison
green
42 PBK 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 Ranked 332.874 65.628 267.246
43 no value jun dimerization protein. [refseq;acc:nm_130469] Divided 204.641 1.2714 160.957
ATG3 apg3p; pc3-96 protein. [refseq;acc:nm_022488] Subtracted Measured 21785.2 5359.1 16426.1
ATG4B cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326] Divided Squared 144876 1.78558 81136.5
FOSL2 fos-related antigen 2. [swissprot;acc:p15408] Subtracted Rooted 60.8675 16.8493 77.7168
GNB1 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
GNB3 guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [swissprot;acc:p16520] Measured 1881.02 1.83093 1027.36
KHDRBS3 kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [refseq;acc:nm_006558] Subtracted Ranked 332.874 65.628 267.246
MYO5B myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0] Squared 110342 73956 184298
44 DNASE2B deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233] Measured 28136.5 5321.1 33457.6
FOSB protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539] Rooted 60.8692 16.8473 77.7165
FOSL2 fos-related antigen 2. [swissprot;acc:p15408] Divided Ranked 204.641 1.2707 161.046
GABARAP gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278] Squared 139741 1.78117 78454.6
GNB1 guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 1 (transducin beta chain 1). [swissprot;acc:p04901] Measured 1931.34 1.82652 1057.39
GNB4 guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [swissprot;acc:q9hav0] Rooted 40.5691 1.59556 25.4263
KHDRBS1 kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559] Subtracted Ranked 332.874 65.628 267.246
MYO5C myosin vc (myosin 5c). [swissprot;acc:q9nqx4] Squared 110342 73956 184298
45 no value gaba-a receptor-associated protein. [sptrembl;acc:q9by60] Divided 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
FOSB protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539] Divided Ranked 204.641 1.27066 161.051
FOSL1 fos-related antigen 1 (fra-1). [swissprot;acc:p15407] Subtracted Rooted 60.875 16.8402 77.7152
GNB3 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
GNB4 guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [swissprot;acc:q9hav0] Measured 1926.69 1.82448 1056.02
KHDRBS2 kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688] Subtracted Ranked 332.874 65.628 267.246
PPP1R7 protein phosphatase 1, regulatory subunit 7; sds22. [refseq;acc:nm_002712] Measured 27642.5 5202.1 22440.4
46 ATG3 apg3p; pc3-96 protein. [refseq;acc:nm_022488] Divided Squared 129597 1.77148 73157.5
CPSF4 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 Measured 24896.4 4464.7 20431.7
DTX2 deltex 2. [refseq;acc:nm_020892] Divided Rooted 27.634 1.5909 43.9629
FOSL1 fos-related antigen 1 (fra-1). [swissprot;acc:p15407] Ranked 204.642 1.27053 161.068
MAGED4 melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801] Subtracted Rooted 137.446 16.623 120.823
NEURL neuralized-like. [refseq;acc:nm_004210] Ranked 332.326 65.378 266.948
NEUROD2 neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784] Divided Measured 779.167 1.78438 1390.33
PAPOLA poly(a) polymerase alpha (ec 2.7.7.19) (pap) (polynucleotide adenylyltransferase alpha) (fragment). [swissprot;acc:p51003] Subtracted Squared 210445 73666 136779
47 no value ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395] Divided 98517.9 1.73059 56927.2
CHD3 chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873] Measured 779.167 1.78438 1390.33
DTX1 deltex homolog 1; hdx-1. [refseq;acc:nm_004416] Rooted 27.7078 1.58861 44.017
EXOC2 exocyst complex component sec5. [swissprot;acc:q96kp1] Subtracted Squared 210335 73619 136716
KIAA1012 trs85 homolog. [swissprot;acc:q9y2l5] Measured 24896.4 4464.7 20431.7
MAGEE2 hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703] Rooted 137.446 16.623 120.823
TMEM132A gbp protein isoform a. [refseq;acc:nm_017870] Divided Ranked 325.586 1.26938 256.492
TOB2 tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106] Subtracted 350 60 290
48 no value melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357] Rooted 137.446 16.623 120.823
CDK2AP2 doc-1 related protein (doc-1r). [swissprot;acc:o75956] Divided Measured 779.167 1.78438 1390.33
GABARAP gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278] Ranked 65.4586 1.26868 83.0461
LASS2 lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075] Squared 6300.2 1.69891 10703.5
PAPOLG poly(a) polymerase gamma (ec 2.7.7.19) (pap gamma) (polynucleotide adenylyltransferase gamma) (srp rna 3' adenylating enzyme). [swissprot;acc:q9bwt3] Subtracted 210199 73561 136638
PBK 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] Divided Rooted 27.7254 1.58807 44.0299
TOB1 tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616] Subtracted Ranked 350 60 290
WDR33 wd-repeat protein wdc146. [swissprot;acc:q9c0j8] Measured 24806.9 4437 20369.9
49 ARRB2 beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121] Divided Ranked 133 1.26667 105

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
- Hugo is the HGNC identifier if it exists
- 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/