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 Hugo Value Type description Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 158 to 207 of 12912 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
Rank
Hugo
Value Type
description
red
green
network_comparison
40 FCN2 Ranked ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485] 322 253 1.27273
GNAI1 Measured guanine nucleotide-binding protein g(i), alpha-1 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04898] 1836.81 907.978 2.02297
Rooted 40.2797 24.3705 1.65281
41 no value Ranked protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949] 322 253 1.27273
GNAI3 Measured guanine nucleotide-binding protein g(k), alpha subunit (g(i) alpha-3). [swissprot;acc:p08754] 1836.81 907.978 2.02297
Rooted 40.2797 24.3705 1.65281
MAP1LC3B Squared microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8] 144912 81155 1.78562
42 FOS Ranked proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100] 204.641 160.957 1.2714
GNB5 Measured guanine nucleotide-binding protein beta subunit 5 (transducin beta chain 5). [swissprot;acc:o14775] 1857.32 958.237 1.93827
Rooted 40.225 24.7051 1.62821
MAP1LC3A Squared microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492] 144911 81154.7 1.78561
43 no value Ranked jun dimerization protein. [refseq;acc:nm_130469] 204.641 160.957 1.2714
ATG4B Squared cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326] 144876 81136.5 1.78558
GNB1 Rooted guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 1 (transducin beta chain 1). [swissprot;acc:p04901] 40.6302 25.4452 1.59677
GNB3 Measured guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [swissprot;acc:p16520] 1881.02 1027.36 1.83093
44 FOSL2 Ranked fos-related antigen 2. [swissprot;acc:p15408] 204.641 161.046 1.2707
GABARAP Squared gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278] 139741 78454.6 1.78117
GNB1 Measured guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 1 (transducin beta chain 1). [swissprot;acc:p04901] 1931.34 1057.39 1.82652
GNB4 Rooted guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [swissprot;acc:q9hav0] 40.5691 25.4263 1.59556
45 no value Squared gaba-a receptor-associated protein. [sptrembl;acc:q9by60] 129597 73157.5 1.77148
FOSB Ranked protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539] 204.641 161.051 1.27066
GNB3 Rooted guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [swissprot;acc:p16520] 40.081 25.1546 1.59339
GNB4 Measured guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [swissprot;acc:q9hav0] 1926.69 1056.02 1.82448
46 ATG3 Squared apg3p; pc3-96 protein. [refseq;acc:nm_022488] 129597 73157.5 1.77148
DTX2 Rooted deltex 2. [refseq;acc:nm_020892] 27.634 43.9629 1.5909
FOSL1 Ranked fos-related antigen 1 (fra-1). [swissprot;acc:p15407] 204.642 161.068 1.27053
NEUROD2 Measured neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784] 779.167 1390.33 1.78438
47 no value Squared ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395] 98517.9 56927.2 1.73059
CHD3 Measured chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873] 779.167 1390.33 1.78438
DTX1 Rooted deltex homolog 1; hdx-1. [refseq;acc:nm_004416] 27.7078 44.017 1.58861
TMEM132A Ranked gbp protein isoform a. [refseq;acc:nm_017870] 325.586 256.492 1.26938
48 CDK2AP2 Measured doc-1 related protein (doc-1r). [swissprot;acc:o75956] 779.167 1390.33 1.78438
GABARAP Ranked gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278] 65.4586 83.0461 1.26868
LASS2 Squared lag1 longevity assurance homolog 2 isoform 1; l3 pigment; tumor metastasis-suppressor. [refseq;acc:nm_022075] 6300.2 10703.5 1.69891
PBK Rooted 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] 27.7254 44.0299 1.58807
49 ARRB2 Ranked beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121] 133 105 1.26667
KHDRBS3 Rooted kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [refseq;acc:nm_006558] 27.7254 44.0299 1.58807
NEUROD6 Measured neurogenic differentiation factor 6 (neurod6) (my051 protein). [swissprot;acc:q96nk8] 779.167 1390.33 1.78438
STAMBPL1 Squared associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799] 28994.2 17134.8 1.69212
50 ARRB1 Ranked beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407] 133 105 1.26667
CHMP2A Squared putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453] 28994.2 17134.8 1.69212
KHDRBS1 Rooted kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559] 27.7254 44.0299 1.58807
NEUROD1 Measured neurogenic differentiation factor 1 (neurod1) (neurod). [swissprot;acc:q13562] 779.167 1390.33 1.78438
51 KHDRBS2 Rooted kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688] 27.7254 44.0299 1.58807
NEUROD4 Measured neurogenic differentiation factor 4 (neurod4). [swissprot;acc:q9hd90] 779.167 1390.33 1.78438
SPATA6 Ranked spermatogenesis associated 6. [refseq;acc:nm_019073] 133 105 1.26667
STAMBP Squared associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463] 28994.2 17134.8 1.69212
52 AMPD2 Ranked amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433] 133 105 1.26667
CHD5 Measured chromodomain helicase dna binding protein 5. [refseq;acc:nm_015557] 779.167 1390.33 1.78438
NEURL Rooted neuralized-like. [refseq;acc:nm_004210] 27.9107 44.1656 1.58239

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/