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 description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 4458 to 4507 of 25824 in total
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Value Type
Network Comparison Type
red
green
network_comparison
558 cbl e3 ubiquitin protein ligase (ec 6.3.2.-) (signal transduction protein cbl) (proto-oncogene c-cbl). [swissprot;acc:p22681] Rooted Divided 66.1583 71.6729 1.08335
pp3111 protein. [refseq;acc:nm_022156] Subtracted 55.5489 50.535 5.0139
presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768] Squared Divided 8426.68 10010.8 1.18799
ran-gtp binding protein (fragment). [sptrembl;acc:o60518] Subtracted 30802.6 35663.9 4861.3
selenide,water dikinase 1 (ec 2.7.9.3) (selenophosphate synthetase 1) (selenium donor protein 1). [swissprot;acc:p49903] Measured Divided 6167.93 7007.7 1.13615
tgf beta-inducible nuclear protein 1; hairy cell leukemia protein 1. [refseq;acc:nm_014886] Ranked Subtracted 248.994 235.255 13.739
ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395] Divided 135.087 144.041 1.06628
559 cullin homolog 1 (cul-1). [swissprot;acc:q13616] Squared 8426.68 10010.8 1.18799
ferritin heavy chain (ferritin h subunit). [swissprot;acc:p02794] Rooted 62.7397 67.9651 1.08329
inositol polyphosphate-4-phosphatase, type 1 isoform b; inositol polyphosphate-4-phosphatase, type i, 107kd; 4-phosphatase i; inositol polyphosphate-4-phosphatase i. [refseq;acc:nm_001566] Measured 6167.93 7007.7 1.13615
neural wiskott-aldrich syndrome protein (n-wasp). [swissprot;acc:o00401] Ranked 207.309 194.452 1.06612
nucleobindin 1 precursor (calnuc). [swissprot;acc:q02818] Squared Subtracted 23531.7 28371.6 4839.9
potential carboxypeptidase x precursor (ec 3.4.17.-) (metallocarboxypeptidase cpx-1). [swissprot;acc:q96sm3] Measured 6593.17 7364.55 771.38
ribonuclease p protein subunit p30 (ec 3.1.26.5) (rnasep protein p30) (rnase p subunit 2). [swissprot;acc:p78346] Ranked 216.72 230.439 13.719
syntaxin 18. [swissprot;acc:q9p2w9] Rooted 55.5489 50.535 5.0139
560 cystathionine beta-synthase (ec 4.2.1.22) (serine sulfhydrase) (beta-thionase). [swissprot;acc:p35520] Measured Divided 5480.24 6222.04 1.13536
dna mismatch repair protein mlh1 (mutl protein homolog 1). [swissprot;acc:p40692] Squared Subtracted 23531.7 28371.6 4839.9
electron transfer flavoprotein-ubiquinone oxidoreductase, mitochondrial precursor (ec 1.5.5.1) (etf-qo) (etf-ubiquinone oxidoreductase) (etf dehydrogenase) (electron-transferring- flavoprotein dehydrogenase). [swissprot;acc:q16134] Divided 26334.7 31272.3 1.18749
partitioning defective-6 homolog gamma (par-6 gamma) (par6d). [swissprot;acc:q9byg4] Measured Subtracted 6374.65 7145.59 770.94
putative eukaryotic translation initiation factor 1a (eif-1a) (eif- 4c). [swissprot;acc:o75642] Rooted Divided 51.0687 47.1439 1.08325
rd protein. [swissprot;acc:p18615] Subtracted 55.5489 50.535 5.0139
son of sevenless protein homolog 1 (sos-1). [swissprot;acc:q07889] Ranked Divided 205.74 193.021 1.06589
tata-binding protein-associated phosphoprotein (down-regulator of transcription 1) (dr1 protein). [swissprot;acc:q01658] Subtracted 232.118 218.406 13.712
561 cellular repressor of e1a-stimulated genes 2. [refseq;acc:nm_153836] Rooted Divided 62.7424 67.9648 1.08324
glutathione transferase omega 1 (ec 2.5.1.18) (gsto 1-1). [swissprot;acc:p78417] Subtracted 55.5489 50.535 5.0139
nucleobindin 2 precursor (dna-binding protein nefa). [swissprot;acc:p80303] Squared 23531.7 28371.6 4839.9
son of sevenless protein homolog 2 (sos-2). [swissprot;acc:q07890] Ranked Divided 205.89 193.183 1.06578
transforming protein rhoc (h9). [swissprot;acc:p08134] Measured 5480.24 6222.04 1.13536
tubby protein homolog. [swissprot;acc:p50607] Subtracted 6374.65 7145.59 770.94
u6 snrna-associated sm-like protein lsm2 (small nuclear ribonuclear protein d homolog) (g7b) (snrnp core sm-like protein sm-x5). [swissprot;acc:q9y333] Ranked 228.215 214.546 13.669
u6 snrna-associated sm-like protein lsm8. [swissprot;acc:o95777] Squared Divided 18240.1 21659.2 1.18745
562 androgen-induced 1; cgi-103 protein; androgen induced protein. [refseq;acc:nm_016108] Rooted Subtracted 55.5489 50.535 5.0139
dj681n20.2 (novel protein similar to ferritin, light polypeptide (ftl)). [sptrembl;acc:q9byw6] Divided 62.7424 67.9648 1.08324
enteropeptidase precursor (ec 3.4.21.9) (enterokinase). [swissprot;acc:p98073] Ranked Subtracted 224.606 210.944 13.662
fructose-1,6-bisphosphatase isozyme 2 (ec 3.1.3.11) (d-fructose-1,6- bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:o00757] Squared Divided 25294.9 30027.4 1.18709
protein kinase c, iota type (ec 2.7.1.37) (npkc-iota) (atypical protein kinase c-lamda/iota) (apkc-lambda/iota). [swissprot;acc:p41743] Measured Subtracted 6374.65 7145.59 770.94
ptb domain adaptor protein ced-6; engulfment adapter protein. [refseq;acc:nm_016315] Ranked Divided 220.744 207.121 1.06577
small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [swissprot;acc:p13641] Squared Subtracted 14943.9 19771.9 4828
thiosulfate sulfurtransferase (ec 2.8.1.1) (rhodanese). [swissprot;acc:q16762] Measured Divided 5480.24 6222.04 1.13536
563 3-mercaptopyruvate sulfurtransferase (ec 2.8.1.2) (mst). [swissprot;acc:p25325]
atp synthase b chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p24539] Rooted Subtracted 55.5489 50.535 5.0139
calcyphosine. [swissprot;acc:q13938] Ranked Divided 220.744 207.121 1.06577
disks large-associated protein 1 (dap-1) (guanylate kinase-associated protein) (hgkap) (sap90/psd-95-associated protein 1) (sapap1) (psd- 95/sap90 binding protein 1). [swissprot;acc:o14490] Rooted 62.7424 67.9648 1.08324
numb protein homolog (h-numb) (protein s171). [swissprot;acc:p49757] Measured Subtracted 6374.65 7145.59 770.94
splicing factor 3b subunit 2 (spliceosome associated protein 145) (sap 145) (sf3b150) (pre-mrna splicing factor sf3b 145 kda subunit). [swissprot;acc:q13435] Ranked 224.606 210.944 13.662
sprouty homolog 4 (spry-4). [swissprot;acc:q9c004] Squared 27174.1 31992.4 4818.3
wiskott-aldrich syndrome protein interacting protein (wasp interacting protein) (prpl-2 protein). [swissprot;acc:o43516] Divided 30408.3 36092.8 1.18694
564 cad protein [includes: glutamine-dependent carbamoyl-phosphate synthase (ec 6.3.5.5); aspartate carbamoyltransferase (ec 2.1.3.2); dihydroorotase (ec 3.5.2.3)]. [swissprot;acc:p27708] 25396.2 30143.4 1.18693
crooked neck-like protein 1 (crooked neck homolog) (hcrn) (cgi-201) (mstp021). [swissprot;acc:q9bzj0] Ranked 220.744 207.121 1.06577
j domain containing protein 1. [swissprot;acc:q9ukb3] Rooted Subtracted 55.5489 50.535 5.0139

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/