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.


Navigation/Query Panel:
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 Interaction Map Value Type Network Comparison Type Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 1873 to 1922 of 7460 in total
Interaction Map  : High confidence
Value Type  : Ranked
Rank
description
Network Comparison Type
Filtered
red
green
network_comparison
469 fem-1 homolog b; fem-1-like death receptor binding protein; fem-1 (c.elegans) homolog b. [refseq;acc:nm_015322] Divided 1 248.152 267.226 1.07686
histone h2a; h2a histone family, member r. [refseq;acc:nm_170745] 0 21205 20914 1.01391
polyadenylate-binding protein 3 (poly(a)-binding protein 3) (pabp 3) (testis-specific poly(a)-binding protein). [swissprot;acc:q9h361] Subtracted 1251 1373 122
potassium voltage-gated channel subfamily a member 2 (potassium channel kv1.2) (rbk2) (hbk5) (ngk1) (mk2) (hukiv). [swissprot;acc:p16389] 1 226.789 210.818 15.971
470 h2a histone family, member j isoform 1. [refseq;acc:nm_018267] Divided 0 21205 20914 1.01391
inhibitor of growth family, member 1; inhibitor of growth 1. [refseq;acc:nm_005537] Subtracted 1 224.535 240.476 15.941
leucine-rich repeat protein lrrc3 precursor. [swissprot;acc:q9by71] Divided 248.152 267.226 1.07686
tyrosine aminotransferase (ec 2.6.1.5) (l-tyrosine:2-oxoglutarate aminotransferase) (tat). [swissprot;acc:p17735] Subtracted 0 12223.8 12127.5 96.3
471 galectin-4 (lactose-binding lectin 4) (l-36 lactose binding protein) (l36lbp) (antigen ny-co-27). [swissprot;acc:p56470] Divided 11319.2 11463 1.0127
laminin gamma-1 chain precursor (laminin b2 chain). [swissprot;acc:p11047] 1 248.152 267.226 1.07686
uridine kinase-like 1. [swissprot;acc:q9nwz5] Subtracted 0 11554.3 11462.4 91.9
zinc finger-like protein 9. [refseq;acc:nm_033414] 1 250.942 235.004 15.938
472 membrane-associated transporter protein (aim-1 protein) (melanoma antigen aim1). [swissprot;acc:q9umx9]
peroxisomal acyl-coenzyme a thioester hydrolase 2a (ec 3.1.2.2) (peroxisomal long-chain acyl-coa thioesterase 2) (zap128). [swissprot;acc:p49753] Divided 0 7080.27 7165.6 1.01205
rwd domain containing 1; ptd013 protein; cgi-24 protein. [refseq;acc:nm_015952] Subtracted 21970 21880 90
thymic stromal co-transporter. [refseq;acc:nm_033051] Divided 1 248.152 267.226 1.07686
473 3-ketoacyl-coa thiolase, peroxisomal precursor (ec 2.3.1.16) (beta- ketothiolase) (acetyl-coa acyltransferase) (peroxisomal 3-oxoacyl- coa thiolase). [swissprot;acc:p09110] Subtracted 0 10156.4 10243.1 86.7
cop9 signalosome complex subunit 1 (g protein pathway suppressor 1) (gps1 protein) (mfh protein). [swissprot;acc:q13098] Divided 816 825 1.01103
guanine nucleotide-binding protein-like 1 (gtp-binding protein hsr1). [swissprot;acc:p36915] Subtracted 1 250.942 235.004 15.938
pre-mrna processing factor 31 homolog; pre-mrna processing factor 31 homolog (yeast). [refseq;acc:nm_015629] Divided 225.661 209.651 1.07637
474 lipocalin-interacting membrane receptor. [refseq;acc:nm_018113] 0 11290.1 11167.6 1.01097
peroxisomal acyl-coenzyme a thioester hydrolase 2a (ec 3.1.2.2) (peroxisomal long-chain acyl-coa thioesterase 2) (zap128). [swissprot;acc:p49753] Subtracted 7080.27 7165.6 85.33
potassium voltage-gated channel subfamily a member 1 (potassium channel kv1.1) (huki) (hbk1). [swissprot;acc:q09470] 1 226.727 210.816 15.911
potassium voltage-gated channel subfamily a member 2 (potassium channel kv1.2) (rbk2) (hbk5) (ngk1) (mk2) (hukiv). [swissprot;acc:p16389] Divided 226.789 210.818 1.07576
475 adp-ribosylation factor-like protein 7 (adp-ribosylation factor-like protein lak). [swissprot;acc:p56559] 0 18667 18500 1.00903
huntingtin interacting protein c. [refseq;acc:nm_012272] Subtracted 13372.4 13288.3 84.1
potassium voltage-gated channel subfamily a member 1 (potassium channel kv1.1) (huki) (hbk1). [swissprot;acc:q09470] Divided 1 226.727 210.816 1.07547
protein cgi-27 (c21orf19-like protein). [swissprot;acc:q9y316] Subtracted 236.964 252.86 15.896
476 atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915] Divided 0 8403 8329 1.00888
dj153g14.2 (possible ca binding protein similar to nefa) (fragment). [sptrembl;acc:q9ujn8] Subtracted 5558.06 5473.99 84.07
potassium voltage-gated channel subfamily a member 4 (potassium channel kv1.4) (hk1) (hpcn2) (hbk4) (hukii). [swissprot;acc:p22459] Divided 1 226.681 210.814 1.07527
Subtracted 15.867
477 pepsin a precursor (ec 3.4.23.1). [swissprot;acc:p00790] 0 12461.5 12542.3 80.8
rho guanine nucleotide exchange factor 7 (pak-interacting exchange factor beta) (beta-pix) (cool-1) (p85). [swissprot;acc:q14155] 1 220.183 236.015 15.832
saccharomyces cerevisiae nip7p homolog. [refseq;acc:nm_016101] Divided 251.926 234.547 1.0741
ubiquitin-conjugating enzyme e2-17 kda 3 (ec 6.3.2.19) (ubiquitin- protein ligase) (ubiquitin carrier protein) (e2(17)kb 3). [swissprot;acc:p47986] 0 15920 15780.2 1.00886
478 3-ketoacyl-coa thiolase, peroxisomal precursor (ec 2.3.1.16) (beta- ketothiolase) (acetyl-coa acyltransferase) (peroxisomal 3-oxoacyl- coa thiolase). [swissprot;acc:p09110] 10156.4 10243.1 1.00854
serine/threonine-protein kinase pak 2 (ec 2.7.1.-) (p21-activated kinase 2) (pak-2) (pak65) (gamma-pak) (s6/h4 kinase). [swissprot;acc:q13177] Subtracted 1 220.171 235.979 15.808
small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578] 0 775 696 79
transcription factor iiib 90 kda subunit (tfiiib90) (htfiiib90) (b- related factor 1) (hbrf) (tata box-binding protein-associated factor, rna polymerase iii, subunit 2) (taf3b2). [swissprot;acc:q92994] Divided 1 228.051 212.321 1.07409
479 aldehyde dehydrogenase 8 (ec 1.2.1.5). [swissprot;acc:p48448] 0 15155.8 15031.7 1.00826
conserved oligomeric golgi complex subunit 5 (13s golgi transport complex 90 kda subunit) (gtc-90) (golgi transport complex 1). [swissprot;acc:q9up83] Subtracted 1 220.172 235.98 15.808
nucleolar protein family a, member 1; gar1 protein. [refseq;acc:nm_018983] Divided 228.051 212.321 1.07409
survival motor neuron protein (component of gems 1) (gemin1). [swissprot;acc:q16637] Subtracted 0 13236.8 13159.3 77.5
480 heat shock factor binding protein 1. [swissprot;acc:o75506] 15204.2 15127.8 76.4
neuropilin- and tolloid-like protein 2 precursor. [refseq;acc:nm_018092] Divided 1 237.109 254.667 1.07405
serine/threonine-protein kinase pak 1 (ec 2.7.1.-) (p21-activated kinase 1) (pak-1) (p65-pak) (alpha-pak). [swissprot;acc:q13153] Subtracted 220.172 235.98 15.808
uncharacterized bone marrow protein bm033. [refseq;acc:nm_018452] Divided 0 15155.8 15031.7 1.00826
481 neuropilin- and tolloid-like protein 1 isoform 3 precursor. [refseq;acc:nm_138966] 1 237.109 254.667 1.07405
protein c20orf45 (cgi-107). [swissprot;acc:q9y3b1] Subtracted 0 11489.7 11414.3 75.4

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/