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 description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 551 to 600 of 16578 in total
Value Type  : Measured
Filtered  : 1
Rank
description
Network Comparison Type
Interaction Map
red
green
network_comparison
138 step ii splicing factor slu7. [refseq;acc:nm_006425] Subtracted Low confidence 9870.83 10591.9 721.07
tumor suppressor p53-binding protein 2 (p53-binding protein 2) (53bp2) (bcl2-binding protein) (bbp). [swissprot;acc:q13625] High confidence 15182.5 13277.9 1904.6
139 60s ribosomal protein l37a. [swissprot;acc:p12751] Divided Low confidence 5762.4 6277.91 1.08946
cell division control protein 2 homolog (ec 2.7.1.-) (p34 protein kinase) (cyclin-dependent kinase 1) (cdk1). [swissprot;acc:p06493] Subtracted High confidence 12780.7 10876.4 1904.3
potassium channel-interacting protein 4 isoform 4; calsenilin-like protein. [refseq;acc:nm_147183] Divided 2759.61 2099.49 1.31442
vacuolar protein sorting 18 (hvps18). [swissprot;acc:q9p253] Subtracted Low confidence 7337.57 8055.84 718.27
140 asparagine synthetase [glutamine-hydrolyzing] (ec 6.3.5.4) (glutamine- dependent asparagine synthetase) (ts11 cell cycle control protein). [swissprot;acc:p08243] 9818 10529.5 711.5
homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774] High confidence 2597.5 698.5 1899
kv channel interacting protein 2 isoform 4; a-type potassium channel modulatory protein 2; cardiac voltage gated potassium channel modulatory subunit. [refseq;acc:nm_173193] Divided 2760.28 2100.27 1.31425
ubiquitin-activating enzyme e1c (uba3 homolog, yeast); ubiquitin-activating enzyme e1c (homologous to yeast uba3). [refseq;acc:nm_003968] Low confidence 7628.44 8310.74 1.08944
141 brachyury protein (t protein). [swissprot;acc:o15178] 6171.76 6720.84 1.08897
hbs1-like. [refseq;acc:nm_006620] Subtracted High confidence 2597.5 698.5 1899
small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [swissprot;acc:p43330] Divided 4405.4 5782.08 1.3125
vacuolar protein sorting 33b (hvps33b). [swissprot;acc:q9h267] Subtracted Low confidence 7354.65 8065.08 710.43
142 a-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (a-raf-1) (proto-oncogene pks). [swissprot;acc:p10398] 10392.7 9683.56 709.14
metalloprotease 1; metalloprotease 1 (pitrilysin family). [refseq;acc:nm_014889] Divided High confidence 9276.47 7090.37 1.30832
ornithine carbamoyltransferase, mitochondrial precursor (ec 2.1.3.3) (otcase) (ornithine transcarbamylase). [swissprot;acc:p00480] Low confidence 10803 11757.7 1.08837
transcription factor jun-d. [swissprot;acc:p17535] Subtracted High confidence 5638.2 7523.39 1885.19
143 3-hydroxyanthranilate 3,4-dioxygenase (ec 1.13.11.6) (3-hao) (3-hydroxyanthranilic acid dioxygenase) (3-hydroxyanthranilate oxygenase). [swissprot;acc:p46952] Divided Low confidence 10696.6 11639.5 1.08815
beta-1,4 mannosyltransferase. [refseq;acc:nm_019109] High confidence 9275.1 7089.65 1.30826
cleavage stimulation factor, 64 kda subunit (cstf 64 kda subunit) (cf-1 64 kda subunit). [swissprot;acc:p33240] Subtracted 15427.2 13572.8 1854.4
raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (raf-1) (c-raf). [swissprot;acc:p04049] Low confidence 10391.8 9682.99 708.81
144 bcl2-related ovarian killer. [refseq;acc:nm_032515] 4955.33 5659.35 704.02
beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121] Divided 7692.29 8370.25 1.08814
nucleolysin tia-1 (rna-binding protein tia-1) (p40-tia-1) [contains: p15-tia-1]. [swissprot;acc:p31483] Subtracted High confidence 4133.47 5945.32 1811.85
sad1/unc-84 protein-like 1. [swissprot;acc:o94901] Divided 3349.9 4362.61 1.30231
145 beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407] Low confidence 7693.93 8366.42 1.08741
carboxypeptidase n 83 kda chain (carboxypeptidase n regulatory subunit) (fragment). [swissprot;acc:p22792] Subtracted 10374.8 9672.48 702.32
nucleolysin tiar (tia-1 related protein). [swissprot;acc:q01085] High confidence 4136.36 5943.56 1807.2
ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395] Divided 16771.5 12889.1 1.30122
146 associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799] 11068 8508.5 1.30082
pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999] Low confidence 10685.5 11612.9 1.08679
platelet glycoprotein v precursor (gpv) (cd42d). [swissprot;acc:p40197] Subtracted 10374.8 9672.51 702.29
xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266] High confidence 2671 871 1800
147 pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23] Divided Low confidence 10684.1 11611.2 1.08677
protein x 0004. [refseq;acc:nm_016301] Subtracted High confidence 2671 871 1800
putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453] Divided 11068 8508.5 1.30082
similar to atp/gtp-binding protein. [sptrembl;acc:q8nem8] Subtracted Low confidence 9385.4 10086.4 701
148 associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463] Divided High confidence 11068 8508.5 1.30082
defender against cell death 1 (dad-1). [swissprot;acc:p46966] Low confidence 6893.42 7491.39 1.08675
symplekin. [swissprot;acc:q92797] Subtracted High confidence 15213.4 13418.1 1795.3
trna (5-methylaminomethyl-2-thiouridylate)-methyltransferase (ec 2.1.1.61). [swissprot;acc:o75648] Low confidence 9385.4 10086.4 701
149 b-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (p94) (v-raf murine sarcoma viral oncogene homolog b1). [swissprot;acc:p15056] 10348.7 9656.36 692.34
neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079] Divided High confidence 11068 8508.5 1.30082
pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04] Low confidence 10665 11587.2 1.08647
trna (5-methylaminomethyl-2-thiouridylate)-methyltransferase (ec 2.1.1.61). [swissprot;acc:o75648] Subtracted High confidence 11736.6 13531.9 1795.3
150 high-mobility group 20b; sox-like transcriptional factor; swi/snf-related matrix-associated actin-dependent regulator of chromatin subfamily e, member 1-related. [refseq;acc:nm_006339] Low confidence 7206.99 7896.81 689.82
protein hspc134 (protein cda04). [swissprot;acc:q9by43] Divided High confidence 11068 8508.5 1.30082
serine/threonine-protein kinase plk (ec 2.7.1.-) (plk-1) (serine- threonine protein kinase 13) (stpk13). [swissprot;acc:p53350] Low confidence 7136.14 7751.87 1.08628
small nuclear ribonucleoprotein sm d1 (snrnp core protein d1) (sm-d1) (sm-d autoantigen). [swissprot;acc:p13641] Subtracted High confidence 4172.91 5954.48 1781.57

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/