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

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/