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 Network Comparison Type Gene Value Type description Interaction Map red green Filtered network_comparison
Results: HTML CSV LaTeX Showing element 425 to 474 of 16578 in total
Value Type  : Measured
Filtered  : 1
Rank
Network Comparison Type
description
Interaction Map
red
green
network_comparison
107 Divided 20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298] High confidence 4266.04 5843.51 1.36977
tumor protein p53 inducible protein 3; quinone oxidoreductase homolog; p53-induced gene 3 protein. [refseq;acc:nm_004881] Low confidence 11371 12479.2 1.09746
Subtracted 25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [swissprot;acc:o15528] 3032.56 3915.4 882.84
septin 1 (larp) (serologically defined breast cancer antigen ny-br- 24). [swissprot;acc:q8wyj6] High confidence 14229.2 16780.7 2551.5
108 Divided filamin b, beta (actin binding protein 278); beta filamin; filamin 1 (actin-binding protein-280)-like; filamin b, beta (actin-binding protein-278); filamin b, beta. [refseq;acc:nm_001457] 4366.44 5899.76 1.35116
septin 1 (larp) (serologically defined breast cancer antigen ny-br- 24). [swissprot;acc:q8wyj6] Low confidence 10499 11515.8 1.09685
Subtracted cytochrome p450 27, mitochondrial precursor (ec 1.14.-.-) (cytochrome p-450c27/25) (sterol 26-hydroxylase) (sterol 27-hydroxylase) (vitamin d(3) 25-hydroxylase) (5-beta-cholestane-3-alpha,7-alpha,12-alpha-triol 27-hydroxylase). [swissprot;acc:q02318] 3035.43 3917.88 882.45
ral guanine nucleotide dissociation stimulator (ralgef) (ralgds). [swissprot;acc:q12967] High confidence 14021.4 11523 2498.4
109 Divided rev1-like; rev1 protein; rev1 (yeast homolog)- like. [refseq;acc:nm_016316] 4366.44 5899.76 1.35116
vacuolar protein sorting 33b (hvps33b). [swissprot;acc:q9h267] Low confidence 7354.65 8065.08 1.0966
Subtracted 44050 protein. [refseq;acc:nm_178832] High confidence 17385.9 14889.2 2496.7
cytochrome p450 24a1, mitochondrial precursor (ec 1.14.-.-) (p450- cc24) (vitamin d(3) 24-hydroxylase) (1,25-dihydroxyvitamin d(3) 24- hydroxylase) (24-ohase). [swissprot;acc:q07973] Low confidence 3126.88 3997.02 870.14
110 Divided 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] 7206.99 7896.81 1.09572
protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [swissprot;acc:q99873] High confidence 4366.44 5899.76 1.35116
Subtracted methylenetetrahydrofolate reductase (ec 1.5.1.20). [swissprot;acc:p42898] Low confidence 10452.8 11320.8 868
nuclear inhibitor of protein phosphatase-1 (nipp-1) (protein phosphatase 1, regulatory inhibitor subunit 8) [includes: activator of rna decay (ec 3.1.4.-) (ard-1)]. [swissprot;acc:q12972] High confidence 17385.9 14889.2 2496.7
111 Divided melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801] Low confidence 11285.3 10318.5 1.0937
protein arginine n-methyltransferase 4 (ec 2.1.1.-). [swissprot;acc:q9nr22] High confidence 4366.44 5899.76 1.35116
Subtracted brain protein 44. [swissprot;acc:o95563] Low confidence 10392.1 11259.7 867.6
t-complex protein 1, gamma subunit (tcp-1-gamma) (cct-gamma). [swissprot;acc:p49368] High confidence 12365.2 14824.9 2459.7
112 Divided hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703] Low confidence 11285.3 10318.5 1.0937
u1 small nuclear ribonucleoprotein 70 kda (u1 snrnp 70 kda) (snrnp70) (u1-70k). [swissprot;acc:p08621] High confidence 4366.44 5899.76 1.35116
Subtracted autophagy protein 12-like (apg12-like). [swissprot;acc:o94817] 11757.8 9352.11 2405.69
monocarboxylate transporter 6 (mct 6) (mct 5). [swissprot;acc:o15375] Low confidence 10351.8 11210.8 859
113 Divided filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333] High confidence 4366.44 5899.76 1.35116
melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357] Low confidence 11285.3 10318.5 1.0937
Subtracted cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [swissprot;acc:p18847] High confidence 4800.81 7132.71 2331.9
monocarboxylate transporter 1 (mct 1). [swissprot;acc:p53985] Low confidence 10348.5 11206.7 858.2
114 Divided huntingtin interacting protein c. [refseq;acc:nm_012272] High confidence 4300.47 5807.72 1.35048
melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364] Low confidence 11285.3 10318.5 1.0937
Subtracted cyclin-dependent kinases regulatory subunit 1 (cks-1) (sid1334) (pnas-16 / pnas-143). [swissprot;acc:p33551] High confidence 13768.2 11466 2302.2
monocarboxylate transporter 2 (mct 2). [swissprot;acc:o60669] Low confidence 10346.9 11204.8 857.9
115 Divided 28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5] High confidence 21185 28492 1.34491
melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356] Low confidence 11285.3 10318.5 1.0937
Subtracted monocarboxylate transporter 3 (mct 3). [swissprot;acc:o95907] 10341.7 11198.5 856.8
pnas-18. [sptrembl;acc:q9bzu3] High confidence 13680.5 11409.6 2270.9
116 Divided hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932] Low confidence 11285.3 10318.5 1.0937
pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04] High confidence 21185 28492 1.34491
Subtracted amino acid transporter xat2; likely ortholog of mouse aspartate/glutamate transporter 1 (agt1). [refseq;acc:nm_138817] Low confidence 6991.78 7848.45 856.67
ral guanine nucleotide dissociation stimulator-like 1 (ralgds-like 1). [swissprot;acc:q9nzl6] High confidence 13261.9 11017.8 2244.1
117 Divided melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360] Low confidence 11285.3 10318.5 1.0937
pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23] High confidence 21185 28492 1.34491
Subtracted metalloprotease 1; metalloprotease 1 (pitrilysin family). [refseq;acc:nm_014889] 9276.47 7090.37 2186.1
y+l amino acid transporter 1 (y(+)l-type amino acid transporter 1) (y+lat-1) (y+lat1) (monocyte amino acid permease 2) (mop-2). [swissprot;acc:q9um01] Low confidence 6991.78 7848.45 856.67
118 Divided necdin. [swissprot;acc:q99608] 11285.3 10318.5 1.0937
pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999] High confidence 21185 28492 1.34491
Subtracted beta-1,4 mannosyltransferase. [refseq;acc:nm_019109] 9275.1 7089.65 2185.45
cystine/glutamate transporter (amino acid transport system xc-) (xct) (calcium channel blocker resistance protein ccbr1). [swissprot;acc:q9upy5] Low confidence 6991.78 7848.45 856.67
119 Divided melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3] 11285.3 10318.5 1.0937
mitochondrial solute carrier protein. [refseq;acc:nm_145305] High confidence 21185 28492 1.34491

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/