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 Value Type Network Comparison Type description Interaction Map red Filtered green network_comparison
Results: HTML CSV LaTeX Showing element 201 to 250 of 6456 in total
Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1
Rank
Network Comparison Type
description
red
green
network_comparison
101 Divided cullin homolog 2 (cul-2). [swissprot;acc:q13617] 2353.63 3225.65 1.3705
Subtracted septin 4 (peanut-like protein 2) (brain protein h5) (cell division control-related protein 2) (hcdcrel-2) (bradeion beta) (ce5b3 beta) (cerebral protein-7) (hucep-7). [swissprot;acc:o43236] 14924.4 17655.2 2730.8
102 Divided presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768] 2353.63 3225.65 1.3705
Subtracted associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799] 11068 8508.5 2559.5
103 Divided cullin homolog 1 (cul-1). [swissprot;acc:q13616] 2353.63 3225.65 1.3705
Subtracted putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453] 11068 8508.5 2559.5
104 Divided musashi 2 isoform a. [refseq;acc:nm_138962] 4241.57 5810.79 1.36996
Subtracted associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463] 11068 8508.5 2559.5
105 Divided musashi 1. [refseq;acc:nm_002442] 4241.57 5810.79 1.36996
Subtracted neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079] 11068 8508.5 2559.5
106 Divided nuclear protein ukp68. [refseq;acc:nm_024824] 4241.57 5810.79 1.36996
Subtracted protein hspc134 (protein cda04). [swissprot;acc:q9by43] 11068 8508.5 2559.5
107 Divided 20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298] 4266.04 5843.51 1.36977
Subtracted septin 1 (larp) (serologically defined breast cancer antigen ny-br- 24). [swissprot;acc:q8wyj6] 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
Subtracted ral guanine nucleotide dissociation stimulator (ralgef) (ralgds). [swissprot;acc:q12967] 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
Subtracted 44050 protein. [refseq;acc:nm_178832] 17385.9 14889.2 2496.7
110 Divided protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [swissprot;acc:q99873] 4366.44 5899.76 1.35116
Subtracted 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] 17385.9 14889.2 2496.7
111 Divided protein arginine n-methyltransferase 4 (ec 2.1.1.-). [swissprot;acc:q9nr22] 4366.44 5899.76 1.35116
Subtracted t-complex protein 1, gamma subunit (tcp-1-gamma) (cct-gamma). [swissprot;acc:p49368] 12365.2 14824.9 2459.7
112 Divided u1 small nuclear ribonucleoprotein 70 kda (u1 snrnp 70 kda) (snrnp70) (u1-70k). [swissprot;acc:p08621] 4366.44 5899.76 1.35116
Subtracted autophagy protein 12-like (apg12-like). [swissprot;acc:o94817] 11757.8 9352.11 2405.69
113 Divided filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333] 4366.44 5899.76 1.35116
Subtracted cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [swissprot;acc:p18847] 4800.81 7132.71 2331.9
114 Divided huntingtin interacting protein c. [refseq;acc:nm_012272] 4300.47 5807.72 1.35048
Subtracted cyclin-dependent kinases regulatory subunit 1 (cks-1) (sid1334) (pnas-16 / pnas-143). [swissprot;acc:p33551] 13768.2 11466 2302.2
115 Divided 28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5] 21185 28492 1.34491
Subtracted pnas-18. [sptrembl;acc:q9bzu3] 13680.5 11409.6 2270.9
116 Divided pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04] 21185 28492 1.34491
Subtracted ral guanine nucleotide dissociation stimulator-like 1 (ralgds-like 1). [swissprot;acc:q9nzl6] 13261.9 11017.8 2244.1
117 Divided pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23] 21185 28492 1.34491
Subtracted metalloprotease 1; metalloprotease 1 (pitrilysin family). [refseq;acc:nm_014889] 9276.47 7090.37 2186.1
118 Divided pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999] 21185 28492 1.34491
Subtracted beta-1,4 mannosyltransferase. [refseq;acc:nm_019109] 9275.1 7089.65 2185.45
119 Divided mitochondrial solute carrier protein. [refseq;acc:nm_145305] 21185 28492 1.34491
Subtracted acyl-coa dehydrogenase, very-long-chain specific, mitochondrial precursor (ec 1.3.99.-) (vlcad). [swissprot;acc:p49748] 12998.5 15138.2 2139.7
120 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] 5136.78 6895.98 1.34247
Subtracted proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100] 4932.27 7033.29 2101.02
121 Divided transcription factor jun-b. [swissprot;acc:p17275] 5579.18 7488.4 1.3422
Subtracted jun dimerization protein. [refseq;acc:nm_130469] 4932.27 7033.29 2101.02
122 Divided high-mobility group 20a. [refseq;acc:nm_018200] 5140.14 6893.53 1.34112
Subtracted fos-related antigen 2. [swissprot;acc:p15408] 4941.95 7037.11 2095.16
123 Divided cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936] 24260.3 18172.1 1.33503
Subtracted protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539] 4942.49 7037.32 2094.83
124 Divided microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8] 24255.7 18168.9 1.33501
Subtracted fos-related antigen 1 (fra-1). [swissprot;acc:p15407] 4944.3 7038.04 2093.74
125 Divided microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492] 24255.7 18168.9 1.33501
Subtracted hira-interacting protein 5 (cgi-33). [swissprot;acc:q9ums0] 12471.7 14561.7 2090

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/