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

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.


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 Network Comparison Type Value Type Interaction Map Filtered red 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
description
Network Comparison Type
red
green
network_comparison
101 cullin homolog 2 (cul-2). [swissprot;acc:q13617] Divided 2353.63 3225.65 1.3705
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] Subtracted 14924.4 17655.2 2730.8
102 associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799] 11068 8508.5 2559.5
presenilin 1 (ps-1) (s182 protein). [swissprot;acc:p49768] Divided 2353.63 3225.65 1.3705
103 cullin homolog 1 (cul-1). [swissprot;acc:q13616]
putative breast adenocarcinoma marker (32kd). [refseq;acc:nm_014453] Subtracted 11068 8508.5 2559.5
104 associated molecule with the sh3 domain of stam. [refseq;acc:nm_006463]
musashi 2 isoform a. [refseq;acc:nm_138962] Divided 4241.57 5810.79 1.36996
105 musashi 1. [refseq;acc:nm_002442]
neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079] Subtracted 11068 8508.5 2559.5
106 nuclear protein ukp68. [refseq;acc:nm_024824] Divided 4241.57 5810.79 1.36996
protein hspc134 (protein cda04). [swissprot;acc:q9by43] Subtracted 11068 8508.5 2559.5
107 20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298] Divided 4266.04 5843.51 1.36977
septin 1 (larp) (serologically defined breast cancer antigen ny-br- 24). [swissprot;acc:q8wyj6] Subtracted 14229.2 16780.7 2551.5
108 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] Divided 4366.44 5899.76 1.35116
ral guanine nucleotide dissociation stimulator (ralgef) (ralgds). [swissprot;acc:q12967] Subtracted 14021.4 11523 2498.4
109 44050 protein. [refseq;acc:nm_178832] 17385.9 14889.2 2496.7
rev1-like; rev1 protein; rev1 (yeast homolog)- like. [refseq;acc:nm_016316] Divided 4366.44 5899.76 1.35116
110 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] Subtracted 17385.9 14889.2 2496.7
protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [swissprot;acc:q99873] Divided 4366.44 5899.76 1.35116
111 protein arginine n-methyltransferase 4 (ec 2.1.1.-). [swissprot;acc:q9nr22]
t-complex protein 1, gamma subunit (tcp-1-gamma) (cct-gamma). [swissprot;acc:p49368] Subtracted 12365.2 14824.9 2459.7
112 autophagy protein 12-like (apg12-like). [swissprot;acc:o94817] 11757.8 9352.11 2405.69
u1 small nuclear ribonucleoprotein 70 kda (u1 snrnp 70 kda) (snrnp70) (u1-70k). [swissprot;acc:p08621] Divided 4366.44 5899.76 1.35116
113 cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [swissprot;acc:p18847] Subtracted 4800.81 7132.71 2331.9
filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333] Divided 4366.44 5899.76 1.35116
114 cyclin-dependent kinases regulatory subunit 1 (cks-1) (sid1334) (pnas-16 / pnas-143). [swissprot;acc:p33551] Subtracted 13768.2 11466 2302.2
huntingtin interacting protein c. [refseq;acc:nm_012272] Divided 4300.47 5807.72 1.35048
115 28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5] 21185 28492 1.34491
pnas-18. [sptrembl;acc:q9bzu3] Subtracted 13680.5 11409.6 2270.9
116 pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04] Divided 21185 28492 1.34491
ral guanine nucleotide dissociation stimulator-like 1 (ralgds-like 1). [swissprot;acc:q9nzl6] Subtracted 13261.9 11017.8 2244.1
117 metalloprotease 1; metalloprotease 1 (pitrilysin family). [refseq;acc:nm_014889] 9276.47 7090.37 2186.1
pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23] Divided 21185 28492 1.34491
118 beta-1,4 mannosyltransferase. [refseq;acc:nm_019109] Subtracted 9275.1 7089.65 2185.45
pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999] Divided 21185 28492 1.34491
119 acyl-coa dehydrogenase, very-long-chain specific, mitochondrial precursor (ec 1.3.99.-) (vlcad). [swissprot;acc:p49748] Subtracted 12998.5 15138.2 2139.7
mitochondrial solute carrier protein. [refseq;acc:nm_145305] Divided 21185 28492 1.34491
120 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
proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100] Subtracted 4932.27 7033.29 2101.02
121 jun dimerization protein. [refseq;acc:nm_130469]
transcription factor jun-b. [swissprot;acc:p17275] Divided 5579.18 7488.4 1.3422
122 fos-related antigen 2. [swissprot;acc:p15408] Subtracted 4941.95 7037.11 2095.16
high-mobility group 20a. [refseq;acc:nm_018200] Divided 5140.14 6893.53 1.34112
123 cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936] 24260.3 18172.1 1.33503
protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539] Subtracted 4942.49 7037.32 2094.83
124 fos-related antigen 1 (fra-1). [swissprot;acc:p15407] 4944.3 7038.04 2093.74
microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8] Divided 24255.7 18168.9 1.33501
125 hira-interacting protein 5 (cgi-33). [swissprot;acc:q9ums0] Subtracted 12471.7 14561.7 2090
microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492] Divided 24255.7 18168.9 1.33501

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/