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.


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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 227 to 276 of 6456 in total
Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Network Comparison Type
red
green
network_comparison
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
126 cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326] 24250 18164.9 1.33499
rad50-interacting protein 1. [refseq;acc:nm_021930] Subtracted 450.5 2394.5 1944
127 rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]
transcription factor jun-d. [swissprot;acc:p17535] Divided 5638.2 7523.39 1.33436
128 luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019] 4355.61 5810.82 1.3341
t-complex protein 1, alpha subunit (tcp-1-alpha) (cct-alpha). [swissprot;acc:p17987] Subtracted 11004.2 12944.2 1940
129 luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032] Divided 4358.13 5811.49 1.33348
protein phosphatase 1, regulatory (inhibitor) subunit 13b; apoptosis-stimulating protein of p53, 1. [refseq;acc:nm_015316] Subtracted 15274.9 13346.9 1928
130 forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457] Divided 2234.68 2978.53 1.33287
p66 alpha. [refseq;acc:nm_017660] Subtracted 12839 10911.1 1927.9
131 forkhead box protein p1 (hspc215). [swissprot;acc:q9h334] Divided 2234.73 2978.57 1.33285
transcription repressor p66 beta component of the mecp1 complex. [refseq;acc:nm_020699] Subtracted 12839 10911.1 1927.9
132 forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1] Divided 2236.61 2980.35 1.33253
tyrosine aminotransferase (ec 2.6.1.5) (l-tyrosine:2-oxoglutarate aminotransferase) (tat). [swissprot;acc:p17735] Subtracted 12839 10911.1 1927.9
133 cell division protein kinase 3 (ec 2.7.1.-). [swissprot;acc:q00526] 12798.9 10887.2 1911.7
gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278] Divided 23421.5 17580.4 1.33225
134 g2/mitotic-specific cyclin b2. [swissprot;acc:o95067] Subtracted 12796.8 10886 1910.8
gaba-a receptor-associated protein. [sptrembl;acc:q9by60] Divided 21785.2 16426.1 1.32626
135 apg3p; pc3-96 protein. [refseq;acc:nm_022488]
transcription factor jun-b. [swissprot;acc:p17275] Subtracted 5579.18 7488.4 1909.22
136 cell division protein kinase 2 (ec 2.7.1.-) (p33 protein kinase). [swissprot;acc:p24941] 12787.6 10880.5 1907.1
nuclear transcription factor y subunit gamma (nf-y protein chain c) (nuclear factor yc) (nf-yc) (ccaat-binding transcription factor subunit c) (cbf-c) (transactivator hsm-1/2). [swissprot;acc:q13952] Divided 3620.77 4763.34 1.31556
137 ccaat-binding transcription factor subunit b (cbf-b) (nf-y protein chain a) (nf-ya) (caat-box dna binding protein subunit a). [swissprot;acc:p23511]
g2/mitotic-specific cyclin b1. [swissprot;acc:p14635] Subtracted 12786.6 10879.9 1906.7
138 kv channel interacting protein 1; vesicle apc-binding protein; a-type potassium channel modulatory protein 1. [refseq;acc:nm_014592] Divided 2755.15 2094.3 1.31555
tumor suppressor p53-binding protein 2 (p53-binding protein 2) (53bp2) (bcl2-binding protein) (bbp). [swissprot;acc:q13625] Subtracted 15182.5 13277.9 1904.6

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/