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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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 Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 233 to 282 of 6456 in total 
Value Type	Measured
Interaction Map	High confidence
Filtered	1

Rank	description	Network Comparison Type	red	green	network_comparison	
117	metalloprotease 1; metalloprotease 1 (pitrilysin family). [source:refseq;acc:nm_014889]	Subtracted	9276.47	7090.37	2186.1	
117	pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [source:swissprot;acc:q9bz23]	Divided	21185	28492	1.34491	
118	beta-1,4 mannosyltransferase. [source:refseq;acc:nm_019109]	Subtracted	9275.1	7089.65	2185.45	
118	pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [source:swissprot;acc:q9h999]	Divided	21185	28492	1.34491	
119	acyl-coa dehydrogenase, very-long-chain specific, mitochondrial precursor (ec 1.3.99.-) (vlcad). [source:swissprot;acc:p49748]	Subtracted	12998.5	15138.2	2139.7	
119	mitochondrial solute carrier protein. [source: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. [source:refseq;acc:nm_006339]	Divided	5136.78	6895.98	1.34247	
120	proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [source:swissprot;acc:p01100]	Subtracted	4932.27	7033.29	2101.02	
121	jun dimerization protein. [source:refseq;acc:nm_130469]	Subtracted	4932.27	7033.29	2101.02	
121	transcription factor jun-b. [source:swissprot;acc:p17275]	Divided	5579.18	7488.4	1.3422	
122	fos-related antigen 2. [source:swissprot;acc:p15408]	Subtracted	4941.95	7037.11	2095.16	
122	high-mobility group 20a. [source: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. [source:refseq;acc:nm_052936]	Divided	24260.3	18172.1	1.33503	
123	protein fosb (g0/g1 switch regulatory protein 3). [source:swissprot;acc:p53539]	Subtracted	4942.49	7037.32	2094.83	
124	fos-related antigen 1 (fra-1). [source:swissprot;acc:p15407]	Subtracted	4944.3	7038.04	2093.74	
124	microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [source:swissprot;acc:q9gzq8]	Divided	24255.7	18168.9	1.33501	
125	hira-interacting protein 5 (cgi-33). [source:swissprot;acc:q9ums0]	Subtracted	12471.7	14561.7	2090	
125	microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [source:swissprot;acc:q9h492]	Divided	24255.7	18168.9	1.33501	
126	cysteine endopeptidase aut-like isoform b. [source:refseq;acc:nm_178326]	Divided	24250	18164.9	1.33499	
126	rad50-interacting protein 1. [source: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). [source:swissprot;acc:q9byz6]	Subtracted	450.5	2394.5	1944	
127	transcription factor jun-d. [source:swissprot;acc:p17535]	Divided	5638.2	7523.39	1.33436	
128	luc7-like 2; cgi-74 protein; cgi-59 protein. [source:refseq;acc:nm_016019]	Divided	4355.61	5810.82	1.3341	
128	t-complex protein 1, alpha subunit (tcp-1-alpha) (cct-alpha). [source:swissprot;acc:p17987]	Subtracted	11004.2	12944.2	1940	
129	luc7-like; sarcoplasmic reticulum protein luc7b1. [source:refseq;acc:nm_018032]	Divided	4358.13	5811.49	1.33348	
129	protein phosphatase 1, regulatory (inhibitor) subunit 13b; apoptosis-stimulating protein of p53, 1. [source:refseq;acc:nm_015316]	Subtracted	15274.9	13346.9	1928	
130	forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [source:refseq;acc:nm_138457]	Divided	2234.68	2978.53	1.33287	
130	p66 alpha. [source:refseq;acc:nm_017660]	Subtracted	12839	10911.1	1927.9	
131	forkhead box protein p1 (hspc215). [source:swissprot;acc:q9h334]	Divided	2234.73	2978.57	1.33285	
131	transcription repressor p66 beta component of the mecp1 complex. [source:refseq;acc:nm_020699]	Subtracted	12839	10911.1	1927.9	
132	forkhead box protein p3 (zinc finger protein jm2) (scurfin). [source:swissprot;acc:q9bzs1]	Divided	2236.61	2980.35	1.33253	
132	tyrosine aminotransferase (ec 2.6.1.5) (l-tyrosine:2-oxoglutarate aminotransferase) (tat). [source:swissprot;acc:p17735]	Subtracted	12839	10911.1	1927.9	
133	cell division protein kinase 3 (ec 2.7.1.-). [source:swissprot;acc:q00526]	Subtracted	12798.9	10887.2	1911.7	
133	gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [source:refseq;acc:nm_007278]	Divided	23421.5	17580.4	1.33225	
134	g2/mitotic-specific cyclin b2. [source:swissprot;acc:o95067]	Subtracted	12796.8	10886	1910.8	
134	gaba-a receptor-associated protein. [source:sptrembl;acc:q9by60]	Divided	21785.2	16426.1	1.32626	
135	apg3p; pc3-96 protein. [source:refseq;acc:nm_022488]	Divided	21785.2	16426.1	1.32626	
135	transcription factor jun-b. [source:swissprot;acc:p17275]	Subtracted	5579.18	7488.4	1909.22	
136	cell division protein kinase 2 (ec 2.7.1.-) (p33 protein kinase). [source:swissprot;acc:p24941]	Subtracted	12787.6	10880.5	1907.1	
136	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). [source: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). [source:swissprot;acc:p23511]	Divided	3620.77	4763.34	1.31556	
137	g2/mitotic-specific cyclin b1. [source: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. [source:refseq;acc:nm_014592]	Divided	2755.15	2094.3	1.31555	
138	tumor suppressor p53-binding protein 2 (p53-binding protein 2) (53bp2) (bcl2-binding protein) (bbp). [source:swissprot;acc:q13625]	Subtracted	15182.5	13277.9	1904.6	
139	cell division control protein 2 homolog (ec 2.7.1.-) (p34 protein kinase) (cyclin-dependent kinase 1) (cdk1). [source:swissprot;acc:p06493]	Subtracted	12780.7	10876.4	1904.3	
139	potassium channel-interacting protein 4 isoform 4; calsenilin-like protein. [source:refseq;acc:nm_147183]	Divided	2759.61	2099.49	1.31442	
140	homeobox protein hlx1 (homeobox protein hb24). [source:swissprot;acc:q14774]	Subtracted	2597.5	698.5	1899	
140	kv channel interacting protein 2 isoform 4; a-type potassium channel modulatory protein 2; cardiac voltage gated potassium channel modulatory subunit. [source:refseq;acc:nm_173193]	Divided	2760.28	2100.27	1.31425	
141	hbs1-like. [source:refseq;acc:nm_006620]	Subtracted	2597.5	698.5	1899	
141	small nuclear ribonucleoprotein sm d2 (snrnp core protein d2) (sm-d2). [source:swissprot;acc:p43330]	Divided	4405.4	5782.08	1.3125	

Legend:
- Rank is the rank after comparing the two networks
- 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/