MK5 Microarray Data

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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Gene	Network Comparison Type	Value Type	red	Rank	green	description	Interaction Map	Filtered	network_comparison

Results: HTML CSV LaTeX

Showing element 1508 to 1557 of 3228 in total

Network Comparison Type  : Divided
Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1

red	Rank	green	description	network_comparison
5538.8	1159	6025.51	kccr13l. [refseq;acc:nm_139179]	1.08787
	1160		dna repair protein rad51 homolog 1 (hrad51) (hsrad51). [swissprot;acc:q06609]
5546.11	1510	5957.99	60s ribosomal protein l21. [swissprot;acc:p46778]	1.07426
5546.5	1225	6019.57	apurinic/apyrimidinic endonuclease 2; apurinic/apyrimidinic endonuclease-like 2; apex nuclease-like 2. [refseq;acc:nm_014481]	1.08529
5548.78	955	6086.89	uridine kinase-like 1. [swissprot;acc:q9nwz5]	1.09698
5548.79	2064	5861.31	adapter-related protein complex 1 beta 1 subunit (beta-adaptin 1) (adaptor protein complex ap-1 beta-1 subunit) (golgi adaptor ha1/ap1 adaptin beta subunit) (clathrin assembly protein complex 1 beta large chain). [swissprot;acc:q10567]	1.05632
5549.2	674	6215.42	sprouty homolog 4 (spry-4). [swissprot;acc:q9c004]	1.12006
	675		sprouty homolog 3 (spry-3). [swissprot;acc:o43610]
	676		sprouty homolog 1 (spry-1) (fragment). [swissprot;acc:o43609]
	677		sprouty homolog 2 (spry-2). [swissprot;acc:o43597]
5552.69	2058	5865.84	adapter-related protein complex 1 sigma 1b subunit (sigma-adaptin 1b) (adaptor protein complex ap-1 sigma-1b subunit) (golgi adaptor ha1/ap1 adaptin sigma-1b subunit) (clathrin assembly protein complex 1 sigma- 1b small chain) (sigma 1b subunit of ap-1 clathrin) (dc22). [swissprot;acc:p56377]	1.0564
	2059		adapter-related protein complex 1 gamma 1 subunit (gamma-adaptin) (adaptor protein complex ap-1 gamma-1 subunit) (golgi adaptor ha1/ap1 adaptin gamma-1 subunit) (clathrin assembly protein complex 1 gamma-1 large chain). [swissprot;acc:o43747]
	2060		adapter-related protein complex 1 sigma 1c subunit (sigma-adaptin 1c) (adaptor protein complex ap-1 sigma-1c subunit) (golgi adaptor ha1/ap1 adaptin sigma-1c subunit) (clathrin assembly protein complex 1 sigma- 1c small chain) (sigma 1c subunit of ap-1 clathrin). [swissprot;acc:q96pc3]
	2061		adapter-related protein complex 1 sigma 1a subunit (sigma-adaptin 1a) (adaptor protein complex ap-1 sigma-1a subunit) (golgi adaptor ha1/ap1 adaptin sigma-1a subunit) (clathrin assembly protein complex 1 sigma- 1a small chain) (clathrin coat assembly protein ap19) (ha1 19 kda subunit) (sigma 1a subunit of ap-1 clathrin). [swissprot;acc:q00382]
5552.7	2062	5865.85	adapter-related protein complex 1 gamma 2 subunit (gamma2-adaptin) (adaptor protein complex ap-1 gamma-2 subunit) (g2ad). [swissprot;acc:o75843]
5552.92	682	6217.59	syntaxin 12. [refseq;acc:nm_177424]	1.1197
5556.36	2050	5870.11	adapter-related protein complex 2 beta 1 subunit (beta-adaptin) (plasma membrane adaptor ha2/ap2 adaptin beta subunit) (clathrin assembly protein complex 2 beta large chain) (ap105b). [swissprot;acc:p21851]	1.05647
5560.06	653	6248.27	methionyl-trna synthetase (ec 6.1.1.10) (methionine--trna ligase) (metrs). [swissprot;acc:p56192]	1.12378
5567.41	1922	5914.05	hsp90 co-chaperone cdc37 (hsp90 chaperone protein kinase-targeting subunit) (p50cdc37). [swissprot;acc:q16543]	1.06226
5568.96	940	6113.35	adenosylhomocysteinase (ec 3.3.1.1) (s-adenosyl-l-homocysteine hydrolase) (adohcyase). [swissprot;acc:p23526]	1.09775
5573.64	1487	5991.58	nicotinamide nucleotide adenylyltransferase 3; pyridine nucleotide adenylyltransferase 3. [refseq;acc:nm_178177]	1.07499
	1488		delta 1-pyrroline-5-carboxylate synthetase (p5cs) [includes: glutamate 5-kinase (ec 2.7.2.11) (gamma-glutamyl kinase) (gk); gamma-glutamyl phosphate reductase (gpr) (ec 1.2.1.41) (glutamate-5-semialdehyde dehydrogenase) (glutamyl-gamma-semialdehyde dehydrogenase)]. [swissprot;acc:p54886]
5575.18	660	6254.85	u2 small nuclear ribonucleoprotein auxiliary factor 35 kda subunit related-protein 1. [swissprot;acc:q15695]	1.12191
	661		step ii splicing factor slu7. [refseq;acc:nm_006425]
5579.18	121	7488.4	transcription factor jun-b. [swissprot;acc:p17275]	1.3422
5580.97	721	6233.52	syntaxin 7. [swissprot;acc:o15400]	1.11692
5589.33	1299	6047.9	cytochrome oxidase biogenesis protein oxa1, mitochondrial precursor (oxa1-like protein) (oxa1hs). [swissprot;acc:q15070]	1.08204
	1300		60s ribosomal protein l34, mitochondrial precursor (l34mt). [swissprot;acc:q9bq48]
5594.18	1236	6067.49	p10-binding protein. [refseq;acc:nm_024491]	1.08461
5595.65	863	6173.23	neurotrypsin precursor (ec 3.4.21.-) (motopsin) (leydin). [swissprot;acc:p56730]	1.10322
	864		ring finger protein 44. [refseq;acc:nm_014901]
	865		phosphatidylinositol 3-kinase regulatory alpha subunit (pi3-kinase p85-alpha subunit) (ptdins-3-kinase p85-alpha) (pi3k). [swissprot;acc:p27986]
	866		ring finger protein 38. [refseq;acc:nm_022781]
	867		phosphatidylinositol 3-kinase regulatory gamma subunit (pi3-kinase p85-gamma subunit) (ptdins-3-kinase p85-gamma) (p55pik). [swissprot;acc:q92569]
	868		sterol regulatory element binding protein cleavage-activating protein (srebp cleavage-activating protein) (scap). [swissprot;acc:q12770]
	869		atp synthase beta chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p06576]
	870		phosphatidylinositol 3-kinase regulatory beta subunit (pi3-kinase p85-beta subunit) (ptdins-3-kinase p85-beta). [swissprot;acc:o00459]
5599.85	2617	5683	dnaj homolog subfamily b member 4 (heat shock 40 kda protein 1 homolog) (heat shock protein 40 homolog) (hsp40 homolog). [swissprot;acc:q9udy4]	1.01485
	2618		cab2. [refseq;acc:nm_033419]
	2619		dnaj homolog subfamily b member 5 (heat shock protein hsp40-3) (heat shock protein cognate 40) (hsc40) (hsp40-2). [swissprot;acc:o75953]
	2620		dnaj homolog subfamily b member 1 (heat shock 40 kda protein 1) (heat shock protein 40) (hsp40) (dnaj protein homolog 1) (hdj-1). [swissprot;acc:p25685]
	2621		eukaryotic peptide chain release factor subunit 1 (erf1) (eukaryotic release factor 1) (tb3-1) (c11 protein). [swissprot;acc:p46055]
	2622		suppressor of actin mutations 2-like isoform b; dj1033b10.5. [refseq;acc:nm_022553]
5602.01	1448	6031.05	dpy-30-like protein. [swissprot;acc:q9c005]	1.07659
	1449		rab coupling protein; rab-interacting recycling protein; rab effector protein; rab11-family interacting protein 1. [refseq;acc:nm_025151]
	1450		gamma-snap-associated factor 1; rab11-interacting protein. [refseq;acc:nm_015470]
	1451		neighbor of cox4. [swissprot;acc:o43402]
	1452		protein c14orf122 (cgi-112). [swissprot;acc:q9y3b6]
	1453		potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110]
5603.24	2709	5583.64	testis-specific protein tex28. [swissprot;acc:o15482]	1.00351

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.