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.

Proteome Analysis

Below the proteome analysis is presented. The analysis methods are presented in the paper Propagating Differential Gene Expression in Protein Interaction Networks. If you are interested in the most reliable results choose the

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

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Showing element 2358 to 2407 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	Network Comparison Type	Hugo	description	Interaction Map	red	green	network_comparison
590	Divided	RRM1	ribonucleoside-diphosphate reductase m1 chain (ec 1.17.4.1) (ribonucleotide reductase large chain). [swissprot;acc:p23921]	High confidence	217.215	204.279	1.06333
	Subtracted	no value	intersectin 2 (sh3 domain-containing protein 1b) (sh3p18) (sh3p18-like wasp associated protein). [swissprot;acc:q9nzm3]		217.67	230.596	12.926
		NAV2	neuron navigator 2 isoform l; retinoic acid inducible in neuroblastoma; pore membrane and/or filament interacting like protein 2; helicase helad1. [refseq;acc:nm_145117]	Low confidence	204.056	198.046	6.01
591	Divided	BUD31	g10 protein homolog (edg-2). [swissprot;acc:p41223]		201.67	195.729	1.03035
		RPP30	ribonuclease p protein subunit p30 (ec 3.1.26.5) (rnasep protein p30) (rnase p subunit 2). [swissprot;acc:p78346]	High confidence	216.72	230.439	1.0633
	Subtracted	HRBL	hiv-1 rev binding protein-like; rev/rex activation domain binding protein-related. [refseq;acc:nm_006076]		217.67	230.596	12.926
		NAV1	neuron navigator 1; neuron navigator-1; pore membrane and/or filament interacting like protein 3. [refseq;acc:nm_020443]	Low confidence	204.074	198.071	6.003
592	Divided	ERGIC2	cda14. [refseq;acc:nm_016570]		211.525	205.3	1.03032
		PPP1R7	protein phosphatase 1, regulatory subunit 7; sds22. [refseq;acc:nm_002712]	High confidence	91.63	97.4011	1.06298
	Subtracted	C16orf35	cgthba protein (-14 gene protein). [swissprot;acc:q12980]		217.67	230.596	12.926
		NAV3	neuron navigator 3; pore membrane and/or filament interacting like protein 1; steerin 3. [refseq;acc:nm_014903]	Low confidence	204.073	198.07	6.003
593	Divided	DR1	tata-binding protein-associated phosphoprotein (down-regulator of transcription 1) (dr1 protein). [swissprot;acc:q01658]	High confidence	232.118	218.406	1.06278
		NAV1	neuron navigator 1; neuron navigator-1; pore membrane and/or filament interacting like protein 3. [refseq;acc:nm_020443]	Low confidence	204.074	198.071	1.03031
	Subtracted	ARID1B	brg1-binding protein eld/osa1; eld (eyelid)/osa protein. [refseq;acc:nm_020732]		204.856	198.854	6.002
		HTATSF1	hiv tat specific factor 1; cofactor required for tat activation of hiv-1 transcription. [refseq;acc:nm_014500]	High confidence	217.67	230.596	12.926
594	Divided	CDC40	pre-mrna splicing factor prp17 (hprp17) (eh-binding protein 3) (ehb3). [swissprot;acc:o60508]		223.282	210.136	1.06256
		NAV3	neuron navigator 3; pore membrane and/or filament interacting like protein 1; steerin 3. [refseq;acc:nm_014903]	Low confidence	204.073	198.07	1.03031
	Subtracted	ARID1A	swi/snf-related, matrix-associated, actin-dependent regulator of chromatin subfamily f member 1 (swi-snf complex protein p270) (b120). [swissprot;acc:o14497]		204.843	198.851	5.992
		CRK	proto-oncogene c-crk (p38) (adapter molecule crk). [swissprot;acc:p46108]	High confidence	207.26	194.346	12.914
595	Divided	ABTB1	ankyrin repeat and btb (poz) domain containing 1 isoform 1; elongation factor 1a binding protein. [refseq;acc:nm_032548]	Low confidence	205.485	199.453	1.03024
		VAV1	vav proto-oncogene. [swissprot;acc:p15498]	High confidence	212.2	199.849	1.0618
	Subtracted	ABL2	tyrosine-protein kinase abl2 (ec 2.7.1.112) (tyrosine kinase arg). [swissprot;acc:p42684]		207.26	194.346	12.914
		BUD31	g10 protein homolog (edg-2). [swissprot;acc:p41223]	Low confidence	201.67	195.729	5.941
596	Divided	RBX1	ring-box 1; ring box protein 1; regulator of cullins 1; ring finger protein; zyp protein. [refseq;acc:nm_014248]		205.485	199.453	1.03024
		VAV3	vav-3 protein. [swissprot;acc:q9ukw4]	High confidence	212.253	199.908	1.06175
	Subtracted	no value	proto-oncogene tyrosine-protein kinase src (ec 2.7.1.112) (p60-src) (c-src). [swissprot;acc:p12931]		207.26	194.346	12.914
		CDK2AP2	doc-1 related protein (doc-1r). [swissprot;acc:o75956]	Low confidence	216.618	210.69	5.928
597	Divided	ARID1B	brg1-binding protein eld/osa1; eld (eyelid)/osa protein. [refseq;acc:nm_020732]		204.856	198.854	1.03018
		VAV2	vav-2 protein. [swissprot;acc:p52735]	High confidence	212.526	200.212	1.0615
	Subtracted	DDX17	probable rna-dependent helicase p72 (dead-box protein p72) (dead-box protein 17). [swissprot;acc:q92841]	Low confidence	204.837	198.913	5.924
		HCK	tyrosine-protein kinase hck (ec 2.7.1.112) (p59-hck/p60-hck) (hemopoietic cell kinase). [swissprot;acc:p08631]	High confidence	207.26	194.346	12.914
598	Divided	AKT1	rac-alpha serine/threonine kinase (ec 2.7.1.-) (rac-pk-alpha) (protein kinase b) (pkb) (c-akt). [swissprot;acc:p31749]		248.463	234.095	1.06138
		ARID1A	swi/snf-related, matrix-associated, actin-dependent regulator of chromatin subfamily f member 1 (swi-snf complex protein p270) (b120). [swissprot;acc:o14497]	Low confidence	204.843	198.851	1.03013
	Subtracted	DDX5	probable rna-dependent helicase p68 (dead-box protein p68) (dead-box protein 5). [swissprot;acc:p17844]		204.832	198.916	5.916
		GRAP2	grb2-related adaptor protein 2 (gads protein) (growth factor receptor binding protein) (grblg) (grf40 adaptor protein) (grf-40) (grb-2-like protein) (grb2l) (grbx) (p38) (hematopoietic cell-associated adaptor protein grpl) (adapter protein grid) (sh3-sh2-sh3 adaptor mona). [swissprot;acc:o75791]	High confidence	207.261	194.347	12.914
599	Divided	AKT3	rac-gamma serine/threonine protein kinase (ec 2.7.1.-) (rac-pk-gamma) (protein kinase akt-3) (protein kinase b, gamma) (pkb gamma) (stk-2). [swissprot;acc:q9y243]		248.463	234.095	1.06138
		SFRS3	splicing factor, arginine/serine-rich 3 (pre-mrna splicing factor srp20) (x16 protein). [swissprot;acc:p23152]	Low confidence	208.383	202.291	1.03012
	Subtracted	CRKL	crk-like protein. [swissprot;acc:p46109]	High confidence	207.26	194.346	12.914
		JARID2	jumonji protein. [swissprot;acc:q92833]	Low confidence	207.726	201.813	5.913
600	Divided	AKT2	rac-beta serine/threonine protein kinase (ec 2.7.1.-) (rac-pk-beta) (protein kinase akt-2) (protein kinase b, beta) (pkb beta). [swissprot;acc:p31751]	High confidence	248.463	234.095	1.06138
		ING3	inhibitor of growth family, member 3. [refseq;acc:nm_019071]	Low confidence	210.546	204.42	1.02997
	Subtracted	ABL1	proto-oncogene tyrosine-protein kinase abl1 (ec 2.7.1.112) (p150) (c-abl). [swissprot;acc:p00519]	High confidence	207.26	194.346	12.914
		NEUROG2	neurogenin 2 (fragment). [swissprot;acc:q9h2a3]	Low confidence	216.554	210.642	5.912
601	Divided	CROT	peroxisomal carnitine octanoyltransferase (ec 2.3.1.-) (cot). [swissprot;acc:q9ukg9]		208.67	202.603	1.02995
		VPS39	vam6/vps39-like protein (hvam6p). [swissprot;acc:q96jc1]	High confidence	206.274	218.792	1.06069
	Subtracted	FYN	proto-oncogene tyrosine-protein kinase fyn (ec 2.7.1.112) (p59-fyn) (syn) (slk). [swissprot;acc:p06241]		207.26	194.346	12.914
		NEUROD2	neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784]	Low confidence	216.554	210.642	5.912
602	Divided	MAP4	microtubule-associated protein 4 (map 4). [swissprot;acc:p27816]	High confidence	206.274	218.792	1.06069
		SH2D3C	sh2 domain containing 3c; novel sh2-containing protein 3; sh2 domain-containing 3c; likely ortholog of mouse cas/hef1-associated signal transducer. [refseq;acc:nm_005489]	Low confidence	201.426	195.579	1.0299
	Subtracted	FGR	proto-oncogene tyrosine-protein kinase fgr (ec 2.7.1.112) (p55-fgr) (c-fgr). [swissprot;acc:p09769]	High confidence	207.26	194.346	12.914

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
- Hugo is the HGNC identifier if it exists
- 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.