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

Results: HTML CSV LaTeX

Showing element 1162 to 1211 of 6456 in total

Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	description	Network Comparison Type	red	green	network_comparison
581	TLX3	t-cell leukemia homeobox protein 3 (homeobox protein hox-11l2). [swissprot;acc:o43711]	Divided	237.28	252.492	1.06411
582	BARX1	homeobox protein barh-like 1. [swissprot;acc:q9hbu1]
	PSCD3	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]	Subtracted	15	28	13
583	EIF4E	eukaryotic translation initiation factor 4e (eif-4e) (eif4e) (mrna cap-binding protein) (eif-4f 25 kda subunit). [swissprot;acc:p06730]		233.725	220.751	12.974
	OPN4	opsin 4 (melanopsin). [swissprot;acc:q9uhm6]	Divided	237.28	252.492	1.06411
584	BAIAP3	bai1-associated protein 3; bai-associated protein 3. [refseq;acc:nm_003933]	Subtracted	233.725	220.751	12.974
	TLX2	t-cell leukemia homeobox protein 2 (homeobox protein hox-11l1) (neural crest homeobox protein). [swissprot;acc:o43763]	Divided	237.28	252.492	1.06411
585	TLX1	t-cell leukemia homeobox protein 1 (homeobox protein hox-11) (tcl-3 proto-oncogene). [swissprot;acc:p31314]
	WAS	wiskott-aldrich syndrome protein (wasp). [swissprot;acc:p42768]	Subtracted	207.222	194.262	12.96
586	HECTD1	hect domain containing protein 1 (fragment). [swissprot;acc:q9ult8]	Divided	237.28	252.492	1.06411
	RRM1	ribonucleoside-diphosphate reductase m1 chain (ec 1.17.4.1) (ribonucleotide reductase large chain). [swissprot;acc:p23921]	Subtracted	217.215	204.279	12.936
587	BARX2	homeobox protein barh-like 2. [swissprot;acc:q9umq3]	Divided	237.28	252.492	1.06411
	HRB	nucleoporin-like protein rip (hiv-1 rev-binding protein) (rev interacting protein) (rev/rex activation domain-binding protein). [swissprot;acc:p52594]	Subtracted	217.67	230.596	12.926
588	no value	intersectin 1 (sh3 domain-containing protein 1a) (sh3p17). [swissprot;acc:q15811]
	SBDS	shwachman-bodian-diamond syndrome protein (cgi-97). [swissprot;acc:q9y3a5]	Divided	216.557	230.362	1.06375
589	no value	u6 snrna-associated sm-like protein lsm2 (small nuclear ribonuclear protein d homolog) (g7b) (snrnp core sm-like protein sm-x5). [swissprot;acc:q9y333]		228.215	214.546	1.06371
	PRAM1	pram-1 protein; pml-rara target gene encoding an adaptor molecule-1. [refseq;acc:nm_032152]	Subtracted	217.67	230.596	12.926
590	no value	intersectin 2 (sh3 domain-containing protein 1b) (sh3p18) (sh3p18-like wasp associated protein). [swissprot;acc:q9nzm3]
	RRM1	ribonucleoside-diphosphate reductase m1 chain (ec 1.17.4.1) (ribonucleotide reductase large chain). [swissprot;acc:p23921]	Divided	217.215	204.279	1.06333
591	HRBL	hiv-1 rev binding protein-like; rev/rex activation domain binding protein-related. [refseq;acc:nm_006076]	Subtracted	217.67	230.596	12.926
	RPP30	ribonuclease p protein subunit p30 (ec 3.1.26.5) (rnasep protein p30) (rnase p subunit 2). [swissprot;acc:p78346]	Divided	216.72	230.439	1.0633
592	C16orf35	cgthba protein (-14 gene protein). [swissprot;acc:q12980]	Subtracted	217.67	230.596	12.926
	PPP1R7	protein phosphatase 1, regulatory subunit 7; sds22. [refseq;acc:nm_002712]	Divided	91.63	97.4011	1.06298
593	DR1	tata-binding protein-associated phosphoprotein (down-regulator of transcription 1) (dr1 protein). [swissprot;acc:q01658]		232.118	218.406	1.06278
	HTATSF1	hiv tat specific factor 1; cofactor required for tat activation of hiv-1 transcription. [refseq;acc:nm_014500]	Subtracted	217.67	230.596	12.926
594	CDC40	pre-mrna splicing factor prp17 (hprp17) (eh-binding protein 3) (ehb3). [swissprot;acc:o60508]	Divided	223.282	210.136	1.06256
	CRK	proto-oncogene c-crk (p38) (adapter molecule crk). [swissprot;acc:p46108]	Subtracted	207.26	194.346	12.914
595	ABL2	tyrosine-protein kinase abl2 (ec 2.7.1.112) (tyrosine kinase arg). [swissprot;acc:p42684]
	VAV1	vav proto-oncogene. [swissprot;acc:p15498]	Divided	212.2	199.849	1.0618
596	no value	proto-oncogene tyrosine-protein kinase src (ec 2.7.1.112) (p60-src) (c-src). [swissprot;acc:p12931]	Subtracted	207.26	194.346	12.914
	VAV3	vav-3 protein. [swissprot;acc:q9ukw4]	Divided	212.253	199.908	1.06175
597	HCK	tyrosine-protein kinase hck (ec 2.7.1.112) (p59-hck/p60-hck) (hemopoietic cell kinase). [swissprot;acc:p08631]	Subtracted	207.26	194.346	12.914
	VAV2	vav-2 protein. [swissprot;acc:p52735]	Divided	212.526	200.212	1.0615
598	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
	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]	Subtracted	207.261	194.347	12.914
599	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]	Divided	248.463	234.095	1.06138
	CRKL	crk-like protein. [swissprot;acc:p46109]	Subtracted	207.26	194.346	12.914
600	ABL1	proto-oncogene tyrosine-protein kinase abl1 (ec 2.7.1.112) (p150) (c-abl). [swissprot;acc:p00519]
	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]	Divided	248.463	234.095	1.06138
601	FYN	proto-oncogene tyrosine-protein kinase fyn (ec 2.7.1.112) (p59-fyn) (syn) (slk). [swissprot;acc:p06241]	Subtracted	207.26	194.346	12.914
	VPS39	vam6/vps39-like protein (hvam6p). [swissprot;acc:q96jc1]	Divided	206.274	218.792	1.06069
602	FGR	proto-oncogene tyrosine-protein kinase fgr (ec 2.7.1.112) (p55-fgr) (c-fgr). [swissprot;acc:p09769]	Subtracted	207.26	194.346	12.914
	MAP4	microtubule-associated protein 4 (map 4). [swissprot;acc:p27816]	Divided	206.274	218.792	1.06069
603	CUTL1	ccaat displacement protein (cdp) (cut-like 1). [swissprot;acc:p39880]	Subtracted	207.27	194.368	12.902
	LEF1	lymphoid enhancer binding factor 1 (lef-1) (t cell-specific transcription factor 1-alpha) (tcf1-alpha). [swissprot;acc:q9uju2]	Divided	225.829	212.945	1.0605
604	CUTL2	homeobox protein cux-2 (cut-like 2) (fragment). [swissprot;acc:o14529]	Subtracted	207.272	194.371	12.901
	RPL15	60s ribosomal protein l15. [swissprot;acc:p39030]	Divided	217.862	230.978	1.0602
605	HIST1H2BL	histone h2b.c (h2b/c). [swissprot;acc:q99880]		247.47	233.441	1.0601
	LEF1	lymphoid enhancer binding factor 1 (lef-1) (t cell-specific transcription factor 1-alpha) (tcf1-alpha). [swissprot;acc:q9uju2]	Subtracted	225.829	212.945	12.884
606	HIST2H2BA	histone h2b.q (h2b/q) (h2b-gl105). [swissprot;acc:q16778]	Divided	247.47	233.441	1.0601

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.