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	Value Type	Network Comparison Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 1162 to 1211 of 8289 in total

Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1

Rank	Hugo	description	Interaction Map	red	green	network_comparison
581	TLX3	t-cell leukemia homeobox protein 3 (homeobox protein hox-11l2). [swissprot;acc:o43711]	High confidence	237.28	252.492	1.06411
582	BARX1	homeobox protein barh-like 1. [swissprot;acc:q9hbu1]
	CYP4F3	cytochrome p450 4f3 (ec 1.14.13.30) (cypivf3) (leukotriene-b4 omega- hydroxylase) (leukotriene-b4 20-monooxygenase) (cytochrome p450- ltb-omega). [swissprot;acc:q08477]	Low confidence	203.164	197.1	1.03077
583	CYP4F2	cytochrome p450 4f2 (ec 1.14.13.30) (cypivf2) (leukotriene-b4 omega- hydroxylase) (leukotriene-b4 20-monooxygenase) (cytochrome p450- ltb-omega). [swissprot;acc:p78329]		203.166	197.101
	OPN4	opsin 4 (melanopsin). [swissprot;acc:q9uhm6]	High confidence	237.28	252.492	1.06411
584	CYP4F11	cytochrome p450 4f11 (ec 1.14.14.1) (cypivf11). [swissprot;acc:q9hbi6]	Low confidence	203.163	197.102	1.03075
	TLX2	t-cell leukemia homeobox protein 2 (homeobox protein hox-11l1) (neural crest homeobox protein). [swissprot;acc:o43763]	High confidence	237.28	252.492	1.06411
585	SURF6	surfeit locus protein 6. [swissprot;acc:o75683]	Low confidence	205.21	199.088	1.03075
	TLX1	t-cell leukemia homeobox protein 1 (homeobox protein hox-11) (tcl-3 proto-oncogene). [swissprot;acc:p31314]	High confidence	237.28	252.492	1.06411
586	no value	enthoprotin; epsin 4; clathrin interacting protein localized in the trans-golgi region. [refseq;acc:nm_014666]	Low confidence	205.506	199.406	1.03059
	HECTD1	hect domain containing protein 1 (fragment). [swissprot;acc:q9ult8]	High confidence	237.28	252.492	1.06411
587	BARX2	homeobox protein barh-like 2. [swissprot;acc:q9umq3]
	DDX24	atp-dependent rna helicase ddx24 (dead-box protein 24). [swissprot;acc:q9gzr7]	Low confidence	205.461	199.383	1.03048
588	AGPAT4	1-acyl-sn-glycerol-3-phosphate acyltransferase delta (ec 2.3.1.51) (1- agp acyltransferase 4) (1-agpat 4) (lysophosphatidic acid acyltransferase-delta) (lpaat-delta) (1-acylglycerol-3-phosphate o- acyltransferase 4). [swissprot;acc:q9nrz5]		191.507	185.859	1.03039
	SBDS	shwachman-bodian-diamond syndrome protein (cgi-97). [swissprot;acc:q9y3a5]	High confidence	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
	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	1.03035
590	AP2M1	clathrin coat assembly protein ap50 (clathrin coat associated protein ap50) (plasma membrane adaptor ap-2 50 kda protein) (ha2 50 kda subunit) (clathrin assembly protein complex 2 medium chain) (ap-2 mu 2 chain). [swissprot;acc:p20172]		211.788	218.216
	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
591	BUD31	g10 protein homolog (edg-2). [swissprot;acc:p41223]	Low confidence	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
592	ERGIC2	cda14. [refseq;acc:nm_016570]	Low confidence	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
593	DR1	tata-binding protein-associated phosphoprotein (down-regulator of transcription 1) (dr1 protein). [swissprot;acc:q01658]		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
594	CDC40	pre-mrna splicing factor prp17 (hprp17) (eh-binding protein 3) (ehb3). [swissprot;acc:o60508]	High confidence	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
595	ABTB1	ankyrin repeat and btb (poz) domain containing 1 isoform 1; elongation factor 1a binding protein. [refseq;acc:nm_032548]		205.485	199.453	1.03024
	VAV1	vav proto-oncogene. [swissprot;acc:p15498]	High confidence	212.2	199.849	1.0618
596	RBX1	ring-box 1; ring box protein 1; regulator of cullins 1; ring finger protein; zyp protein. [refseq;acc:nm_014248]	Low confidence	205.485	199.453	1.03024
	VAV3	vav-3 protein. [swissprot;acc:q9ukw4]	High confidence	212.253	199.908	1.06175
597	ARID1B	brg1-binding protein eld/osa1; eld (eyelid)/osa protein. [refseq;acc:nm_020732]	Low confidence	204.856	198.854	1.03018
	VAV2	vav-2 protein. [swissprot;acc:p52735]	High confidence	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
	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
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]	High confidence	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
600	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
601	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
602	MAP4	microtubule-associated protein 4 (map 4). [swissprot;acc:p27816]
	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
603	BCAR3	breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567]		201.427	195.587	1.02986
	LEF1	lymphoid enhancer binding factor 1 (lef-1) (t cell-specific transcription factor 1-alpha) (tcf1-alpha). [swissprot;acc:q9uju2]	High confidence	225.829	212.945	1.0605
604	RPL15	60s ribosomal protein l15. [swissprot;acc:p39030]		217.862	230.978	1.0602
	RPL36	60s ribosomal protein l36. [swissprot;acc:q9y3u8]	Low confidence	205.116	211.234	1.02983
605	DDX17	probable rna-dependent helicase p72 (dead-box protein p72) (dead-box protein 17). [swissprot;acc:q92841]		204.837	198.913	1.02978
	HIST1H2BL	histone h2b.c (h2b/c). [swissprot;acc:q99880]	High confidence	247.47	233.441	1.0601
606	no value	dolichyl-p-man:man(5)glcnac(2)-pp-dolichyl mannosyltransferase (ec 2.4.1.-) (dol-p-man dependent alpha(1-3)-mannosyltransferase) (not56-like protein). [swissprot;acc:q92685]	Low confidence	200.085	194.301	1.02977

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.