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

Results: HTML CSV LaTeX

Showing element 575 to 624 of 3228 in total

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

Rank	description	Hugo	red	network_comparison	green
575	dnaj homolog subfamily b member 11 precursor (er-associated dnaj protein 3) (erj3) (er-associated hsp40 co-chaperone) (hdj9) (pwp1- interacting protein 4). [swissprot;acc:q9ubs4]	DNAJB11	221.807	1.06503	208.264
576	dj408b20.3 (novel protein similar to 60s acidic ribosomal protein p2 (rplp2)). [sptrembl;acc:q9h5a9]	no value	235.18	1.0648	250.419
577	enteropeptidase precursor (ec 3.4.21.9) (enterokinase). [swissprot;acc:p98073]	PRSS7	224.606	1.06477	210.944
578	splicing factor 3b subunit 2 (spliceosome associated protein 145) (sap 145) (sf3b150) (pre-mrna splicing factor sf3b 145 kda subunit). [swissprot;acc:q13435]	SF3B2
579	zinc finger protein t86. [swissprot;acc:o00488]	ZNF593	246.805	1.06475	231.796
580	zinc ribbon domain containing, 1; transcription-associated zinc ribbon protein; rna polymerase i small specific subunit rpa12. [refseq;acc:nm_014596]	ZNRD1	236.751	1.06457	252.038
581	t-cell leukemia homeobox protein 3 (homeobox protein hox-11l2). [swissprot;acc:o43711]	TLX3	237.28	1.06411	252.492
582	homeobox protein barh-like 1. [swissprot;acc:q9hbu1]	BARX1
583	opsin 4 (melanopsin). [swissprot;acc:q9uhm6]	OPN4
584	t-cell leukemia homeobox protein 2 (homeobox protein hox-11l1) (neural crest homeobox protein). [swissprot;acc:o43763]	TLX2
585	t-cell leukemia homeobox protein 1 (homeobox protein hox-11) (tcl-3 proto-oncogene). [swissprot;acc:p31314]	TLX1
586	hect domain containing protein 1 (fragment). [swissprot;acc:q9ult8]	HECTD1
587	homeobox protein barh-like 2. [swissprot;acc:q9umq3]	BARX2
588	shwachman-bodian-diamond syndrome protein (cgi-97). [swissprot;acc:q9y3a5]	SBDS	216.557	1.06375	230.362
589	u6 snrna-associated sm-like protein lsm2 (small nuclear ribonuclear protein d homolog) (g7b) (snrnp core sm-like protein sm-x5). [swissprot;acc:q9y333]	no value	228.215	1.06371	214.546
590	ribonucleoside-diphosphate reductase m1 chain (ec 1.17.4.1) (ribonucleotide reductase large chain). [swissprot;acc:p23921]	RRM1	217.215	1.06333	204.279
591	ribonuclease p protein subunit p30 (ec 3.1.26.5) (rnasep protein p30) (rnase p subunit 2). [swissprot;acc:p78346]	RPP30	216.72	1.0633	230.439
592	protein phosphatase 1, regulatory subunit 7; sds22. [refseq;acc:nm_002712]	PPP1R7	91.63	1.06298	97.4011
593	tata-binding protein-associated phosphoprotein (down-regulator of transcription 1) (dr1 protein). [swissprot;acc:q01658]	DR1	232.118	1.06278	218.406
594	pre-mrna splicing factor prp17 (hprp17) (eh-binding protein 3) (ehb3). [swissprot;acc:o60508]	CDC40	223.282	1.06256	210.136
595	vav proto-oncogene. [swissprot;acc:p15498]	VAV1	212.2	1.0618	199.849
596	vav-3 protein. [swissprot;acc:q9ukw4]	VAV3	212.253	1.06175	199.908
597	vav-2 protein. [swissprot;acc:p52735]	VAV2	212.526	1.0615	200.212
598	rac-alpha serine/threonine kinase (ec 2.7.1.-) (rac-pk-alpha) (protein kinase b) (pkb) (c-akt). [swissprot;acc:p31749]	AKT1	248.463	1.06138	234.095
599	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]	AKT3
600	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]	AKT2
601	vam6/vps39-like protein (hvam6p). [swissprot;acc:q96jc1]	VPS39	206.274	1.06069	218.792
602	microtubule-associated protein 4 (map 4). [swissprot;acc:p27816]	MAP4
603	lymphoid enhancer binding factor 1 (lef-1) (t cell-specific transcription factor 1-alpha) (tcf1-alpha). [swissprot;acc:q9uju2]	LEF1	225.829	1.0605	212.945
604	60s ribosomal protein l15. [swissprot;acc:p39030]	RPL15	217.862	1.0602	230.978
605	histone h2b.c (h2b/c). [swissprot;acc:q99880]	HIST1H2BL	247.47	1.0601	233.441
606	histone h2b.q (h2b/q) (h2b-gl105). [swissprot;acc:q16778]	HIST2H2BA
607	histone h3.1 (h3/a) (h3/c) (h3/d) (h3/f) (h3/h) (h3/i) (h3/j) (h3/k) (h3/l). [swissprot;acc:p16106]	no value
608	histone h2b. [refseq;acc:nm_175055]
609	histone h2b.s (h2b/s). [swissprot;acc:p57053]
610	histone h2b.d (h2b/d). [swissprot;acc:q99877]
611	histone h3.4 (h3t) (h3/t) (h3/g). [swissprot;acc:q16695]	HIST3H3
612	testis-specific histone h2b; h2b histone family, member u, (testis-specific). [refseq;acc:nm_170610]	HIST1H2BA
613	histone h2b.e (h2b/e). [swissprot;acc:q99879]	no value
614	homeobox protein hox-a10 (hox-1h) (hox-1.8) (pl). [swissprot;acc:p31260]	HOXA10	214.257	1.06002	202.125
615	homeobox protein hox-b9 (hox-2e) (hox-2.5). [swissprot;acc:p17482]	HOXB9		1.05999	202.132
616	homeobox protein hox-a9 (hox-1g). [swissprot;acc:p31269]	HOXA9
617	homeobox protein hox-c9 (hox-3b). [swissprot;acc:p31274]	HOXC9		1.05997	202.135
618	gamma-aminobutyric-acid receptor gamma-3 subunit precursor (gaba(a) receptor). [swissprot;acc:q99928]	GABRG3	214.256	1.05994	202.139
619	forkhead box protein g1c (forkhead-related protein fkhl3) (hfk3) (fragment). [swissprot;acc:q14488]	FOXG1
620	gamma-aminobutyric-acid receptor gamma-1 subunit precursor (gaba(a) receptor). [swissprot;acc:q8n1c3]	GABRG1			202.14
621	gamma-aminobutyric-acid receptor alpha-2 subunit precursor (gaba(a) receptor). [swissprot;acc:p47869]	GABRA2
622	gamma-aminobutyric-acid receptor alpha-6 subunit precursor (gaba(a) receptor). [swissprot;acc:q16445]	GABRA6
623	gamma-aminobutyric-acid receptor gamma-2 subunit precursor (gaba(a) receptor). [swissprot;acc:p18507]	GABRG2
624	interleukin-1 receptor-associated kinase 4; interleukin-1 receptor associated kinase 4. [refseq;acc:nm_016123]	no value			202.139

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.