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

Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 958 to 1007 of 6456 in total

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

Rank	Hugo	description	Network Comparison Type	red	green	network_comparison
479	NOLA1	nucleolar protein family a, member 1; gar1 protein. [refseq;acc:nm_018983]	Divided	228.051	212.321	1.07409
480	NETO2	neuropilin- and tolloid-like protein 2 precursor. [refseq;acc:nm_018092]		237.109	254.667	1.07405
	PAK1	serine/threonine-protein kinase pak 1 (ec 2.7.1.-) (p21-activated kinase 1) (pak-1) (p65-pak) (alpha-pak). [swissprot;acc:q13153]	Subtracted	220.172	235.98	15.808
481	NETO1	neuropilin- and tolloid-like protein 1 isoform 3 precursor. [refseq;acc:nm_138966]	Divided	237.109	254.667	1.07405
	PAK3	serine/threonine-protein kinase pak 3 (ec 2.7.1.-) (p21-activated kinase 3) (pak-3) (beta-pak) (oligophrenin-3). [swissprot;acc:o75914]	Subtracted	220.171	235.979	15.808
482	ARHGEF6	rho guanine nucleotide exchange factor 6 (pak-interacting exchange factor alpha) (alpha-pix) (cool-2). [swissprot;acc:q15052]		220.161	235.95	15.789
	HNRNPU	heterogenous nuclear ribonucleoprotein u (hnrnp u) (scaffold attachment factor a) (saf-a). [swissprot;acc:q00839]	Divided	237.109	254.667	1.07405
483	BRF1	transcription factor iiib 90 kda subunit (tfiiib90) (htfiiib90) (b- related factor 1) (hbrf) (tata box-binding protein-associated factor, rna polymerase iii, subunit 2) (taf3b2). [swissprot;acc:q92994]	Subtracted	228.051	212.321	15.73
	RUNX2	runt-related transcription factor 2 (core-binding factor, alpha 1 subunit) (cbf-alpha 1) (acute myeloid leukemia 3 protein) (oncogene aml-3) (polyomavirus enhancer binding protein 2 alpha a subunit) (pebp2-alpha a) (pea2-alpha a) (sl3-3 enhancer factor 1 alpha a subunit) (sl3/akv core-binding factor alpha a subunit) (osteoblast- specific transcription factor 2) (osf-2). [swissprot;acc:q13950]	Divided	237.109	254.667	1.07405
484	HNRPUL1	e1b-55kda-associated protein 5 isoform a. [refseq;acc:nm_007040]
	NOLA1	nucleolar protein family a, member 1; gar1 protein. [refseq;acc:nm_018983]	Subtracted	228.051	212.321	15.73
485	PPM1B	protein phosphatase 2c beta isoform (ec 3.1.3.16) (pp2c-beta). [swissprot;acc:o75688]		231.276	215.627	15.649
	RPL18	60s ribosomal protein l18. [swissprot;acc:q07020]	Divided	237.109	254.667	1.07405
486	EIF6	eukaryotic translation initiation factor 6 (eif-6) (b4 integrin interactor) (cab) (p27(bbp)) (b(2)gcn homolog). [swissprot;acc:p56537]	Subtracted	248.866	233.287	15.579
	MCTS1	mct-1 protein. [refseq;acc:nm_014060]	Divided	226.313	243.03	1.07387
487	MDH2	malate dehydrogenase, mitochondrial precursor (ec 1.1.1.37). [swissprot;acc:p40926]	Subtracted	238.529	254.099	15.57
	MRPL22	mitochondrial ribosomal protein l22. [refseq;acc:nm_014180]	Divided	226.313	243.03	1.07387
488	no value	gaba-a receptor-associated protein. [sptrembl;acc:q9by60]	Subtracted	82.5916	98.0548	15.4632
	SART1	squamous cell carcinoma antigen recognized by t cells 1; u4/u6.u5 tri-snrnp-associated 110 kda protein; ige autoantigen; sart1(259) protein; sart1(800) protein. [refseq;acc:nm_005146]	Divided	225.026	209.798	1.07258
489	ATG3	apg3p; pc3-96 protein. [refseq;acc:nm_022488]	Subtracted	82.5916	98.0548	15.4632
	PPM1B	protein phosphatase 2c beta isoform (ec 3.1.3.16) (pp2c-beta). [swissprot;acc:o75688]	Divided	231.276	215.627	1.07257
490	ARHGEF7	rho guanine nucleotide exchange factor 7 (pak-interacting exchange factor beta) (beta-pix) (cool-1) (p85). [swissprot;acc:q14155]		220.183	236.015	1.0719
	SSB	lupus la protein (sjogren syndrome type b antigen) (ss-b) (la ribonucleoprotein) (la autoantigen). [swissprot;acc:p05455]	Subtracted	242.531	227.136	15.395
491	GTPBP4	nucleolar gtp-binding protein 1 (chronic renal failure gene protein) (gtp-binding protein ngb). [swissprot;acc:q9bze4]	Divided	251.83	234.951	1.07184
	PITRM1	metalloprotease 1; metalloprotease 1 (pitrilysin family). [refseq;acc:nm_014889]	Subtracted	150.959	166.351	15.392
492	ALG1	beta-1,4 mannosyltransferase. [refseq;acc:nm_019109]		150.982	166.372	15.39
	PAK2	serine/threonine-protein kinase pak 2 (ec 2.7.1.-) (p21-activated kinase 2) (pak-2) (pak65) (gamma-pak) (s6/h4 kinase). [swissprot;acc:q13177]	Divided	220.171	235.979	1.0718
493	COG5	conserved oligomeric golgi complex subunit 5 (13s golgi transport complex 90 kda subunit) (gtc-90) (golgi transport complex 1). [swissprot;acc:q9up83]		220.172	235.98
	ZNRD1	zinc ribbon domain containing, 1; transcription-associated zinc ribbon protein; rna polymerase i small specific subunit rpa12. [refseq;acc:nm_014596]	Subtracted	236.751	252.038	15.287
494	MTX2	metaxin 2. [swissprot;acc:o75431]		219.537	234.793	15.256
	PAK1	serine/threonine-protein kinase pak 1 (ec 2.7.1.-) (p21-activated kinase 1) (pak-1) (p65-pak) (alpha-pak). [swissprot;acc:q13153]	Divided	220.172	235.98	1.0718
495	PAK3	serine/threonine-protein kinase pak 3 (ec 2.7.1.-) (p21-activated kinase 3) (pak-3) (beta-pak) (oligophrenin-3). [swissprot;acc:o75914]		220.171	235.979
	YME1L1	yme1-like 1 isoform 3; atp-dependent metalloprotease ftsh1 homolog. [refseq;acc:nm_014263]	Subtracted	222.146	237.393	15.247
496	no value	dj408b20.3 (novel protein similar to 60s acidic ribosomal protein p2 (rplp2)). [sptrembl;acc:q9h5a9]		235.18	250.419	15.239
	PPAN-P2RY11	suppressor of swi4 1 homolog (ssf-1) (peter pan homolog). [swissprot;acc:q9nq55]	Divided	250.938	234.134	1.07177
497	EBNA1BP2	probable rrna processing protein ebp2 (ebna1 binding protein 2) (nucleolar protein p40). [swissprot;acc:q99848]		251.344	234.514
	SART1	squamous cell carcinoma antigen recognized by t cells 1; u4/u6.u5 tri-snrnp-associated 110 kda protein; ige autoantigen; sart1(259) protein; sart1(800) protein. [refseq;acc:nm_005146]	Subtracted	225.026	209.798	15.228
498	ARHGEF6	rho guanine nucleotide exchange factor 6 (pak-interacting exchange factor alpha) (alpha-pix) (cool-2). [swissprot;acc:q15052]	Divided	220.161	235.95	1.07172
	TLX3	t-cell leukemia homeobox protein 3 (homeobox protein hox-11l2). [swissprot;acc:o43711]	Subtracted	237.28	252.492	15.212
499	BARX1	homeobox protein barh-like 1. [swissprot;acc:q9hbu1]
	TPI1	triosephosphate isomerase (ec 5.3.1.1) (tim). [swissprot;acc:p00938]	Divided	231.496	248.048	1.0715
500	ING2	inhibitor of growth family, member 1-like; inhibitor of growth 1-like. [refseq;acc:nm_001564]		224.662	240.673	1.07127
	OPN4	opsin 4 (melanopsin). [swissprot;acc:q9uhm6]	Subtracted	237.28	252.492	15.212
501	CYC1	cytochrome c1, heme protein, mitochondrial precursor (cytochrome c-1). [swissprot;acc:p08574]	Divided	238.704	255.68	1.07112
	TLX2	t-cell leukemia homeobox protein 2 (homeobox protein hox-11l1) (neural crest homeobox protein). [swissprot;acc:o43763]	Subtracted	237.28	252.492	15.212
502	ARHGAP26	oligophrenin-1 like protein (gtpase regulator associated with focal adhesion kinase). [swissprot;acc:q9una1]	Divided	238.704	255.68	1.07112
	TLX1	t-cell leukemia homeobox protein 1 (homeobox protein hox-11) (tcl-3 proto-oncogene). [swissprot;acc:p31314]	Subtracted	237.28	252.492	15.212
503	HECTD1	hect domain containing protein 1 (fragment). [swissprot;acc:q9ult8]
	RGN	senescence marker protein-30 (smp-30) (regucalcin) (rc). [swissprot;acc:q15493]	Divided	238.704	255.68	1.07112
504	BARX2	homeobox protein barh-like 2. [swissprot;acc:q9umq3]	Subtracted	237.28	252.492	15.212

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.