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	network_comparison	green

Results: HTML CSV LaTeX

Showing element 951 to 1000 of 8289 in total

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

Rank	Hugo	description	Interaction Map	red	network_comparison	green
476	FUCA1	tissue alpha-l-fucosidase precursor (ec 3.2.1.51) (alpha-l-fucosidase i) (alpha-l-fucoside fucohydrolase). [swissprot;acc:p04066]	Low confidence	202.271	1.03336	195.742
	KCNA4	potassium voltage-gated channel subfamily a member 4 (potassium channel kv1.4) (hk1) (hpcn2) (hbk4) (hukii). [swissprot;acc:p22459]	High confidence	226.681	1.07527	210.814
477	HNRNPR	heterogeneous nuclear ribonucleoprotein r (hnrnp r). [swissprot;acc:o43390]	Low confidence	203.823	1.03333	197.249
	NIP7	saccharomyces cerevisiae nip7p homolog. [refseq;acc:nm_016101]	High confidence	251.926	1.0741	234.547
478	BLVRB	flavin reductase (ec 1.5.1.30) (fr) (nadph-dependent diaphorase) (nadph-flavin reductase) (flr) (biliverdin reductase b) (ec 1.3.1.24) (bvr-b) (biliverdin-ix beta-reductase) (green heme binding protein) (ghbp). [swissprot;acc:p30043]	Low confidence	207.68	1.03328	214.591
	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]	High confidence	228.051	1.07409	212.321
479	NOLA1	nucleolar protein family a, member 1; gar1 protein. [refseq;acc:nm_018983]
	VTA1	protein c6orf55 (dopamine responsive protein drg-1) (my012 protein) (hspc228). [swissprot;acc:q9np79]	Low confidence	207.68	1.03328	214.591
480	NETO2	neuropilin- and tolloid-like protein 2 precursor. [refseq;acc:nm_018092]	High confidence	237.109	1.07405	254.667
	SYNCRIP	ns1-associated protein 1. [refseq;acc:nm_006372]	Low confidence	203.822	1.03327	197.259
481	NETO1	neuropilin- and tolloid-like protein 1 isoform 3 precursor. [refseq;acc:nm_138966]	High confidence	237.109	1.07405	254.667
	RRAGA	ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570]	Low confidence	171.564	1.03324	166.045
482	HNRNPU	heterogenous nuclear ribonucleoprotein u (hnrnp u) (scaffold attachment factor a) (saf-a). [swissprot;acc:q00839]	High confidence	237.109	1.07405	254.667
	TRIP12	thyroid receptor interacting protein 12 (trip12). [swissprot;acc:q14669]	Low confidence	204.65	1.03314	198.086
483	no value	rna-binding protein. [refseq;acc:nm_019027]		203.821	1.03311	197.289
	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]	High confidence	237.109	1.07405	254.667
484	no value	apobec-1 complementation factor isoform 1; apobec-1 stimulating protein; apo-b rna editing protein. [refseq;acc:nm_014576]	Low confidence	203.821	1.0331	197.291
	HNRPUL1	e1b-55kda-associated protein 5 isoform a. [refseq;acc:nm_007040]	High confidence	237.109	1.07405	254.667
485	BRPF1	tubulin tyrosine ligase-like protein hottl (hqp0207). [swissprot;acc:q9y4r7]	Low confidence	205.109	1.03303	198.551
	RPL18	60s ribosomal protein l18. [swissprot;acc:q07020]	High confidence	237.109	1.07405	254.667
486	CXorf9	chromosome x open reading frame 9; likely ortholog of mouse sh3 gene sly. [refseq;acc:nm_018990]	Low confidence	204.331	1.03301	211.075
	MCTS1	mct-1 protein. [refseq;acc:nm_014060]	High confidence	226.313	1.07387	243.03
487	C15orf15	ribosomal protein l24-like; 60s ribosomal protein l30 isolog; my024 protein; homolog of yeast ribosomal like protein 24. [refseq;acc:nm_016304]	Low confidence	206.763	1.03289	200.18
	MRPL22	mitochondrial ribosomal protein l22. [refseq;acc:nm_014180]	High confidence	226.313	1.07387	243.03
488	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]		225.026	1.07258	209.798
	TMOD4	skeletal muscle tropomodulin (sk-tmod) (tropomodulin 4). [swissprot;acc:q9nzq9]	Low confidence	209.136	1.03288	202.478
489	PPM1B	protein phosphatase 2c beta isoform (ec 3.1.3.16) (pp2c-beta). [swissprot;acc:o75688]	High confidence	231.276	1.07257	215.627
	TMOD3	ubiquitous tropomodulin (u-tmod) (tropomodulin 3). [swissprot;acc:q9nyl9]	Low confidence	209.136	1.03288	202.478
490	ARHGEF7	rho guanine nucleotide exchange factor 7 (pak-interacting exchange factor beta) (beta-pix) (cool-1) (p85). [swissprot;acc:q14155]	High confidence	220.183	1.0719	236.015
	TMOD1	tropomodulin 1 (erythrocyte tropomodulin) (e-tmod). [swissprot;acc:p28289]	Low confidence	209.136	1.03288	202.478
491	GTPBP4	nucleolar gtp-binding protein 1 (chronic renal failure gene protein) (gtp-binding protein ngb). [swissprot;acc:q9bze4]	High confidence	251.83	1.07184	234.951
	SNX9	sorting nexin 9 (sh3 and px domain-containing protein 1) (sdp1 protein). [swissprot;acc:q9y5x1]	Low confidence	209.136	1.03288	202.478
492	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]	High confidence	220.171	1.0718	235.979
	TMOD2	neuronal tropomodulin (n-tmod) (tropomodulin 2). [swissprot;acc:q9nzr1]	Low confidence	209.136	1.03288	202.478
493	COG5	conserved oligomeric golgi complex subunit 5 (13s golgi transport complex 90 kda subunit) (gtc-90) (golgi transport complex 1). [swissprot;acc:q9up83]	High confidence	220.172	1.0718	235.98
	TNK2	activated p21cdc42hs kinase. [refseq;acc:nm_005781]	Low confidence	209.136	1.03288	202.478
494	EEF1B2	elongation factor 1-beta (ef-1-beta). [swissprot;acc:p24534]		206.154	1.03286	199.596
	PAK1	serine/threonine-protein kinase pak 1 (ec 2.7.1.-) (p21-activated kinase 1) (pak-1) (p65-pak) (alpha-pak). [swissprot;acc:q13153]	High confidence	220.172	1.0718	235.98
495	LIMD1	lim domains containing 1. [refseq;acc:nm_014240]	Low confidence	203.117	1.03278	196.671
	PAK3	serine/threonine-protein kinase pak 3 (ec 2.7.1.-) (p21-activated kinase 3) (pak-3) (beta-pak) (oligophrenin-3). [swissprot;acc:o75914]	High confidence	220.171	1.0718	235.979
496	no value	probable mitochondrial import receptor subunit tom7 homolog (translocase of outer membrane 7 kda subunit homolog) (protein ad- 014). [swissprot;acc:q9p0u1]	Low confidence	203.117	1.03278	196.671
	PPAN-P2RY11	suppressor of swi4 1 homolog (ssf-1) (peter pan homolog). [swissprot;acc:q9nq55]	High confidence	250.938	1.07177	234.134
497	EBNA1BP2	probable rrna processing protein ebp2 (ebna1 binding protein 2) (nucleolar protein p40). [swissprot;acc:q99848]		251.344		234.514
	SF4	splicing factor 4 isoform b; rna-binding protein. [refseq;acc:nm_021164]	Low confidence	203.117	1.03278	196.671
498	ARHGEF6	rho guanine nucleotide exchange factor 6 (pak-interacting exchange factor alpha) (alpha-pix) (cool-2). [swissprot;acc:q15052]	High confidence	220.161	1.07172	235.95
	KIFAP3	kinesin-associated protein 3 (smg gds-associated protein). [swissprot;acc:q92845]	Low confidence	203.117	1.03278	196.671
499	POLI	polymerase (dna directed) iota; rad30 (s. cerevisiae) homolog b; polymerase (dna-directed), iota. [refseq;acc:nm_007195]		203.167	1.03271	196.732
	TPI1	triosephosphate isomerase (ec 5.3.1.1) (tim). [swissprot;acc:p00938]	High confidence	231.496	1.0715	248.048
500	ING2	inhibitor of growth family, member 1-like; inhibitor of growth 1-like. [refseq;acc:nm_001564]		224.662	1.07127	240.673
	RCL1	rna 3'-terminal phosphate cyclase-like protein (hspc338). [swissprot;acc:q9y2p8]	Low confidence	203.85	1.03266	197.403

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.