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 1558 to 1607 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	description	Value Type	Network Comparison Type	red	green	network_comparison
195	SLC39A6	liv-1 protein, estrogen regulated. [refseq;acc:nm_012319]	Rooted	Divided	59.6399	51.9242	1.1486
	SSR4	translocon-associated protein, delta subunit precursor (trap-delta) (signal sequence receptor delta subunit) (ssr-delta). [swissprot;acc:p51571]	Squared		71062.4	95488.9	1.34373
	UFC1	protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8]	Measured	Subtracted	3074.57	4567.51	1492.94
196	no value	hpaii tiny fragments locus 9c. [refseq;acc:nm_022727]	Ranked		272.781	246.892	25.889
	AQP4	aquaporin 4 (wch4) (mercurial-insensitive water channel) (miwc). [swissprot;acc:p55087]	Measured		10640.2	12117.8	1477.6
	CLSTN1	calsyntenin-1 precursor. [swissprot;acc:o94985]	Squared	Divided	71062.4	95488.9	1.34373
	FOXP4	forkhead box p4; fork head-related protein like a; winged-helix repressor foxp4. [refseq;acc:nm_138457]	Ranked		263.215	231.407	1.13745
	GAD2	glutamate decarboxylase, 65 kda isoform (ec 4.1.1.15) (gad-65) (65 kda glutamic acid decarboxylase). [swissprot;acc:q05329]	Rooted		59.6399	51.9242	1.1486
	ISCU	nitrogen fixation cluster-like. [refseq;acc:nm_014301]	Squared	Subtracted	42411.6	55802.1	13390.5
	PPP2R5A	serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, alpha isoform (pp2a, b subunit, b' alpha isoform) (pp2a, b subunit, b56 alpha isoform) (pp2a, b subunit, pr61 alpha isoform) (pp2a, b subunit, r5 alpha isoform). [swissprot;acc:q15172]	Rooted		116.707	106.044	10.663
	PPP2R5E	serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, epsilon isoform (pp2a, b subunit, b' epsilon isoform) (pp2a, b subunit, b56 epsilon isoform) (pp2a, b subunit, pr61 epsilon isoform) (pp2a, b subunit, r5 epsilon isoform). [swissprot;acc:q16537]	Measured	Divided	17738.5	13995.7	1.26742
197	no value	succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial precursor (cybs) (succinate-ubiquinone reductase membrane anchor subunit) (qps2) (cii-4) (succinate dehydrogenase complex subunit d) (succinate-ubiquinone oxidoreductase cytochrome b small subunit). [swissprot;acc:o14521]	Squared		71062.4	95488.9	1.34373
	AQP5	aquaporin 5. [swissprot;acc:p55064]	Measured	Subtracted	10640	12117.6	1477.6
	FOXP1	forkhead box protein p1 (hspc215). [swissprot;acc:q9h334]	Ranked	Divided	263.215	231.407	1.13745
	LUC7L2	luc7-like 2; cgi-74 protein; cgi-59 protein. [refseq;acc:nm_016019]	Rooted	Subtracted	55.2859	65.9288	10.6429
	NAPG	gamma-soluble nsf attachment protein (snap-gamma) (n-ethylmaleimide- sensitive factor attachment protein, gamma). [swissprot;acc:q99747]		Divided	59.6399	51.9242	1.1486
	PPP2R5A	serine/threonine protein phosphatase 2a, 56 kda regulatory subunit, alpha isoform (pp2a, b subunit, b' alpha isoform) (pp2a, b subunit, b56 alpha isoform) (pp2a, b subunit, pr61 alpha isoform) (pp2a, b subunit, r5 alpha isoform). [swissprot;acc:q15172]	Measured		17738.5	13995.7	1.26742
	SNORA7A	60s ribosomal protein l32. [swissprot;acc:p02433]	Ranked	Subtracted	241.13	266.969	25.839
	STARD13	star-related lipid transfer protein 13 (stard13) (start domain- containing protein 13) (46h23.2). [swissprot;acc:q9y3m8]	Squared		42411.6	55802.1	13390.5
198	no value	40s ribosomal protein s29. [swissprot;acc:p30054]	Ranked		241.849	267.642	25.793
	AQP2	aquaporin-cd (aqp-cd) (water channel protein for renal collecting duct) (adh water channel) (aquaporin 2) (collecting duct water channel protein) (wch-cd). [swissprot;acc:p41181]	Measured		10639.9	12117.4	1477.5
	BRAF	b-raf proto-oncogene serine/threonine-protein kinase (ec 2.7.1.-) (p94) (v-raf murine sarcoma viral oncogene homolog b1). [swissprot;acc:p15056]		Divided	17710.9	13977.7	1.26708
			Rooted	Subtracted	116.576	105.948	10.628
	FOXP3	forkhead box protein p3 (zinc finger protein jm2) (scurfin). [swissprot;acc:q9bzs1]	Ranked	Divided	263.191	231.394	1.13741
	GAD1	glutamate decarboxylase, 67 kda isoform (ec 4.1.1.15) (gad-67) (67 kda glutamic acid decarboxylase). [swissprot;acc:q99259]	Rooted		59.6399	51.9242	1.1486
	PTPRB	protein-tyrosine phosphatase beta precursor (ec 3.1.3.48) (r-ptp- beta). [swissprot;acc:p23467]	Squared		71062.2	95488.6	1.34373
	STARD8	star-related lipid transfer protein 8 (stard8) (start domain- containing protein 8). [swissprot;acc:q92502]		Subtracted	42411.6	55802.1	13390.5
199	CHRNA2	neuronal acetylcholine receptor protein, alpha-2 chain precursor. [swissprot;acc:q15822]
	EGFL8	palmitoyl-protein thioesterase 2 precursor (ec 3.1.2.22) (palmitoyl- protein hydrolase 2) (ppt-2) (g14). [swissprot;acc:q9umr5]	Ranked	Divided	242.735	276.059	1.13729
	LUC7L	luc7-like; sarcoplasmic reticulum protein luc7b1. [refseq;acc:nm_018032]	Rooted	Subtracted	55.297	65.9236	10.6266
	MIP	lens fiber major intrinsic protein (mip26) (mp26) (aquaporin 0). [swissprot;acc:p30301]	Measured		10639.8	12117.3	1477.5
	PPP2CA	serine/threonine protein phosphatase 2a, catalytic subunit, alpha isoform (ec 3.1.3.16) (pp2a-alpha) (replication protein c) (rp-c). [swissprot;acc:p05323]		Divided	4916.8	3888.18	1.26455
	PRSS16	thymus-specific serine protease precursor (ec 3.4.-.-). [swissprot;acc:q9nqe7]	Squared		71062.2	95488.6	1.34373
	RPS11	40s ribosomal protein s11. [swissprot;acc:p04643]	Ranked	Subtracted	241.399	267.088	25.689
	STT3B	source of immunodominant mhc-associated peptides; homolog of yeast stt3 gene. [refseq;acc:nm_178862]	Rooted	Divided	61.2893	70.3856	1.14842
200	no value	60s ribosomal protein l17 (l23). [swissprot;acc:p18621]	Ranked	Subtracted	241.808	267.335	25.527
	AQP1	aquaporin-chip (water channel protein for red blood cells and kidney proximal tubule) (aquaporin 1) (aqp-1) (urine water channel). [swissprot;acc:p29972]	Measured		10635.3	12111.4	1476.1
	BCAR1	crk-associated substrate (p130cas) (breast cancer anti-estrogen resistance 1 protein). [swissprot;acc:p56945]		Divided	4808.79	6074.21	1.26315
	CCDC47	gk001 protein. [refseq;acc:nm_020198]	Squared		71062.2	95488.6	1.34373
	EGFL7	egf-like-domain, multiple 7; neu1 protein. [refseq;acc:nm_016215]	Ranked		242.718	276.018	1.1372
	MAPKAPK3	mitogen-activated protein kinase-activated protein kinase 3; mapkap kinase 3. [refseq;acc:nm_004635]	Squared	Subtracted	42411.6	55802.1	13390.5
	PPP2CA	serine/threonine protein phosphatase 2a, catalytic subunit, alpha isoform (ec 3.1.3.16) (pp2a-alpha) (replication protein c) (rp-c). [swissprot;acc:p05323]	Rooted		63.5827	53.0856	10.4971
	STT3A	oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977]		Divided	61.2893	70.3856	1.14842
201	CCT4	t-complex protein 1, delta subunit (tcp-1-delta) (cct-delta) (stimulator of tar rna binding). [swissprot;acc:p50991]	Measured		4810.22	6075.04	1.26294
	CLSTN2	calsyntenin-2 precursor. [swissprot;acc:q9h4d0]	Squared		71033.4	95440.2	1.3436
	CPSF4	cleavage and polyadenylation specific factor 4, 30kd subunit; cleavage-polyadenylation specificity factor, 30kd; no arches-like (zebrafish) zinc finger protein; cleavage-polyadenylation specificity factor. [refseq;acc:nm_006693]	Rooted	Subtracted	138.375	127.926	10.449
	DDOST	dolichyl-diphosphooligosaccharide--protein glycosyltransferase 48 kda subunit precursor (ec 2.4.1.119) (oligosaccharyl transferase 48 kda subunit) (ddost 48 kda subunit). [swissprot;acc:p39656]		Divided	61.2893	70.3856	1.14842
	MAPK14	mitogen-activated protein kinase 14 (ec 2.7.1.37) (mitogen-activated protein kinase p38alpha) (map kinase p38alpha) (cytokine suppressive anti-inflammatory drug binding protein) (csaid binding protein) (csbp) (max-interacting protein 2) (map kinase mxi2) (sapk2a). [swissprot;acc:q16539]	Squared	Subtracted	42411.6	55802.1	13390.5
	RPL11	60s ribosomal protein l11. [swissprot;acc:p39026]	Ranked		241.828	267.346	25.518
	SF4	splicing factor 4 isoform b; rna-binding protein. [refseq;acc:nm_021164]		Divided	240.133	211.382	1.13601

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.