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 1062 to 1111 of 12912 in total

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

Rank	Hugo	description	Value Type	red	green	network_comparison
266	CRK	proto-oncogene c-crk (p38) (adapter molecule crk). [swissprot;acc:p46108]	Rooted	66.1064	74.1074	1.12103
	FEM1B	fem-1 homolog b; fem-1-like death receptor binding protein; fem-1 (c.elegans) homolog b. [refseq;acc:nm_015322]	Squared	26157.6	20236.2	1.29261
	SIN3A	transcriptional co-repressor sin3a; transcriptional regulator, sin3a (yeast). [refseq;acc:nm_015477]	Ranked	241.07	267.88	1.11121
267	ABL2	tyrosine-protein kinase abl2 (ec 2.7.1.112) (tyrosine kinase arg). [swissprot;acc:p42684]	Rooted	66.1064	74.1073	1.12103
	DENR	density-regulated protein (drp) (drp1 protein) (smooth muscle cell associated protein-3) (smap-3). [swissprot;acc:o43583]	Ranked	241.07	267.88	1.11121
	LRRC3	leucine-rich repeat protein lrrc3 precursor. [swissprot;acc:q9by71]	Squared	26157.6	20236.2	1.29261
	RALGDS	ral guanine nucleotide dissociation stimulator (ralgef) (ralgds). [swissprot;acc:q12967]	Measured	14021.4	11523	1.21682
268	no value	proto-oncogene tyrosine-protein kinase src (ec 2.7.1.112) (p60-src) (c-src). [swissprot;acc:p12931]	Rooted	66.1064	74.1074	1.12103
	CPSF2	cleavage and polyadenylation specificity factor, 100 kda subunit (cpsf 100 kda subunit) (fragment). [swissprot;acc:q9p2i0]	Measured	24473.9	20127.8	1.21593
	EIF5	eukaryotic translation initiation factor 5 (eif-5). [swissprot;acc:p55010]	Ranked	271.016	244.167	1.10996
	LAMC1	laminin gamma-1 chain precursor (laminin b2 chain). [swissprot;acc:p11047]	Squared	26157.6	20236.2	1.29261
269	HCK	tyrosine-protein kinase hck (ec 2.7.1.112) (p59-hck/p60-hck) (hemopoietic cell kinase). [swissprot;acc:p08631]	Rooted	66.1064	74.1074	1.12103
	LSM8	u6 snrna-associated sm-like protein lsm8. [swissprot;acc:o95777]	Measured	4590.18	5575.52	1.21466
	PCYT1A	cholinephosphate cytidylyltransferase a (ec 2.7.7.15) (phosphorylcholine transferase a) (ctp:phosphocholine cytidylyltransferase a) (ct a) (cct a) (cct-alpha). [swissprot;acc:p49585]	Ranked	241.373	267.352	1.10763
	SLC46A2	thymic stromal co-transporter. [refseq;acc:nm_033051]	Squared	26157.6	20236.2	1.29261
270	C16orf80	transcription factor iib. [refseq;acc:nm_013242]		64739.9	50300.6	1.28706
	CRKL	crk-like protein. [swissprot;acc:p46109]	Rooted	66.1064	74.1074	1.12103
	FIP1L1	fip1-like 1; rearranged in hypereosinophilia. [refseq;acc:nm_030917]	Measured	23640.2	19479.8	1.21358
	FLAD1	fad synthetase. [refseq;acc:nm_025207]	Ranked	241.373	267.352	1.10763
271	no value	bifunctional 3'-phosphoadenosine 5'-phosphosulfate synthethase 2 (paps synthethase 2) (papss 2) (sulfurylase kinase 2) (sk2) (sk 2) [includes: sulfate adenylyltransferase (ec 2.7.7.4) (sulfate adenylate transferase) (sat) (atp-sulfurylase); adenylylsulfate kinase (ec 2.7.1.25) (adenylylsulfate 3'-phosphotransferase) (aps kinase) (adenosine-5'-phosphosulfate 3'-phosphotransferase) (3'- phosphoadenosine-5'-phosphosulfate synthetase)]. [swissprot;acc:o95340]
	ABL1	proto-oncogene tyrosine-protein kinase abl1 (ec 2.7.1.112) (p150) (c-abl). [swissprot;acc:p00519]	Rooted	66.1064	74.1073	1.12103
	CHRAC1	chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0]	Measured	2554.89	3093.78	1.21092
	SFRS8	splicing factor, arginine/serine-rich 8 (suppressor of white apricot protein homolog). [swissprot;acc:q12872]	Squared	64739.9	50300.6	1.28706
272	FDX1	adrenodoxin, mitochondrial precursor (adrenal ferredoxin) (hepatoredoxin) (ferredoxin 1). [swissprot;acc:p10109]		36563.7	46971.1	1.28464
	FYN	proto-oncogene tyrosine-protein kinase fyn (ec 2.7.1.112) (p59-fyn) (syn) (slk). [swissprot;acc:p06241]	Rooted	66.1064	74.1074	1.12103
	HAT1	histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [swissprot;acc:o14929]	Measured	3858.52	4669.27	1.21012
	LGTN	ligatin (hepatocellular carcinoma-associated antigen 56). [swissprot;acc:p41214]	Ranked	241.373	267.352	1.10763
273	EIF5	eukaryotic translation initiation factor 5 (eif-5). [swissprot;acc:p55010]	Measured	3199.4	3870.8	1.20985
	FGR	proto-oncogene tyrosine-protein kinase fgr (ec 2.7.1.112) (p55-fgr) (c-fgr). [swissprot;acc:p09769]	Rooted	66.1064	74.1074	1.12103
	FLNB	filamin b, beta (actin binding protein 278); beta filamin; filamin 1 (actin-binding protein-280)-like; filamin b, beta (actin-binding protein-278); filamin b, beta. [refseq;acc:nm_001457]	Squared	16120.1	20665.7	1.28198
	PAPSS1	bifunctional 3'-phosphoadenosine 5'-phosphosulfate synthethase 1 (paps synthethase 1) (papss 1) (sulfurylase kinase 1) (sk1) (sk 1) [includes: sulfate adenylyltransferase (ec 2.7.7.4) (sulfate adenylate transferase) (sat) (atp-sulfurylase); adenylylsulfate kinase (ec 2.7.1.25) (adenylylsulfate 3'-phosphotransferase) (aps kinase) (adenosine-5'-phosphosulfate 3'-phosphotransferase) (3'- phosphoadenosine-5'-phosphosulfate synthetase)]. [swissprot;acc:o43252]	Ranked	241.373	267.352	1.10763
274	GRAP2	grb2-related adaptor protein 2 (gads protein) (growth factor receptor binding protein) (grblg) (grf40 adaptor protein) (grf-40) (grb-2-like protein) (grb2l) (grbx) (p38) (hematopoietic cell-associated adaptor protein grpl) (adapter protein grid) (sh3-sh2-sh3 adaptor mona). [swissprot;acc:o75791]	Rooted	66.1063	74.1068	1.12102
	POR	nadph-cytochrome p450 reductase (ec 1.6.2.4) (cpr) (p450r). [swissprot;acc:p16435]	Ranked	241.373	267.352	1.10763
	RBM15B	chromosome 3p21.1 gene sequence. [refseq;acc:nm_013286]	Measured	3119.98	2579.49	1.20953
	REV1	rev1-like; rev1 protein; rev1 (yeast homolog)- like. [refseq;acc:nm_016316]	Squared	16120.1	20665.7	1.28198
275	CUTL1	ccaat displacement protein (cdp) (cut-like 1). [swissprot;acc:p39880]	Rooted	66.1048	74.0977	1.12091
	PCYT1B	cholinephosphate cytidylyltransferase b (ec 2.7.7.15) (phosphorylcholine transferase b) (ctp:phosphocholine cytidylyltransferase b) (ct b) (cct b) (cct-beta). [swissprot;acc:q9y5k3]	Ranked	241.373	267.352	1.10763
	PRMT1	protein arginine n-methyltransferase 1 (ec 2.1.1.-) (interferon receptor 1-bound protein 4). [swissprot;acc:q99873]	Squared	16120.1	20665.7	1.28198
	RGS19	regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [swissprot;acc:p49795]	Measured	3119.98	2579.49	1.20953
276	CUTL2	homeobox protein cux-2 (cut-like 2) (fragment). [swissprot;acc:o14529]	Rooted	66.1046	74.0964	1.1209
	PRMT8	protein arginine n-methyltransferase 4 (ec 2.1.1.-). [swissprot;acc:q9nr22]	Squared	16120.1	20665.7	1.28198
	RBM15	putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37]	Measured	3119.98	2579.49	1.20953
	SNORA7A	60s ribosomal protein l32. [swissprot;acc:p02433]	Ranked	241.13	266.969	1.10716
277	no value	40s ribosomal protein s29. [swissprot;acc:p30054]		241.849	267.642	1.10665
	RGS20	regulator of g-protein signaling 20 (rgs20) (regulator of gz- selective protein signaling 1) (gz-selective gtpase-activating protein) (g(z)gap). [swissprot;acc:o76081]	Measured	3119.98	2579.49	1.20953
	RPS6KC1	ribosomal protein s6 kinase, 52kda, polypeptide 1; ribosomal protein s6 kinase, 52kd, polypeptide 1. [refseq;acc:nm_012424]	Rooted	65.9938	73.9449	1.12048
	SNRP70	u1 small nuclear ribonucleoprotein 70 kda (u1 snrnp 70 kda) (snrnp70) (u1-70k). [swissprot;acc:p08621]	Squared	16120.1	20665.7	1.28198
278	no value	filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333]
		ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464]	Rooted	65.9938	73.9449	1.12048
	LBX1	transcription factor lbx1. [swissprot;acc:p52954]	Measured	3119.98	2579.49	1.20953

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.