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	Network Comparison Type	Value Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 2901 to 2950 of 12912 in total

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

Rank	description	Hugo	Value Type	red	green	network_comparison
726	dna mismatch repair protein mlh3 (mutl protein homolog 3). [swissprot;acc:q9uhc1]	MLH3	Measured	6327.86	7064.13	1.11635
	ftsj homolog 3; likely ortholog of mouse ectoplacental cone, invasive trophoblast giant cells, extraembryonic ectoderm and chorion sequence 3. [refseq;acc:nm_017647]	FTSJ3	Ranked	244.495	232.419	1.05196
	secretory pathway component sec31b-1. [refseq;acc:nm_015490]	SEC31B	Squared	25911.7	30282.1	1.16867
	transducin beta-like 3; wd-repeat protein sazd. [refseq;acc:nm_006453]	TBL3	Rooted	51.4482	55.0529	1.07006
727	60s ribosomal protein l24 (l30). [swissprot;acc:p38663]	RPL24	Measured	7087.23	7911.25	1.11627
	probable serine/threonine-protein kinase kiaa0537 (ec 2.7.1.-). [swissprot;acc:o60285]	NUAK1	Ranked	208.873	219.71	1.05188
	splicing factor 3a subunit 3 (spliceosome associated protein 61) (sap 61) (sf3a60). [swissprot;acc:q12874]	SF3A3	Rooted	59.7414	63.909	1.06976
	vacuolar atp synthase subunit h (ec 3.6.3.14) (v-atpase h subunit) (vacuolar proton pump h subunit) (v-atpase 50/57 kda subunits) (vacuolar proton pump subunit sfd) (cgi-11). [swissprot;acc:q9ui12]	ATP6V1H	Squared	25911.5	30281.9	1.16867
728	hcv ns3-transactivated protein 1. [refseq;acc:nm_019048]	ASNSD1	Measured	6000.23	6696.89	1.11611
	n-acetyllactosaminide beta-1,3-n-acetylglucosaminyltransferase (ec 2.4.1.149) (poly-n-acetyllactosamine extension enzyme) (i-beta- 1,3-n-acetylglucosaminyltransferase) (ignt) (udp-glcnac:betagal beta- 1,3-n-acetylglucosaminyltransferase 6). [swissprot;acc:o43505]	B3GNT1	Ranked	208.874	219.708	1.05187
	splicing factor 3 subunit 1 (spliceosome associated protein 114) (sap 114) (sf3a120). [swissprot;acc:q15459]	SF3A1	Rooted	59.7414	63.909	1.06976
	vacuolar atp synthase subunit b, brain isoform (ec 3.6.3.14) (v-atpase b2 subunit) (vacuolar proton pump b isoform 2) (endomembrane proton pump 58 kda subunit) (ho57). [swissprot;acc:p21281]	ATP6V1B2	Squared	25911.8	30282.2	1.16866
729	exocyst complex component sec15a. [swissprot;acc:q8tag9]	EXOC6	Rooted	62.5069	66.8603	1.06965
	huntingtin interacting protein e; huntingtin interactor protein e. [refseq;acc:nm_007076]	no value	Ranked	208.874	219.708	1.05187
	vacuolar atp synthase catalytic subunit a, ubiquitous isoform (ec 3.6.3.14) (v-atpase a subunit 1) (vacuolar proton pump alpha subunit 1) (v-atpase 69 kda subunit 1) (isoform va68). [swissprot;acc:p38606]	ATP6V1A	Measured	6000.23	6696.89	1.11611
	vacuolar atp synthase subunit b, kidney isoform (ec 3.6.3.14) (v- atpase b1 subunit) (vacuolar proton pump b isoform 1) (endomembrane proton pump 58 kda subunit). [swissprot;acc:p15313]	ATP6V1B1	Squared	25910.8	30280.9	1.16866
730	asparagine synthetase [glutamine-hydrolyzing] (ec 6.3.5.4) (glutamine- dependent asparagine synthetase) (ts11 cell cycle control protein). [swissprot;acc:p08243]	ASNS	Measured	6000.23	6696.89	1.11611
	dihydropyrimidine dehydrogenase [nadp+] precursor (ec 1.3.1.2) (dpd) (dhpdhase) (dihydrouracil dehydrogenase) (dihydrothymine dehydrogenase). [swissprot;acc:q12882]	no value	Squared	24644.9	28800.7	1.16863
	exocyst complex component sec15b. [swissprot;acc:q9y2d4]	EXOC6B	Rooted	62.5729	66.9286	1.06961
	mitochondrial import inner membrane translocase subunit tim10. [swissprot;acc:q9y5j8]	TIMM10	Ranked	208.874	219.708	1.05187
731	cyclin-dependent kinases regulatory subunit 1 (cks-1) (sid1334) (pnas-16 / pnas-143). [swissprot;acc:p33551]	no value	Rooted	98.2298	91.8648	1.06929
	fumarate hydratase, mitochondrial precursor (ec 4.2.1.2) (fumarase). [swissprot;acc:p07954]	FH	Ranked	208.874	219.708	1.05187
	methyltransferase like 2. [refseq;acc:nm_018396]	no value	Measured	13241.4	11864	1.1161
	vinculin (metavinculin). [swissprot;acc:p18206]	VCL	Squared	27463	32090.3	1.16849
732	cytoplasmic dynein light chain (t-complex testis-specific protein 1 homolog) (protein cw-1). [swissprot;acc:q15763]	DYNLT1	Measured	13241.4	11864	1.1161
	polymerase (rna) iii (dna directed) (32kd). [refseq;acc:nm_006467]	POLR3G	Rooted	51.8444	48.4963	1.06904
	septin-like protein kiaa0202 (fragment). [swissprot;acc:q92599]	SEPT8	Ranked	124.434	118.318	1.05169
	vacuolar proton translocating atpase 116 kda subunit a isoform 2 (v-atpase 116-kda isoform a2) (tj6). [swissprot;acc:q9y487]	ATP6V0A2	Squared	26029.8	30414.4	1.16845
733	acyl-coa dehydrogenase, very-long-chain specific, mitochondrial precursor (ec 1.3.99.-) (vlcad). [swissprot;acc:p49748]	ACADVL	Ranked	164	155.961	1.05154
	fzr1 protein; fizzy-related protein; cdc20-like 1b. [refseq;acc:nm_016263]	FZR1	Measured	13241.4	11864	1.1161
	nucleolar rna-associated protein alpha isoform. [refseq;acc:nm_022917]	NOL6	Rooted	52.0099	55.5904	1.06884
	vacuolar proton translocating atpase 116 kda subunit a isoform 3 (v- atpase 116-kda isoform a3) (osteoclastic proton pump 116 kda subunit) (oc-116 kda) (oc116) (t-cell immune regulator 1) (t cell immune response cdna7 protein) (tirc7). [swissprot;acc:q13488]	TCIRG1	Squared	26029.1	30413.6	1.16845
734	loh1cr12. [refseq;acc:nm_058169]	LOH12CR1	Rooted	57.805	61.7803	1.06877
	presenilin-like protein 2 (ec 3.4.99.-) (sppl2a protein). [swissprot;acc:q8tct8]	no value	Ranked	232.601	244.534	1.0513
	proprotein convertase subtilisin/kexin type 5 precursor (ec 3.4.21.-) (proprotein convertase pc5) (subtilisin/kexin-like protease pc5) (convertase pc5) (pc6) (hpc6). [swissprot;acc:q92824]	PCSK5	Measured	13241.4	11864	1.1161
	vacuolar proton translocating atpase 116 kda subunit a isoform 1 (clathrin-coated vesicle/synaptic vesicle proton pump 116 kda subunit) (vacuolar proton pump subunit 1) (vacuolar adenosine triphosphatase subunit ac116). [swissprot;acc:q93050]	ATP6V0A1	Squared	26032.5	30417.7	1.16845
735	atpase, h+ transporting, lysosomal v0 subunit a isoform 4; vacuolar proton pump 116 kda accessory subunit; vacuolar proton pump, subunit 2; h(+)-transporting two-sector atpase, noncatalytic accessory protein 1b; atpase, h+ transporting, lysosomal (vacuolar proton pump) non-catalytic accessory protein 1b; renal tubular acidosis; atpase, h+ transporting, lysosomal (vacuolar proton pump) non-catalytic accessory protein 2 (38kd). [refseq;acc:nm_020632]	ATP6V0A4		26030.5	30415.2	1.16844
	gtp-binding nuclear protein ran (tc4) (ran gtpase) (androgen receptor- associated protein 24). [swissprot;acc:p17080]	RANP1	Ranked	232.601	244.534	1.0513
	unr protein. [swissprot;acc:o75534]	CSDE1	Rooted	57.805	61.7803	1.06877
	vacuolar atp synthase 16 kda proteolipid subunit (ec 3.6.3.14). [swissprot;acc:p27449]	ATP6V0C	Measured	5768.32	6434.78	1.11554
736	presenilin-like protein 1 (ec 3.4.99.-) (sppl2b protein). [swissprot;acc:q8tct7]	no value	Ranked	232.601	244.534	1.0513
	putative sialoglycoprotease type 2. [refseq;acc:nm_022353]	OSGEPL1	Squared	22017.1	25721.9	1.16827
	sarcoglycan zeta; zeta-sarcoglycan. [refseq;acc:nm_139167]	SGCZ	Measured	5768.32	6434.78	1.11554
	wd-repeat protein 3. [swissprot;acc:q9unx4]	WDR3	Rooted	51.5438	55.0853	1.06871
737	golgi complex associated protein 1; golgi resident protein gcp60; peripherial benzodiazepine receptor associated protein; golgi phosphoprotein 1; pbr associated protein; pka (rialpha)-associated protein. [refseq;acc:nm_022735]	ACBD3	Measured	5768.32	6434.78	1.11554
	pnas-18. [sptrembl;acc:q9bzu3]	no value	Rooted	97.8205	91.5467	1.06853
	septin 10 isoform 1. [refseq;acc:nm_144710]	SEPT10	Ranked	125.526	119.402	1.05129
	transducin-like enhancer protein 2 (esg2). [swissprot;acc:q04725]	TLE2	Squared	31479.4	36770.8	1.16809
738	delta-sarcoglycan (sg-delta) (35 kda dystrophin-associated glycoprotein) (35dag). [swissprot;acc:q92629]	SGCD	Measured	5768.32	6434.78	1.11554
	syntaxin 7. [swissprot;acc:o15400]	STX7	Rooted	61.5022	65.7076	1.06838

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.