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 2108 to 2157 of 8289 in total

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

Rank	Hugo	description	Interaction Map	red	green	network_comparison
1054	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]	Low confidence	210.793	205.841	1.02406
1055	ASNSD1	hcv ns3-transactivated protein 1. [refseq;acc:nm_019048]	High confidence	219.01	212.468	1.03079
	NME3	nucleoside diphosphate kinase 3 (ec 2.7.4.6) (ndk 3) (ndp kinase 3) (nm23-h3) (dr-nm23). [swissprot;acc:q13232]	Low confidence	199.656	194.966	1.02406
1056	ATP6V1A	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]	High confidence	219.01	212.468	1.03079
	FARS2	phenylalanine-trna synthetase. [refseq;acc:nm_006567]	Low confidence	202.569	197.815	1.02403
1057	ASNS	asparagine synthetase [glutamine-hydrolyzing] (ec 6.3.5.4) (glutamine- dependent asparagine synthetase) (ts11 cell cycle control protein). [swissprot;acc:p08243]	High confidence	219.01	212.468	1.03079
	FARSB	phenylalanyl-trna synthetase beta chain (ec 6.1.1.20) (phenylalanine-- trna ligase beta chain) (phers) (hspc173). [swissprot;acc:q9nsd9]	Low confidence	202.569	197.815	1.02403
1058	ATXN2L	ataxin 2 related protein isoform a; ataxin-2 domain protein. [refseq;acc:nm_007245]	High confidence	228.105	221.293	1.03078
	TRAPPC1	bet5 homolog (multiple myeloma protein 2) (mum-2). [swissprot;acc:q9y5r8]	Low confidence	198.804	194.142	1.02401
1059	no value	ataxin 2; olivopontocerebellar ataxia 2, autosomal dominant. [refseq;acc:nm_002973]	High confidence	228.105	221.293	1.03078
	SLC7A4	cationic amino acid transporter-4 (cat-4) (cat4). [swissprot;acc:o43246]	Low confidence	200.552	195.852	1.024
1060	NLK	nemo-like kinase; likely ortholog of mouse nemo like kinase. [refseq;acc:nm_016231]	High confidence	218.162	211.648	1.03078
	SYT12	synaptotagmin xii (sytxii). [swissprot;acc:q8iv01]	Low confidence	203.527	198.76	1.02398
1061	ERC1	elks protein. [refseq;acc:nm_015064]	High confidence	218.162	211.648	1.03078
	YBX2	germ cell specific y-box binding protein; contrin. [refseq;acc:nm_015982]	Low confidence	204.104	199.324	1.02398
1062	no value	dna-crosslink repair gene snm1. [refseq;acc:nm_014881]		203.048	198.295	1.02397
	ZNF174	zinc finger protein 174 (aw-1). [swissprot;acc:q15697]	High confidence	269.963	278.239	1.03066
1063	no value	t-cell activation protein phosphatase 2c. [refseq;acc:nm_139283]	Low confidence	203.048	198.295	1.02397
		zinc finger imprinted 2. [swissprot;acc:q9nzv7]	High confidence	269.96	278.232	1.03064
1064	COQ7	ubiquinone biosynthesis protein coq7 homolog (coenzyme q biosynthesis protein 7 homolog) (timing protein clk-1 homolog). [swissprot;acc:q99807]	Low confidence	201.995	197.269	1.02396
	ZNF24	zinc finger protein 24 (zinc finger protein 191) (zinc finger protein kox17) (retinoic acid suppression protein a) (rsg-a). [swissprot;acc:p17028]	High confidence	269.955	278.221	1.03062
1065	ABCF2	atp-binding cassette, sub-family f, member 2 (iron inhibited abc transporter 2) (hussy-18). [swissprot;acc:q9ug63]	Low confidence	201.115	196.411	1.02395
	ZSCAN12	zinc finger protein 305. [swissprot;acc:o43309]	High confidence	269.954	278.219	1.03062
1066	YPEL2	yippee-like protein 2 (digeorge syndrome-related protein fksg4). [swissprot;acc:q96qa6]	Low confidence	187.762	183.372	1.02394
	ZNF18	zinc finger protein 18 (zinc finger protein kox11) (fragment). [swissprot;acc:p17022]	High confidence	269.956	278.223	1.03062
1067	YPEL4	yippee-like protein 5. [swissprot;acc:q96ns1]	Low confidence	187.77	183.38	1.02394
	ZNF215	zinc finger protein 215 (bwscr2 associated zinc-finger protein 2) (baz 2). [swissprot;acc:q9ul58]	High confidence	269.956	278.223	1.03062
1068	UTP3	disrupter of silencing 10. [refseq;acc:nm_020368]	Low confidence	199.958	195.283	1.02394
	ZNF274	zinc finger protein 274 (zinc finger protein sp2114) (zinc finger protein hfb101) (zinc finger protein zfp2) (zf2). [swissprot;acc:q96gc6]	High confidence	269.953	278.215	1.03061
1069	YPEL3	yippee-like protein 3 (digeorge syndrome-related protein fksg5). [swissprot;acc:q9bsj4]	Low confidence	187.761	183.371	1.02394
	ZNF232	zinc finger protein 232. [swissprot;acc:q9uny5]	High confidence	269.954	278.218	1.03061
1070	SH3GL2	sh3-containing grb2-like protein 2 (sh3 domain protein 2a) (endophilin 1) (een-b1). [swissprot;acc:q99962]	Low confidence	203.828	199.067	1.02392
	ZNF394	zinc finger protein 99. [refseq;acc:nm_032164]	High confidence	269.954	278.218	1.03061
1071	no value	dna-directed rna polymerase i 16 kda polypeptide (ec 2.7.7.6) (rpa16). [swissprot;acc:q9y2s0]		231.277	238.356
	TRIT1	trna isopentenylpyrophosphate transferase. [refseq;acc:nm_017646]	Low confidence	200.19	195.515	1.02391
1072	RWDD1	rwd domain containing 1; ptd013 protein; cgi-24 protein. [refseq;acc:nm_015952]		203.286	198.543	1.02389
	ZNF213	zinc finger protein 213 (putative transcription factor cr53). [swissprot;acc:o14771]	High confidence	269.954	278.217	1.03061
1073	HNRPUL1	e1b-55kda-associated protein 5 isoform a. [refseq;acc:nm_007040]	Low confidence	210.723	205.809	1.02388
	WBP2	ww domain binding protein 2 (wbp-2). [swissprot;acc:q969t9]	High confidence	216.901	210.485	1.03048
1074	COPB2	coatomer beta' subunit (beta'-coat protein) (beta'-cop) (p102). [swissprot;acc:p35606]		174.387	179.697	1.03045
	FDX1	adrenodoxin, mitochondrial precursor (adrenal ferredoxin) (hepatoredoxin) (ferredoxin 1). [swissprot;acc:p10109]	Low confidence	191.57	187.103	1.02387
1075	no value	adenosine deaminase (ec 3.5.4.4) (adenosine aminohydrolase). [swissprot;acc:p00813]		202.317	197.601
	COPG	coatomer gamma subunit (gamma-coat protein) (gamma-cop). [swissprot;acc:q9y678]	High confidence	174.387	179.697	1.03045
1076	COPZ1	coatomer zeta-1 subunit (zeta-1 coat protein) (zeta-1 cop) (cgi-120) (hspc181). [swissprot;acc:q9y3c3]
	SGCZ	sarcoglycan zeta; zeta-sarcoglycan. [refseq;acc:nm_139167]	Low confidence	206.757	201.939	1.02386
1077	ARCN1	coatomer delta subunit (delta-coat protein) (delta-cop) (archain). [swissprot;acc:p48444]	High confidence	174.387	179.697	1.03045
	FZD5	frizzled 5 precursor (frizzled-5) (fz-5) (hfz5) (fze5). [swissprot;acc:q13467]	Low confidence	206.587	201.773	1.02386
1078	KDELR2	er lumen protein retaining receptor 2 (kdel receptor 2) (elp-1). [swissprot;acc:p33947]		202.92	198.191
	PPIE	peptidyl-prolyl cis-trans isomerase e (ec 5.2.1.8) (ppiase e) (rotamase e) (cyclophilin e) (cyclophilin 33). [swissprot;acc:q9unp9]	High confidence	174.387	179.697	1.03045
1079	COPZ2	coatomer zeta-2 subunit (zeta-2 coat protein) (zeta-2 cop). [swissprot;acc:q9p299]

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.