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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Network Comparison Type	Rank	description	Gene	Value Type	Hugo	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 723 to 772 of 16578 in total

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

Rank	description	Hugo	Interaction Map	red	green	network_comparison
362	apical-like protein (apxl protein). [swissprot;acc:q13796]	SHROOM2	High confidence	231.492	211.136	1.09641
	secreted modular calcium-binding protein 2; smooth muscle associated protein 2. [refseq;acc:nm_022138]	SMOC2	Low confidence	204.231	196.773	1.0379
363	choline dehydrogenase. [refseq;acc:nm_018397]	CHDH
	shroom-related protein; f-actin-binding protein; likely ortholog of mouse shroom. [refseq;acc:nm_020859]	SHROOM3	High confidence	231.481	211.131	1.09639
364	dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8]	DGCR14	Low confidence	212.235	204.495	1.03785
	dna-directed rna polymerase ii 140 kda polypeptide (ec 2.7.7.6) (rna polymerase ii subunit 2) (rpb2). [swissprot;acc:p30876]	POLR2B	High confidence	243.208	266.617	1.09625
365	60s ribosomal protein l36, mitochondrial precursor (l36mt) (brca1- interacting protein 1). [swissprot;acc:q9p0j6]	MRPL36		242.744	266.07	1.09609
	sperm associated antigen 7. [refseq;acc:nm_004890]	SPAG7	Low confidence	117.525	121.959	1.03773
366	40s ribosomal protein s5. [swissprot;acc:p46782]	RPS5	High confidence	242.473	265.756	1.09602
	retinoic acid induced 17; pias-like protein hzimp10. [refseq;acc:nm_020338]	ZMIZ1	Low confidence	207.433	199.944	1.03746
367	heterogeneous nuclear ribonucleoprotein m (hnrnp m). [swissprot;acc:p52272]	HNRPM	High confidence	234.146	256.627	1.09601
	ponsin; sh3-domain protein 5 (ponsin). [refseq;acc:nm_015385]	SORBS1	Low confidence	206.945	199.503	1.0373
368	spry domain-containing socs box protein ssb-4. [refseq;acc:nm_080862]	SPSB4		219.655	211.763	1.03727
	trna pseudouridine synthase a (ec 4.2.1.70) (pseudouridylate synthase i) (pseudouridine synthase i) (uracil hydrolyase). [swissprot;acc:q9y606]	PUS1	High confidence	242.66	265.715	1.09501
369	60s ribosomal protein l12, mitochondrial precursor (l12mt) (5c5-2). [swissprot;acc:p52815]	MRPL12		242.159	265.104	1.09475
	mad protein (max dimerizer). [swissprot;acc:q05195]	MXD1	Low confidence	205.943	198.554	1.03721
370	af-4 protein (proto-oncogene af4) (fel protein). [swissprot;acc:p51825]	AFF1		219.597	211.722	1.0372
	nudix (nucleoside diphosphate linked moiety x)-type motif 12. [refseq;acc:nm_031438]	NUDT12	High confidence	242.159	265.104	1.09475
371	fragile x mental retardation 2 protein (protein fmr-2) (fmr2p) (ox19 protein) (fragile x e mental retardation syndrome protein). [swissprot;acc:p51816]	AFF2	Low confidence	219.599	211.723	1.0372
	ribosomal protein s6 kinase, 52kda, polypeptide 1; ribosomal protein s6 kinase, 52kd, polypeptide 1. [refseq;acc:nm_012424]	RPS6KC1	High confidence	186.52	170.42	1.09447
372	laf-4 protein (lymphoid nuclear protein related to af4). [swissprot;acc:p51826]	AFF3	Low confidence	219.598	211.722	1.0372
	ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464]	no value	High confidence	186.52	170.42	1.09447
373	60s ribosomal protein l11, mitochondrial precursor (l11mt) (cgi-113). [swissprot;acc:q9y3b7]	MRPL11		242.37	265.255	1.09442
	all1 fused gene from 5q31. [refseq;acc:nm_014423]	AFF4	Low confidence	219.598	211.722	1.0372
374	excision repair protein ercc-6 (cockayne syndrome protein csb). [swissprot;acc:q03468]	PGBD3		210.34	202.797	1.03719
	transcription factor dp-2 (e2f dimerization partner 2). [swissprot;acc:q14188]	TFDP2	High confidence	267.208	244.168	1.09436
375	dna-directed rna polymerase iii largest subunit (ec 2.7.7.6) (rpc155) (rpc1). [swissprot;acc:o14802]	POLR3A		242.686	265.516	1.09407
	spry domain-containing socs box protein ssb-1. [refseq;acc:nm_025106]	SPSB1	Low confidence	219.556	211.692	1.03715
376	nocturnin (ccr4 protein homolog). [swissprot;acc:q9uk39]	CCRN4L		209.328	201.83
	probable atp-dependent 61 kda nucleolar rna helicase (dead-box protein 21). [swissprot;acc:q9ny93]	DDX56	High confidence	257.017	234.945	1.09395
377	dna-directed rna polymerase i largest subunit (ec 2.7.7.6) (rna polymerase i 194 kda subunit) (rpa194). [swissprot;acc:o95602]	POLR1A		242.691	265.481	1.09391
	l-lactate dehydrogenase a-like (ec 1.1.1.27). [swissprot;acc:q9byz2]	LDHAL6B	Low confidence	205.928	198.554	1.03714
378	60s ribosomal protein l30. [swissprot;acc:p04645]	RPL30	High confidence	242.593	265.365	1.09387
	l-lactate dehydrogenase c chain (ec 1.1.1.27) (ldh-c) (ldh testis subunit) (ldh-x). [swissprot;acc:p07864]	LDHC	Low confidence	205.928	198.554	1.03714
379	adenylate kinase isoenzyme 2, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p54819]	AK2	High confidence	241.509	264.163	1.0938
	l-lactate dehydrogenase a chain (ec 1.1.1.27) (ldh-a) (ldh muscle subunit) (ldh-m). [swissprot;acc:p00338]	LDHA	Low confidence	205.928	198.554	1.03714
380	l-lactate dehydrogenase b chain (ec 1.1.1.27) (ldh-b) (ldh heart subunit) (ldh-h). [swissprot;acc:p07195]	LDHB
	suppressor of ty 5 homolog; suppressor of ty (s.cerevisiae) 5 homolog. [refseq;acc:nm_003169]	no value	High confidence	242.109	264.79	1.09368
381	clip-associating protein 1; drosophila 'multiple asters' (mast)-like homolog 1. [refseq;acc:nm_015282]	CLASP1	Low confidence	205.928	198.554	1.03714
	transcription initiation factor tfiid 55 kda subunit (tafii-55) (tafii55). [swissprot;acc:q15545]	TAF7	High confidence	200.586	183.423	1.09357
382	max interacting protein 1 (mxi1 protein). [swissprot;acc:p50539]	MXI1	Low confidence	205.926	198.554	1.03713
	tata box binding protein-associated factor, rna polymerase ii, q; taf7-like rna polymerase ii, tata box binding protein (tbp)-associated factor, 50 kd; tbp-associated factor, rna polymerase ii, q. [refseq;acc:nm_024885]	TAF7L	High confidence	200.791	183.66	1.09328
383	max-interacting transcriptional repressor mad4 (max-associated protein 4) (max dimerization protein 4). [swissprot;acc:q14582]	MXD4	Low confidence	205.921	198.554	1.0371
	rna-binding region containing protein 2 (hepatocellular carcinoma protein 1) (splicing factor hcc1). [swissprot;acc:q14498]	RBM39	High confidence	237.862	217.739	1.09242
384	max dimerization protein 3; likely ortholog of mouse max dimerization protein 3. [refseq;acc:nm_031300]	RAB24	Low confidence	205.918	198.554	1.03709
	transcription factor e2f1 (e2f-1) (retinoblastoma binding protein 3) (rbbp-3) (prb-binding protein e2f-1) (pbr3) (retinoblastoma-associated protein 1) (rbap-1). [swissprot;acc:q01094]	E2F1	High confidence	266.421	244.236	1.09083
385	small nuclear ribonucleoprotein sm d3 (snrnp core protein d3) (sm-d3). [swissprot;acc:p43331]	SNRPD3	Low confidence	201.176	193.984	1.03708
	transcription factor e2f2 (e2f-2). [swissprot;acc:q14209]	E2F2	High confidence	266.421	244.236	1.09083
386	40s ribosomal protein s14 (pro2640). [swissprot;acc:p06366]	RPS14		242.238	264.11	1.09029
	dna polymerase epsilon p12 subunit (dna polymerase epsilon subunit 4). [swissprot;acc:q9nr33]	POLE4	Low confidence	205.821	198.494	1.03691

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.