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	Network Comparison Type	Value Type	Hugo	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 1501 to 1550 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	description	Network Comparison Type	Hugo	Interaction Map	red	green	network_comparison
376	adenylate cyclase, type v (ec 4.6.1.1) (atp pyrophosphate-lyase) (adenylyl cyclase) (fragment). [swissprot;acc:o95622]	Subtracted	ADCY5	High confidence	248.152	267.226	19.074
	nocturnin (ccr4 protein homolog). [swissprot;acc:q9uk39]	Divided	CCRN4L	Low confidence	209.328	201.83	1.03715
	probable atp-dependent 61 kda nucleolar rna helicase (dead-box protein 21). [swissprot;acc:q9ny93]		DDX56	High confidence	257.017	234.945	1.09395
	x-linked protein sts1769. [swissprot;acc:q99871]	Subtracted	TREX2	Low confidence	211.253	203.883	7.37
377	dna-directed rna polymerase i largest subunit (ec 2.7.7.6) (rna polymerase i 194 kda subunit) (rpa194). [swissprot;acc:o95602]	Divided	POLR1A	High confidence	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
	leucine-rich repeat-containing protein 15 precursor (hlib). [swissprot;acc:q8tf66]	Subtracted	LRRC15	High confidence	248.152	267.226	19.074
	three prime repair exonuclease 1 isoform c; deoxyribonuclease iii, dnaq/mutd (e. coli)-like; 3' repair exonuclease 1; atr interacting protein. [refseq;acc:nm_032166]		ATRIP	Low confidence	211.253	203.883	7.37
378	60s ribosomal protein l30. [swissprot;acc:p04645]	Divided	RPL30	High confidence	242.593	265.365	1.09387
	fem-1 homolog b; fem-1-like death receptor binding protein; fem-1 (c.elegans) homolog b. [refseq;acc:nm_015322]	Subtracted	FEM1B		248.152	267.226	19.074
	l-lactate dehydrogenase c chain (ec 1.1.1.27) (ldh-c) (ldh testis subunit) (ldh-x). [swissprot;acc:p07864]	Divided	LDHC	Low confidence	205.928	198.554	1.03714
	solute carrier family 35, member e1. [refseq;acc:nm_024881]	Subtracted	SLC35E1		203.661	211.03	7.369
379	adenylate kinase isoenzyme 2, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p54819]	Divided	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
	leucine-rich repeat protein lrrc3 precursor. [swissprot;acc:q9by71]	Subtracted	LRRC3	High confidence	248.152	267.226	19.074
	max-interacting transcriptional repressor mad4 (max-associated protein 4) (max dimerization protein 4). [swissprot;acc:q14582]		MXD4	Low confidence	205.921	198.554	7.367
380	l-lactate dehydrogenase b chain (ec 1.1.1.27) (ldh-b) (ldh heart subunit) (ldh-h). [swissprot;acc:p07195]	Divided	LDHB		205.928		1.03714
	laminin gamma-1 chain precursor (laminin b2 chain). [swissprot;acc:p11047]	Subtracted	LAMC1	High confidence	248.152	267.226	19.074
	max dimerization protein 3; likely ortholog of mouse max dimerization protein 3. [refseq;acc:nm_031300]		RAB24	Low confidence	205.918	198.554	7.364
	suppressor of ty 5 homolog; suppressor of ty (s.cerevisiae) 5 homolog. [refseq;acc:nm_003169]	Divided	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
	dna polymerase epsilon p12 subunit (dna polymerase epsilon subunit 4). [swissprot;acc:q9nr33]	Subtracted	POLE4		205.821	198.494	7.327
	thymic stromal co-transporter. [refseq;acc:nm_033051]		SLC46A2	High confidence	248.152	267.226	19.074
	transcription initiation factor tfiid 55 kda subunit (tafii-55) (tafii55). [swissprot;acc:q15545]	Divided	TAF7		200.586	183.423	1.09357
382	atp-dependent rna helicase mgc2835; atp-dependent rna helicase; apoptosis related protein apr-5; dead box helicase 97 kda. [refseq;acc:nm_024072]	Subtracted	DDX54		253.852	234.808	19.044
	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]		no value	Low confidence	162.755	155.476	7.279
	max interacting protein 1 (mxi1 protein). [swissprot;acc:p50539]	Divided	MXI1		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	homeobox protein hox-b4 (hox-2f) (hox-2.6). [swissprot;acc:p17483]	Subtracted	HOXB4	Low confidence	162.755	155.476	7.279
	max-interacting transcriptional repressor mad4 (max-associated protein 4) (max dimerization protein 4). [swissprot;acc:q14582]	Divided	MXD4		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
	trub pseudouridine (psi) synthase homolog 1. [refseq;acc:nm_139169]	Subtracted	TRUB1		236.245	255.113	18.868
384	homeobox protein hox-c5 (hox-3d) (cp11). [swissprot;acc:q00444]		HOXC5	Low confidence	162.755	155.476	7.279
	max dimerization protein 3; likely ortholog of mouse max dimerization protein 3. [refseq;acc:nm_031300]	Divided	RAB24		205.918	198.554	1.03709
	small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578]	Subtracted	no value	High confidence	227.575	208.756	18.819
	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]	Divided	E2F1		266.421	244.236	1.09083
385	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	Subtracted	no value	Low confidence	162.755	155.476	7.279
	small nuclear ribonucleoprotein f (snrnp-f) (sm protein f) (sm-f) (smf). [swissprot;acc:q15356]		SNRPF	High confidence	227.575	208.756	18.819
	small nuclear ribonucleoprotein sm d3 (snrnp core protein d3) (sm-d3). [swissprot;acc:p43331]	Divided	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
	40s ribosomal protein s9. [swissprot;acc:p46781]	Subtracted	RPS9		238.986	257.784	18.798
	dna polymerase epsilon p12 subunit (dna polymerase epsilon subunit 4). [swissprot;acc:q9nr33]	Divided	POLE4	Low confidence	205.821	198.494	1.03691
	homeobox protein hox-d4 (hox-4b) (hox-5.1) (hho.c13). [swissprot;acc:p09016]	Subtracted	HOXD4		162.755	155.476	7.279
387	40s ribosomal protein s18 (ke-3) (ke3). [swissprot;acc:p25232]	Divided	no value	High confidence	242.238	264.11	1.09029
	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]	Subtracted	ATG4A		56.6768	75.3531	18.6763
	homeobox protein hox-b5 (hox-2a) (hho.c10) (hu-1). [swissprot;acc:p09067]		HOXB5	Low confidence	162.755	155.476	7.279
	serine protease htra1 precursor (ec 3.4.21.-) (l56). [swissprot;acc:q92743]	Divided	HTRA1		200.057	192.938	1.0369
388	homeobox protein hox-a5 (hox-1c). [swissprot;acc:p20719]	Subtracted	HOXA5		162.755	155.476	7.279
	microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8]		MAP1LC3B	High confidence	56.7244	75.3948	18.6704

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.