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

Results: HTML CSV LaTeX

Showing element 1525 to 1574 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	Hugo	Network Comparison Type	description	Interaction Map	red	network_comparison	green
382	no value	Subtracted	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	Low confidence	162.755	7.279	155.476
	DDX54		atp-dependent rna helicase mgc2835; atp-dependent rna helicase; apoptosis related protein apr-5; dead box helicase 97 kda. [refseq;acc:nm_024072]	High confidence	253.852	19.044	234.808
	MXI1	Divided	max interacting protein 1 (mxi1 protein). [swissprot;acc:p50539]	Low confidence	205.926	1.03713	198.554
	TAF7L		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]	High confidence	200.791	1.09328	183.66
383	HOXB4	Subtracted	homeobox protein hox-b4 (hox-2f) (hox-2.6). [swissprot;acc:p17483]	Low confidence	162.755	7.279	155.476
	MXD4	Divided	max-interacting transcriptional repressor mad4 (max-associated protein 4) (max dimerization protein 4). [swissprot;acc:q14582]		205.921	1.0371	198.554
	RBM39		rna-binding region containing protein 2 (hepatocellular carcinoma protein 1) (splicing factor hcc1). [swissprot;acc:q14498]	High confidence	237.862	1.09242	217.739
	TRUB1	Subtracted	trub pseudouridine (psi) synthase homolog 1. [refseq;acc:nm_139169]		236.245	18.868	255.113
384	no value		small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578]		227.575	18.819	208.756
	E2F1	Divided	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]		266.421	1.09083	244.236
	HOXC5	Subtracted	homeobox protein hox-c5 (hox-3d) (cp11). [swissprot;acc:q00444]	Low confidence	162.755	7.279	155.476
	RAB24	Divided	max dimerization protein 3; likely ortholog of mouse max dimerization protein 3. [refseq;acc:nm_031300]		205.918	1.03709	198.554
385	no value	Subtracted	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]		162.755	7.279	155.476
	E2F2	Divided	transcription factor e2f2 (e2f-2). [swissprot;acc:q14209]	High confidence	266.421	1.09083	244.236
	SNRPD3		small nuclear ribonucleoprotein sm d3 (snrnp core protein d3) (sm-d3). [swissprot;acc:p43331]	Low confidence	201.176	1.03708	193.984
	SNRPF	Subtracted	small nuclear ribonucleoprotein f (snrnp-f) (sm protein f) (sm-f) (smf). [swissprot;acc:q15356]	High confidence	227.575	18.819	208.756
386	HOXD4		homeobox protein hox-d4 (hox-4b) (hox-5.1) (hho.c13). [swissprot;acc:p09016]	Low confidence	162.755	7.279	155.476
	POLE4	Divided	dna polymerase epsilon p12 subunit (dna polymerase epsilon subunit 4). [swissprot;acc:q9nr33]		205.821	1.03691	198.494
	RPS14		40s ribosomal protein s14 (pro2640). [swissprot;acc:p06366]	High confidence	242.238	1.09029	264.11
	RPS9	Subtracted	40s ribosomal protein s9. [swissprot;acc:p46781]		238.986	18.798	257.784
387	no value	Divided	40s ribosomal protein s18 (ke-3) (ke3). [swissprot;acc:p25232]		242.238	1.09029	264.11
	ATG4A	Subtracted	cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]		56.6768	18.6763	75.3531
	HOXB5		homeobox protein hox-b5 (hox-2a) (hho.c10) (hu-1). [swissprot;acc:p09067]	Low confidence	162.755	7.279	155.476
	HTRA1	Divided	serine protease htra1 precursor (ec 3.4.21.-) (l56). [swissprot;acc:q92743]		200.057	1.0369	192.938
388	no value		small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578]	High confidence	227.575	1.09015	208.756
	HOXA5	Subtracted	homeobox protein hox-a5 (hox-1c). [swissprot;acc:p20719]	Low confidence	162.755	7.279	155.476
	HTRA3	Divided	probable serine protease htra3 precursor (ec 3.4.21.-). [swissprot;acc:p83110]		200.049	1.03683	192.942
	MAP1LC3B	Subtracted	microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8]	High confidence	56.7244	18.6704	75.3948
389	no value		homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	Low confidence	162.755	7.279	155.476
	HTRA4	Divided	probable serine protease htra4 precursor (ec 3.4.21.-). [swissprot;acc:p83105]		200.049	1.03683	192.942
	MAP1LC3A	Subtracted	microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492]	High confidence	56.7252	18.6702	75.3954
	SNRPF	Divided	small nuclear ribonucleoprotein f (snrnp-f) (sm protein f) (sm-f) (smf). [swissprot;acc:q15356]		227.575	1.09015	208.756
390	no value		solute carrier family 35, member e2. [refseq;acc:nm_182838]	Low confidence	203.647	1.03681	211.144
	ATG4B	Subtracted	cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]	High confidence	56.7841	18.6629	75.447
	HSD17B14		retinal short-chain dehydrogenase/reductase 3. [refseq;acc:nm_016246]	Low confidence	162.755	7.279	155.476
	MRPL13	Divided	60s ribosomal protein l13, mitochondrial (l13mt). [swissprot;acc:q9byd1]	High confidence	241.828	1.09011	263.62
391	no value	Subtracted	rna binding protein. [refseq;acc:nm_032509]	Low confidence	206.88	7.273	199.607
	HTRA2	Divided	serine protease htra2, mitochondrial precursor (ec 3.4.21.-) (high temperature requirement protein a2) (htra2) (omi stress-regulated endoprotease) (serine proteinase omi). [swissprot;acc:o43464]		200.046	1.03681	192.943
	RPS16		40s ribosomal protein s16. [swissprot;acc:p17008]	High confidence	241.828	1.09011	263.62
	TXNL4A	Subtracted	spliceosomal u5 snrnp-specific 15 kda protein (dim1 protein homolog) (thioredoxin-like u5 snrnp protein u5-15kd). [swissprot;acc:o14834]		225.719	18.647	207.072
392	LEPR		leptin receptor gene-related protein (ob-r gene related protein) (ob- rgrp). [swissprot;acc:o15243]	Low confidence	206.88	7.273	199.607
	NUBP1	Divided	nucleotide-binding protein 1 (nbp 1). [swissprot;acc:p53384]		200.894	1.03679	193.766
	POLR3C	Subtracted	polymerase (rna) iii (dna directed) (62kd). [refseq;acc:nm_006468]	High confidence	239.092	18.613	257.705
	RPL13A	Divided	60s ribosomal protein l13a (23 kda highly basic protein). [swissprot;acc:p40429]		241.83	1.09008	263.615
393	no value		small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578]	Low confidence	201.334	1.03651	194.242
	LEPROTL1	Subtracted	leptin receptor overlapping transcript-like 1 (my047 protein). [swissprot;acc:o95214]		206.88	7.273	199.607
	POLR3F		dna-directed rna polymerases iii 39 kda polypeptide (ec 2.7.7.6) (rna polymerase iii c39 subunit). [swissprot;acc:q9h1d9]	High confidence	238.921	18.406	257.327
	TXNL4A	Divided	spliceosomal u5 snrnp-specific 15 kda protein (dim1 protein homolog) (thioredoxin-like u5 snrnp protein u5-15kd). [swissprot;acc:o14834]		225.719	1.09005	207.072
394	CLTC	Subtracted	clathrin heavy chain 1 (clh-17). [swissprot;acc:q00610]		207.889	18.337	226.226
	CRNKL1	Divided	crooked neck-like protein 1 (crooked neck homolog) (hcrn) (cgi-201) (mstp021). [swissprot;acc:q9bzj0]	Low confidence	204.815	1.03648	197.606

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.