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	Value Type	Network Comparison Type	Interaction Map	Filtered	red	network_comparison	green

Results: HTML CSV LaTeX

Showing element 1358 to 1407 of 6456 in total

Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1

Rank	description	Hugo	Network Comparison Type	red	network_comparison	green
679	sorting nexin 5. [swissprot;acc:q9y5x3]	SNX5	Subtracted	208.482	11.693	220.175
680	homeobox protein hox-b4 (hox-2f) (hox-2.6). [swissprot;acc:p17483]	HOXB4	Divided	132.413	1.05602	125.389
	sr rich protein. [refseq;acc:nm_032870]	SFRS18	Subtracted	225.293	11.653	213.64
681	homeobox protein hox-c5 (hox-3d) (cp11). [swissprot;acc:q00444]	HOXC5	Divided	132.413	1.05602	125.389
	nuclear protein skip (ski-interacting protein) (snw1 protein) (nuclear receptor coactivator ncoa-62). [swissprot;acc:q13573]	SNW1	Subtracted	220.593	11.606	208.987
682	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]	no value	Divided	132.413	1.05602	125.389
	upf0202 protein kiaa1709. [swissprot;acc:q9h0a0]	NAT10	Subtracted	246.055	11.597	234.458
683	homeobox protein hox-d4 (hox-4b) (hox-5.1) (hho.c13). [swissprot;acc:p09016]	HOXD4	Divided	132.413	1.05602	125.389
	osteoclast stimulating factor 1. [swissprot;acc:q92882]	OSTF1	Subtracted	231.809	11.48	243.289
684	homeobox protein hox-b5 (hox-2a) (hho.c10) (hu-1). [swissprot;acc:p09067]	HOXB5	Divided	132.413	1.05602	125.389
	phosphoribosylformylglycinamidine synthase (ec 6.3.5.3) (fgam synthase) (fgams) (formylglycinamide ribotide amidotransferase) (fgarat) (formylglycinamide ribotide synthetase). [swissprot;acc:o15067]	PFAS	Subtracted	223.58	11.447	235.027
685	bifunctional purine biosynthesis protein purh [includes: phosphoribosylaminoimidazolecarboxamide formyltransferase (ec 2.1.2.3) (aicar transformylase); imp cyclohydrolase (ec 3.5.4.10) (inosinicase) (imp synthetase) (atic)]. [swissprot;acc:p31939]	ATIC
	homeobox protein hox-a5 (hox-1c). [swissprot;acc:p20719]	HOXA5	Divided	132.413	1.05602	125.389
686	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	no value
	multifunctional protein ade2 [includes: phosphoribosylaminoimidazole- succinocarboxamide synthase (ec 6.3.2.6) (saicar synthetase); phosphoribosylaminoimidazole carboxylase (ec 4.1.1.21) (air carboxylase) (airc)]. [swissprot;acc:p22234]	PAICS	Subtracted	223.58	11.447	235.027
687	dendritic cell protein. [refseq;acc:nm_006360]	EIF3M		223.121	11.436	211.685
	retinal short-chain dehydrogenase/reductase 3. [refseq;acc:nm_016246]	HSD17B14	Divided	132.413	1.05602	125.389
688	dna-directed rna polymerase ii 16 kda polypeptide (ec 2.7.7.6) (rpb4). [swissprot;acc:o15514]	POLR2D		237.554	1.05586	250.823
	potential carboxypeptidase-like protein x2 precursor. [swissprot;acc:q8n436]	CPXM2	Subtracted	223.121	11.436	211.685
689	carboxypeptidase n catalytic chain precursor (ec 3.4.17.3) (arginine carboxypeptidase) (kininase 1) (serum carboxypeptidase n) (scpn) (anaphylatoxin inactivator) (plasma carboxypeptidase b). [swissprot;acc:p15169]	CPN1
	t-complex protein 1, alpha subunit (tcp-1-alpha) (cct-alpha). [swissprot;acc:p17987]	TCP1	Divided	135.379	1.05579	128.225
690	cpz gene product. [refseq;acc:nm_003652]	CPZ	Subtracted	223.121	11.436	211.685
	nuclear protein skip (ski-interacting protein) (snw1 protein) (nuclear receptor coactivator ncoa-62). [swissprot;acc:q13573]	SNW1	Divided	220.593	1.05553	208.987
691	breast carcinoma amplified sequence 2; spliceosome associated protein, amplified in breast cancer. [refseq;acc:nm_005872]	BCAS2		217.602	1.05532	206.195
	carboxypeptidase h precursor (ec 3.4.17.10) (cph) (carboxypeptidase e) (cpe) (enkephalin convertase) (prohormone processing carboxypeptidase). [swissprot;acc:p16870]	CPE	Subtracted	223.121	11.436	211.685
692	cdc5-like; cdc5 (cell division cycle 5, s. pombe, homolog)-like; cell division cycle 5, s. pombe, homolog-like; cdc5-related protein. [refseq;acc:nm_001253]	CDC5L	Divided	217.602	1.05532	206.195
	potential carboxypeptidase x precursor (ec 3.4.17.-) (metallocarboxypeptidase cpx-1). [swissprot;acc:q96sm3]	CPXM1	Subtracted	223.121	11.436	211.685
693	breast carcinoma amplified sequence 2; spliceosome associated protein, amplified in breast cancer. [refseq;acc:nm_005872]	BCAS2		217.602	11.407	206.195
	rna-binding protein nova-1 (neuro-oncological ventral antigen 1) (onconeural ventral antigen-1) (paraneoplastic ri antigen) (ventral neuron-specific protein 1). [swissprot;acc:p51513]	NOVA1	Divided	222.554	1.05524	234.847
694	cdc5-like; cdc5 (cell division cycle 5, s. pombe, homolog)-like; cell division cycle 5, s. pombe, homolog-like; cdc5-related protein. [refseq;acc:nm_001253]	CDC5L	Subtracted	217.602	11.407	206.195
	dna polymerase epsilon, catalytic subunit a (ec 2.7.7.7) (dna polymerase ii subunit a). [swissprot;acc:q07864]	POLE	Divided	241.907	1.05475	229.35
695	nucleotide-binding protein 1 (nbp 1). [swissprot;acc:p53384]	NUBP1	Subtracted	210.739	11.341	199.398
	peptidylprolyl isomerase-like 4; cyclophilin-type peptidyl-prolyl cis-trans isomerase; ppiase; serologically defined breast cancer antigen ny-br-18. [refseq;acc:nm_139126]	PPIL4	Divided	226.135	1.05471	214.405
696	nucleotide binding protein 2 (nbp 2). [swissprot;acc:q9y5y2]	NUBP2	Subtracted	210.739	11.341	199.398
	sr rich protein. [refseq;acc:nm_032870]	SFRS18	Divided	225.293	1.05455	213.64
697	ferritin heavy chain (ferritin h subunit). [swissprot;acc:p02794]	FTH1		220.444	1.05419	209.113
			Subtracted		11.331
698	cellular repressor of e1a-stimulated genes 2. [refseq;acc:nm_153836]	CREG2		220.438	11.32	209.118
	mitochondrial ferritin; ferritin heavy chain-like; ferritin h subunit. [refseq;acc:nm_177478]	FTMT	Divided	220.437	1.05413
699	cellular repressor of e1a-stimulated genes 2. [refseq;acc:nm_153836]	CREG2		220.438
	dj681n20.2 (novel protein similar to ferritin, light polypeptide (ftl)). [sptrembl;acc:q9byw6]	no value	Subtracted		11.32
700	disks large-associated protein 1 (dap-1) (guanylate kinase-associated protein) (hgkap) (sap90/psd-95-associated protein 1) (sapap1) (psd- 95/sap90 binding protein 1). [swissprot;acc:o14490]	DLGAP1
	dj681n20.2 (novel protein similar to ferritin, light polypeptide (ftl)). [sptrembl;acc:q9byw6]	no value	Divided		1.05413
701	disks large-associated protein 1 (dap-1) (guanylate kinase-associated protein) (hgkap) (sap90/psd-95-associated protein 1) (sapap1) (psd- 95/sap90 binding protein 1). [swissprot;acc:o14490]	DLGAP1
	putative adenosylhomocysteinase 2 (ec 3.3.1.1) (s-adenosyl-l- homocysteine hydrolase) (adohcyase). [swissprot;acc:o43865]	AHCYL1	Subtracted		11.32
702	limkain b1. [refseq;acc:nm_019081]	KIAA0430
	putative adenosylhomocysteinase 2 (ec 3.3.1.1) (s-adenosyl-l- homocysteine hydrolase) (adohcyase). [swissprot;acc:o43865]	AHCYL1	Divided		1.05413
703	limkain b1. [refseq;acc:nm_019081]	KIAA0430
	putative adenosylhomocysteinase 3 (ec 3.3.1.1) (s-adenosyl-l- homocysteine hydrolase) (adohcyase). [swissprot;acc:q96hn2]	no value	Subtracted		11.32
704	cellular repressor of e1a-stimulated genes. [refseq;acc:nm_003851]	CREG1

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.