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 1358 to 1407 of 8289 in total

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

Rank	Hugo	description	Interaction Map	red	green	network_comparison
679	YEATS4	glioma-amplified sequence-41; numa binding protein 1. [refseq;acc:nm_006530]	Low confidence	198.424	192.974	1.02824
680	EDEM2	putative alpha-mannosidase c20orf31 precursor (ec 3.2.1.-). [swissprot;acc:q9bv94]		196.228	190.844	1.02821
	HOXB4	homeobox protein hox-b4 (hox-2f) (hox-2.6). [swissprot;acc:p17483]	High confidence	132.413	125.389	1.05602
681	no value	sh2 domain binding protein 1; tpr-containing, sh2-binding phosphoprotein. [refseq;acc:nm_014633]	Low confidence	206.115	200.462	1.0282
	HOXC5	homeobox protein hox-c5 (hox-3d) (cp11). [swissprot;acc:q00444]	High confidence	132.413	125.389	1.05602
682	no value	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]
	DDX54	atp-dependent rna helicase mgc2835; atp-dependent rna helicase; apoptosis related protein apr-5; dead box helicase 97 kda. [refseq;acc:nm_024072]	Low confidence	204.263	198.663	1.02819
683	CDK2AP2	doc-1 related protein (doc-1r). [swissprot;acc:o75956]		216.618	210.69	1.02814
	HOXD4	homeobox protein hox-d4 (hox-4b) (hox-5.1) (hho.c13). [swissprot;acc:p09016]	High confidence	132.413	125.389	1.05602
684	no value	repressor of estrogen receptor activity; b-cell associated protein. [refseq;acc:nm_007273]	Low confidence	199.669	194.204	1.02814
	HOXB5	homeobox protein hox-b5 (hox-2a) (hho.c10) (hu-1). [swissprot;acc:p09067]	High confidence	132.413	125.389	1.05602
685	HOXA5	homeobox protein hox-a5 (hox-1c). [swissprot;acc:p20719]
	TDO2	tryptophan 2,3-dioxygenase (ec 1.13.11.11) (tryptophan pyrrolase) (tryptophanase) (tryptophan oxygenase) (tryptamin 2,3-dioxygenase) (trpo). [swissprot;acc:p48775]	Low confidence	201.719	196.209	1.02808
686	no value	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	High confidence	132.413	125.389	1.05602
	NEUROG2	neurogenin 2 (fragment). [swissprot;acc:q9h2a3]	Low confidence	216.554	210.642	1.02807
687	HSD17B14	retinal short-chain dehydrogenase/reductase 3. [refseq;acc:nm_016246]	High confidence	132.413	125.389	1.05602
	NEUROD2	neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784]	Low confidence	216.554	210.642	1.02807
688	NEUROD6	neurogenic differentiation factor 6 (neurod6) (my051 protein). [swissprot;acc:q96nk8]		216.552	210.641	1.02806
	POLR2D	dna-directed rna polymerase ii 16 kda polypeptide (ec 2.7.7.6) (rpb4). [swissprot;acc:o15514]	High confidence	237.554	250.823	1.05586
689	NEUROD1	neurogenic differentiation factor 1 (neurod1) (neurod). [swissprot;acc:q13562]	Low confidence	216.552	210.641	1.02806
	TCP1	t-complex protein 1, alpha subunit (tcp-1-alpha) (cct-alpha). [swissprot;acc:p17987]	High confidence	135.379	128.225	1.05579
690	NEUROD4	neurogenic differentiation factor 4 (neurod4). [swissprot;acc:q9hd90]	Low confidence	216.552	210.641	1.02806
	SNW1	nuclear protein skip (ski-interacting protein) (snw1 protein) (nuclear receptor coactivator ncoa-62). [swissprot;acc:q13573]	High confidence	220.593	208.987	1.05553
691	BCAS2	breast carcinoma amplified sequence 2; spliceosome associated protein, amplified in breast cancer. [refseq;acc:nm_005872]		217.602	206.195	1.05532
	DHX8	atp-dependent helicase ddx8 (rna helicase hrh1) (deah-box protein 8). [swissprot;acc:q14562]	Low confidence	201.663	196.158	1.02806
692	CDC5L	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]	High confidence	217.602	206.195	1.05532
	PPAN-P2RY11	suppressor of swi4 1 homolog (ssf-1) (peter pan homolog). [swissprot;acc:q9nq55]	Low confidence	203.897	198.337	1.02803
693	no value	adapter-related protein complex 1 sigma 1b subunit (sigma-adaptin 1b) (adaptor protein complex ap-1 sigma-1b subunit) (golgi adaptor ha1/ap1 adaptin sigma-1b subunit) (clathrin assembly protein complex 1 sigma- 1b small chain) (sigma 1b subunit of ap-1 clathrin) (dc22). [swissprot;acc:p56377]		205.207	199.613	1.02802
	NOVA1	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]	High confidence	222.554	234.847	1.05524
694	CDK2AP1	cyclin-dependent kinase 2-associated protein 1 (cdk2-associated protein 1) (putative oral cancer suppressor) (deleted in oral cancer- 1) (doc-1). [swissprot;acc:o14519]	Low confidence	216.501	210.602	1.02801
	POLE	dna polymerase epsilon, catalytic subunit a (ec 2.7.7.7) (dna polymerase ii subunit a). [swissprot;acc:q07864]	High confidence	241.907	229.35	1.05475
695	PPIL4	peptidylprolyl isomerase-like 4; cyclophilin-type peptidyl-prolyl cis-trans isomerase; ppiase; serologically defined breast cancer antigen ny-br-18. [refseq;acc:nm_139126]		226.135	214.405	1.05471
	PXN	paxillin. [swissprot;acc:p49023]	Low confidence	202.649	197.13	1.028
696	IFRD1	interferon-related developmental regulator 1 (nerve growth factor- inducible protein pc4). [swissprot;acc:o00458]		204.538	198.974	1.02796
	SFRS18	sr rich protein. [refseq;acc:nm_032870]	High confidence	225.293	213.64	1.05455
697	FTH1	ferritin heavy chain (ferritin h subunit). [swissprot;acc:p02794]		220.444	209.113	1.05419
	SUPT16H	chromatin-specific transcription elongation factor large subunit. [refseq;acc:nm_007192]	Low confidence	202.744	197.238	1.02792
698	FTMT	mitochondrial ferritin; ferritin heavy chain-like; ferritin h subunit. [refseq;acc:nm_177478]	High confidence	220.437	209.118	1.05413
	VPS24	neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079]	Low confidence	196.49	201.972	1.0279
699	AP1S1	adapter-related protein complex 1 sigma 1a subunit (sigma-adaptin 1a) (adaptor protein complex ap-1 sigma-1a subunit) (golgi adaptor ha1/ap1 adaptin sigma-1a subunit) (clathrin assembly protein complex 1 sigma- 1a small chain) (clathrin coat assembly protein ap19) (ha1 19 kda subunit) (sigma 1a subunit of ap-1 clathrin). [swissprot;acc:q00382]		205.169	199.601
	CREG2	cellular repressor of e1a-stimulated genes 2. [refseq;acc:nm_153836]	High confidence	220.438	209.118	1.05413
700	no value	dj681n20.2 (novel protein similar to ferritin, light polypeptide (ftl)). [sptrembl;acc:q9byw6]
	WDR6	wd-repeat protein 6. [swissprot;acc:q9nnw5]	Low confidence	204.863	199.304	1.02789
701	ACO1	iron-responsive element binding protein 1 (ire-bp 1) (iron regulatory protein 1) (irp1) (ferritin repressor protein) (aconitate hydratase) (ec 4.2.1.3) (citrate hydro-lyase) (aconitase). [swissprot;acc:p21399]		200.577	195.136	1.02788
	DLGAP1	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]	High confidence	220.438	209.118	1.05413
702	AHCYL1	putative adenosylhomocysteinase 2 (ec 3.3.1.1) (s-adenosyl-l- homocysteine hydrolase) (adohcyase). [swissprot;acc:o43865]
	G3BP1	ras-gtpase-activating protein binding protein 1 (gap sh3-domain binding protein 1) (g3bp-1). [swissprot;acc:q13283]	Low confidence	211.28	217.166	1.02786
703	KIAA0430	limkain b1. [refseq;acc:nm_019081]	High confidence	220.438	209.118	1.05413
	PWP1	periodic tryptophan protein 1 homolog (keratinocyte protein ief ssp 9502). [swissprot;acc:q13610]	Low confidence	203.581	198.065	1.02785
704	no value	putative adenosylhomocysteinase 3 (ec 3.3.1.1) (s-adenosyl-l- homocysteine hydrolase) (adohcyase). [swissprot;acc:q96hn2]	High confidence	220.438	209.118	1.05413

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.