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	network_comparison	green

Results: HTML CSV LaTeX

Showing element 1351 to 1400 of 8289 in total

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

Rank	Hugo	description	Interaction Map	red	network_comparison	green
676	DUT	deoxyuridine 5'-triphosphate nucleotidohydrolase, mitochondrial precursor (ec 3.6.1.23) (dutpase) (dutp pyrophosphatase). [swissprot;acc:p33316]	Low confidence	202.698	1.02828	197.124
	POLR2G	dna-directed rna polymerase ii 19 kda polypeptide (ec 2.7.7.6) (rpb7). [swissprot;acc:p52433]	High confidence	232.469	1.05654	245.613
677	CCDC53	protein ad-016 (protein cgi-116) (x0009). [swissprot;acc:q9y3c0]	Low confidence	207.03	1.02827	201.339
	LSM4	u6 snrna-associated sm-like protein lsm4 (glycine-rich protein) (grp). [swissprot;acc:q9y4z0]	High confidence	228.944	1.05628	216.745
678	CYP3A4	cytochrome p450 3a4 (ec 1.14.13.67) (quinine 3-monooxygenase) (cypiiia4) (nifedipine oxidase) (nf-25) (p450-pcn1). [swissprot;acc:p08684]	Low confidence	203.747	1.02824	198.152
	SNX5	sorting nexin 5. [swissprot;acc:q9y5x3]	High confidence	208.482	1.05609	220.175
679	no value	homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]		132.413	1.05602	125.389
	YEATS4	glioma-amplified sequence-41; numa binding protein 1. [refseq;acc:nm_006530]	Low confidence	198.424	1.02824	192.974
680	EDEM2	putative alpha-mannosidase c20orf31 precursor (ec 3.2.1.-). [swissprot;acc:q9bv94]		196.228	1.02821	190.844
	HOXB4	homeobox protein hox-b4 (hox-2f) (hox-2.6). [swissprot;acc:p17483]	High confidence	132.413	1.05602	125.389
681	no value	sh2 domain binding protein 1; tpr-containing, sh2-binding phosphoprotein. [refseq;acc:nm_014633]	Low confidence	206.115	1.0282	200.462
	HOXC5	homeobox protein hox-c5 (hox-3d) (cp11). [swissprot;acc:q00444]	High confidence	132.413	1.05602	125.389
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	1.02819	198.663
683	CDK2AP2	doc-1 related protein (doc-1r). [swissprot;acc:o75956]		216.618	1.02814	210.69
	HOXD4	homeobox protein hox-d4 (hox-4b) (hox-5.1) (hho.c13). [swissprot;acc:p09016]	High confidence	132.413	1.05602	125.389
684	no value	repressor of estrogen receptor activity; b-cell associated protein. [refseq;acc:nm_007273]	Low confidence	199.669	1.02814	194.204
	HOXB5	homeobox protein hox-b5 (hox-2a) (hho.c10) (hu-1). [swissprot;acc:p09067]	High confidence	132.413	1.05602	125.389
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	1.02808	196.209
686	no value	homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]	High confidence	132.413	1.05602	125.389
	NEUROG2	neurogenin 2 (fragment). [swissprot;acc:q9h2a3]	Low confidence	216.554	1.02807	210.642
687	HSD17B14	retinal short-chain dehydrogenase/reductase 3. [refseq;acc:nm_016246]	High confidence	132.413	1.05602	125.389
	NEUROD2	neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784]	Low confidence	216.554	1.02807	210.642
688	NEUROD6	neurogenic differentiation factor 6 (neurod6) (my051 protein). [swissprot;acc:q96nk8]		216.552	1.02806	210.641
	POLR2D	dna-directed rna polymerase ii 16 kda polypeptide (ec 2.7.7.6) (rpb4). [swissprot;acc:o15514]	High confidence	237.554	1.05586	250.823
689	NEUROD1	neurogenic differentiation factor 1 (neurod1) (neurod). [swissprot;acc:q13562]	Low confidence	216.552	1.02806	210.641
	TCP1	t-complex protein 1, alpha subunit (tcp-1-alpha) (cct-alpha). [swissprot;acc:p17987]	High confidence	135.379	1.05579	128.225
690	NEUROD4	neurogenic differentiation factor 4 (neurod4). [swissprot;acc:q9hd90]	Low confidence	216.552	1.02806	210.641
	SNW1	nuclear protein skip (ski-interacting protein) (snw1 protein) (nuclear receptor coactivator ncoa-62). [swissprot;acc:q13573]	High confidence	220.593	1.05553	208.987
691	BCAS2	breast carcinoma amplified sequence 2; spliceosome associated protein, amplified in breast cancer. [refseq;acc:nm_005872]		217.602	1.05532	206.195
	DHX8	atp-dependent helicase ddx8 (rna helicase hrh1) (deah-box protein 8). [swissprot;acc:q14562]	Low confidence	201.663	1.02806	196.158
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	1.05532	206.195
	PPAN-P2RY11	suppressor of swi4 1 homolog (ssf-1) (peter pan homolog). [swissprot;acc:q9nq55]	Low confidence	203.897	1.02803	198.337
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	1.02802	199.613
	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	1.05524	234.847
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	1.02801	210.602
	POLE	dna polymerase epsilon, catalytic subunit a (ec 2.7.7.7) (dna polymerase ii subunit a). [swissprot;acc:q07864]	High confidence	241.907	1.05475	229.35
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	1.05471	214.405
	PXN	paxillin. [swissprot;acc:p49023]	Low confidence	202.649	1.028	197.13
696	IFRD1	interferon-related developmental regulator 1 (nerve growth factor- inducible protein pc4). [swissprot;acc:o00458]		204.538	1.02796	198.974
	SFRS18	sr rich protein. [refseq;acc:nm_032870]	High confidence	225.293	1.05455	213.64
697	FTH1	ferritin heavy chain (ferritin h subunit). [swissprot;acc:p02794]		220.444	1.05419	209.113
	SUPT16H	chromatin-specific transcription elongation factor large subunit. [refseq;acc:nm_007192]	Low confidence	202.744	1.02792	197.238
698	FTMT	mitochondrial ferritin; ferritin heavy chain-like; ferritin h subunit. [refseq;acc:nm_177478]	High confidence	220.437	1.05413	209.118
	VPS24	neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079]	Low confidence	196.49	1.0279	201.972
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	1.05413	209.118
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	1.02789	199.304

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.