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 12864 to 12913 of 16578 in total

Value Type  : Ranked
Filtered  : 1

Rank	Hugo	description	Network Comparison Type	Interaction Map	red	green	network_comparison
3216	PIGB	phosphatidylinositol glycan, class b. [refseq;acc:nm_004855]	Subtracted	Low confidence	182.789	179.625	3.164
3217	NHLH2	helix-loop-helix protein 2 (hen2) (nescient helix loop helix 2) (nscl- 2). [swissprot;acc:q02577]			197.992	194.829	3.163
	SCMH1	sex comb on midleg homolog 1. [refseq;acc:nm_012236]	Divided	High confidence	0.00001	0.00001	1
			Subtracted		0	0	0
	SUMO1P3	ubiquitin-like protein smt3c precursor (ubiquitin-homology domain protein pic1) (ubiquitin-like protein ubl1) (ubiquitin-related protein sumo-1) (gap modifying protein 1) (gmp1) (sentrin). [swissprot;acc:q93068]	Divided	Low confidence	200.841	197.682	1.01598
3218	HNRPH3	heterogeneous nuclear ribonucleoprotein h3 (hnrnp h3) (hnrnp 2h9). [swissprot;acc:p31942]	Subtracted		202.663	199.5	3.163
	MLXIPL	williams-beuren syndrome chromosome region 14 protein (ws basic-helix- loop-helix leucine zipper protein) (ws-bhlh) (mlx interactor). [swissprot;acc:q9np71]	Divided	High confidence	0.00001	0.00001	1
			Subtracted		0	0	0
	UGDH	udp-glucose 6-dehydrogenase (ec 1.1.1.22) (udp-glc dehydrogenase) (udp-glcdh) (udpgdh). [swissprot;acc:o60701]	Divided	Low confidence	200.841	197.682	1.01598
3219	PSMD7	26s proteasome non-atpase regulatory subunit 7 (26s proteasome regulatory subunit s12) (proteasome subunit p40) (mov34 protein homolog). [swissprot;acc:p51665]	Subtracted		200.29	197.129	3.161
	TES	testin (tess). [swissprot;acc:q9ugi8]	Divided		200.581	197.428	1.01597
	VTA1	protein c6orf55 (dopamine responsive protein drg-1) (my012 protein) (hspc228). [swissprot;acc:q9np79]		High confidence	0.00001	0.00001	1
			Subtracted		0	0	0
3220	no value	60s ribosomal protein l39. [swissprot;acc:p02404]	Divided	Low confidence	202.665	199.481	1.01596
	PC	pyruvate carboxylase, mitochondrial precursor (ec 6.4.1.1) (pyruvic carboxylase) (pcb). [swissprot;acc:p11498]	Subtracted		196.453	193.294	3.159
	TFAP2B	transcription factor ap-2 beta (ap2-beta) (activating enhancer-binding protein 2 beta). [swissprot;acc:q92481]	Divided	High confidence	0.00001	0.00001	1
			Subtracted		0	0	0
3221	HCCS	cytochrome c-type heme lyase (ec 4.4.1.17) (cchl) (holocytochrome c- type synthase). [swissprot;acc:p53701]	Divided	Low confidence	200.125	196.981	1.01596
	PAFAH1B1	platelet-activating factor acetylhydrolase ib alpha subunit (ec 3.1.1.47) (paf acetylhydrolase 45 kda subunit) (paf-ah 45 kda subunit) (paf-ah alpha) (pafah alpha) (lissencephaly-1 protein) (lis- 1). [swissprot;acc:p43034]		High confidence	0.00001	0.00001	1
			Subtracted		0	0	0
	SUMO1P3	ubiquitin-like protein smt3c precursor (ubiquitin-homology domain protein pic1) (ubiquitin-like protein ubl1) (ubiquitin-related protein sumo-1) (gap modifying protein 1) (gmp1) (sentrin). [swissprot;acc:q93068]		Low confidence	200.841	197.682	3.159
3222	no value	serine/threonine kinase 38 like. [refseq;acc:nm_015000]	Divided		200.25	197.107	1.01595
	ALDH3B1	aldehyde dehydrogenase 7 (ec 1.2.1.5). [swissprot;acc:p43353]		High confidence	0.00001	0.00001	1
			Subtracted		0	0	0
	GTF2H1	tfiih basal transcription factor complex p62 subunit (basic transcription factor 62 kda subunit) (btf2-p62) (general transcription factor iih polypeptide 1). [swissprot;acc:p32780]		Low confidence	200.513	197.354	3.159
3223	KLHL1	kelch-like protein 1. [swissprot;acc:q9nr64]	Divided		204.526	201.316	1.01595
	RALA	ras-related protein ral-a. [swissprot;acc:p11233]		High confidence	0.00001	0.00001	1
			Subtracted		0	0	0
	UGDH	udp-glucose 6-dehydrogenase (ec 1.1.1.22) (udp-glc dehydrogenase) (udp-glcdh) (udpgdh). [swissprot;acc:o60701]		Low confidence	200.841	197.682	3.159
3224	EEF1A2	elongation factor 1-alpha 2 (ef-1-alpha-2) (elongation factor 1 a-2) (eef1a-2) (statin s1). [swissprot;acc:q05639]			206.166	203.007
	ITGA3	integrin alpha-3 precursor (galactoprotein b3) (gapb3) (vla-3 alpha chain) (cd49c). [swissprot;acc:p26006]	Divided	High confidence	0.00001	0.00001	1
			Subtracted		0	0	0
	SMAP1	stromal membrane-associated protein; stromal membrane-associated protein smap1a. [refseq;acc:nm_021940]	Divided	Low confidence	202.662	199.481	1.01595
3225	HSPB6	heat-shock 20 kda like-protein p20. [swissprot;acc:o14558]		High confidence	0.00001	0.00001	1
			Subtracted		0	0	0
	LMCD1	lim and cysteine-rich domains protein 1 (dyxin). [swissprot;acc:q9nzu5]		Low confidence	200.573	197.416	3.157
	STK38	serine/threonine kinase 38; serine threonine protein kinase. [refseq;acc:nm_007271]	Divided		200.247	197.104	1.01595
3226	no value	ccr4-not transcription complex, subunit 7 (ccr4-associated factor 1) (caf1) (btg1 binding factor 1). [swissprot;acc:q9uiv1]		High confidence	0.00001	0.00001	1
			Subtracted		0	0	0
	KLHL5	kelch-like protein 5. [swissprot;acc:q96pq7]	Divided	Low confidence	204.526	201.316	1.01595
	KRTAP9-8	keratin associated protein 9.2. [refseq;acc:nm_031961]	Subtracted		204.394	201.238	3.156
3227	GATAD1	ocular development-associated gene. [refseq;acc:nm_021167]			201.945	198.789
	ICA1	69 kda islet cell autoantigen (ica69) (islet cell autoantigen 1) (islet cell autoantigen p69) (icap69). [swissprot;acc:q05084]	Divided	High confidence	0.00001	0.00001	1
			Subtracted		0	0	0
	KLHL4	kelch-like protein 4. [swissprot;acc:q9c0h6]	Divided	Low confidence	204.526	201.316	1.01595
3228	no value	alpha-n-acetylgalactosaminidase precursor (ec 3.2.1.49) (alpha- galactosidase b). [swissprot;acc:p17050]
	FEZ1	fasciculation and elongation protein zeta 1 (zygin i). [swissprot;acc:q99689]	Subtracted		201.325	198.17	3.155
	SCYL3	ezrin-binding partner pace-1 isoform 1. [refseq;acc:nm_020423]	Divided	High confidence	0.00001	0.00001	1
			Subtracted		0	0	0
3229	COX6B1	cytochrome c oxidase polypeptide vib (ec 1.9.3.1) (aed). [swissprot;acc:p14854]	Divided	Low confidence	201.768	198.603	1.01594

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.