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	Network Comparison Type	Value Type	Interaction Map	Filtered	red	green	network_comparison

Results: HTML CSV LaTeX

Showing element 5408 to 5457 of 6456 in total

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

Rank	Hugo	description	Network Comparison Type	red	green	network_comparison
2704	GCN1L1	hsgcn1 (fragment). [sptrembl;acc:q99736]	Subtracted	220.521	220.395	0.126
2705	ARFGEF1	brefeldin a-inhibited guanine nucleotide-exchange protein 1 (brefeldin a-inhibited gep 1) (p200 arf-gep1) (p200 arf guanine nucleotide exchange factor). [swissprot;acc:q9y6d6]
	CLSTN2	calsyntenin-2 precursor. [swissprot;acc:q9h4d0]	Divided	188.457	188.334	1.00065
2706	CLSTN3	calsyntenin-3 precursor. [swissprot;acc:q9bqt9]		188.459	188.336
	SSR4	translocon-associated protein, delta subunit precursor (trap-delta) (signal sequence receptor delta subunit) (ssr-delta). [swissprot;acc:p51571]	Subtracted	188.435	188.31	0.125
2707	ACP1	red cell acid phosphatase 1, isozyme f (ec 3.1.3.2) (acp1) (low molecular weight phosphotyrosine protein phosphatase) (ec 3.1.3.48) (adipocyte acid phosphatase, isozyme alpha). [swissprot;acc:p24666]	Divided	215.096	215.232	1.00063
	CLSTN1	calsyntenin-1 precursor. [swissprot;acc:o94985]	Subtracted	188.435	188.31	0.125
2708	no value	succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial precursor (cybs) (succinate-ubiquinone reductase membrane anchor subunit) (qps2) (cii-4) (succinate dehydrogenase complex subunit d) (succinate-ubiquinone oxidoreductase cytochrome b small subunit). [swissprot;acc:o14521]
	HMBS	porphobilinogen deaminase (ec 4.3.1.8) (hydroxymethylbilane synthase) (hmbs) (pre-uroporphyrinogen synthase) (pbg-d). [swissprot;acc:p08397]	Divided	227.796	227.66	1.0006
2709	no value	importin 7; ran-binding protein 7. [refseq;acc:nm_006391]		220.521	220.395	1.00057
	PARS2	similar to trna synthetase class ii. [refseq;acc:nm_152268]	Subtracted	220.224	220.348	0.124
2710	IPO8	importin 8; ran-binding protein 8. [refseq;acc:nm_006390]	Divided	220.521	220.395	1.00057
	PTPRB	protein-tyrosine phosphatase beta precursor (ec 3.1.3.48) (r-ptp- beta). [swissprot;acc:p23467]	Subtracted	188.435	188.311	0.124
2711	ARFGEF2	brefeldin a-inhibited guanine nucleotide-exchange protein 2 (brefeldin a-inhibited gep 2). [swissprot;acc:q9y6d5]	Divided	220.521	220.395	1.00057
	PRSS16	thymus-specific serine protease precursor (ec 3.4.-.-). [swissprot;acc:q9nqe7]	Subtracted	188.435	188.311	0.124
2712	CCDC47	gk001 protein. [refseq;acc:nm_020198]
	GCN1L1	hsgcn1 (fragment). [sptrembl;acc:q99736]	Divided	220.521	220.395	1.00057
2713	ARFGEF1	brefeldin a-inhibited guanine nucleotide-exchange protein 1 (brefeldin a-inhibited gep 1) (p200 arf-gep1) (p200 arf guanine nucleotide exchange factor). [swissprot;acc:q9y6d6]
	CLSTN2	calsyntenin-2 precursor. [swissprot;acc:q9h4d0]	Subtracted	188.457	188.334	0.123
2714	CLSTN3	calsyntenin-3 precursor. [swissprot;acc:q9bqt9]		188.459	188.336
	PARS2	similar to trna synthetase class ii. [refseq;acc:nm_152268]	Divided	220.224	220.348	1.00056
2715	no value	basic proline-rich peptide p-e (ib-9). [swissprot;acc:p02811]		216.018	215.903	1.00053
			Subtracted			0.115
2716	PRB4	salivary proline-rich protein po (allele k) [contains: peptide p-d] (fragment). [swissprot;acc:p10162]	Divided			1.00053
			Subtracted			0.115
2717	MAPRE2	microtubule-associated protein, rp/eb family, member 2; t-cell activation protein, eb1 family; apc-binding protein eb1. [refseq;acc:nm_014268]	Divided	216.521	216.634	1.00052
			Subtracted			0.113
2718	MAPRE3	microtubule-associated protein rp/eb family member 3 (protein eb3). [swissprot;acc:q9upy8]		216.52	216.633
	SLC39A7	histidine-rich membrane protein ke4. [swissprot;acc:q92504]	Divided		216.632	1.00052
2719	MAPRE1	microtubule-associated protein rp/eb family member 1 (apc-binding protein eb1). [swissprot;acc:q15691]
	SLC39A7	histidine-rich membrane protein ke4. [swissprot;acc:q92504]	Subtracted			0.112
2720	MAPRE1	microtubule-associated protein rp/eb family member 1 (apc-binding protein eb1). [swissprot;acc:q15691]
	MAPRE3	microtubule-associated protein rp/eb family member 3 (protein eb3). [swissprot;acc:q9upy8]	Divided		216.633	1.00052
2721	EPRS	bifunctional aminoacyl-trna synthetase [includes: glutamyl-trna synthetase (ec 6.1.1.17) (glutamate--trna ligase); prolyl-trna synthetase (ec 6.1.1.15) (proline--trna ligase)]. [swissprot;acc:p07814]		221.022	221.116	1.00043
			Subtracted			0.094
2722	TBL2	transducin beta-like 2 protein (ws beta-transducin repeats protein) (ws-betatrp) (williams-beuren syndrome chromosome region 13 protein). [swissprot;acc:q9y4p3]	Divided	219.308	219.214	1.00043
			Subtracted			0.094
2723	no value	lamin b2. [swissprot;acc:q03252]	Divided	219.323	219.413	1.00041
			Subtracted			0.09
2724	HSP90AB1	heat shock protein hsp 90-beta (hsp 84) (hsp 90). [swissprot;acc:p08238]	Divided	221.053	220.963	1.00041
			Subtracted			0.09
2725	DCX	doublecortin (lissencephalin-x) (lis-x) (doublin). [swissprot;acc:o43602]	Divided	216.496	216.569	1.00034
	RAD17	rad17 homolog isoform 1; rad17-like protein; cell cycle checkpoint protein (rad17); rf-c activator 1 homolog. [refseq;acc:nm_002873]	Subtracted	221.001	220.927	0.074
2726	no value	atp-dependent dna helicase ii, 70 kda subunit (lupus ku autoantigen protein p70) (ku70) (70 kda subunit of ku antigen) (thyroid-lupus autoantigen) (tlaa) (ctc box binding factor 75 kda subunit) (ctcbf) (ctc75). [swissprot;acc:p12956]
	RAD17	rad17 homolog isoform 1; rad17-like protein; cell cycle checkpoint protein (rad17); rf-c activator 1 homolog. [refseq;acc:nm_002873]	Divided			1.00033
2727	no value	atp-dependent dna helicase ii, 70 kda subunit (lupus ku autoantigen protein p70) (ku70) (70 kda subunit of ku antigen) (thyroid-lupus autoantigen) (tlaa) (ctc box binding factor 75 kda subunit) (ctcbf) (ctc75). [swissprot;acc:p12956]
	XRCC5	atp-dependent dna helicase ii, 80 kda subunit (lupus ku autoantigen protein p86) (ku86) (ku80) (86 kda subunit of ku antigen) (thyroid- lupus autoantigen) (tlaa) (ctc box binding factor 85 kda subunit) (ctcbf) (ctc85) (nuclear factor iv) (dna-repair protein xrcc5). [swissprot;acc:p13010]	Subtracted			0.074
2728	DCX	doublecortin (lissencephalin-x) (lis-x) (doublin). [swissprot;acc:o43602]		216.496	216.569	0.073
	XRCC5	atp-dependent dna helicase ii, 80 kda subunit (lupus ku autoantigen protein p86) (ku86) (ku80) (86 kda subunit of ku antigen) (thyroid- lupus autoantigen) (tlaa) (ctc box binding factor 85 kda subunit) (ctcbf) (ctc85) (nuclear factor iv) (dna-repair protein xrcc5). [swissprot;acc:p13010]	Divided	221.001	220.927	1.00033
2729	OTUB1	ubiquitin-specific protease otubain 1. [refseq;acc:nm_017670]		202.123	202.06	1.00031

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.