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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description	Rank	Gene	Hugo	Network Comparison Type	Value Type	Interaction Map	Filtered	red	green	network_comparison

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Showing element 2125 to 2174 of 16578 in total

Value Type  : Ranked
Filtered  : 1

description	Rank	Hugo	Network Comparison Type	Interaction Map	red	green	network_comparison
brain protein 44. [swissprot;acc:o95563]	742	BRP44	Divided	High confidence	126.215	120.078	1.05111
	1040			Low confidence	182.902	178.58	1.0242
	1062		Subtracted	High confidence	126.215	120.078	6.137
	1381			Low confidence	182.902	178.58	4.322
branched-chain amino acid aminotransferase, cytosolic (ec 2.6.1.42) (bcat(c)) (eca39 protein). [swissprot;acc:p54687]	1867	BCAT1	Divided		199.922	196.027	1.01987
	1907		Subtracted				3.895
	2672		Divided	High confidence	210.957	210.741	1.00102
			Subtracted				0.216
branched-chain amino acid aminotransferase, mitochondrial precursor (ec 2.6.1.42) (bcat(m)) (placental protein 18) (pp18). [swissprot;acc:o15382]	1877	BCAT2	Divided	Low confidence	199.88	195.99	1.01985
	1914		Subtracted				3.89
	2681			High confidence	210.939	210.755	0.184
	2687		Divided				1.00087
brca1 associated protein. [refseq;acc:nm_006768]	3161	BRAP			0.00001	0.00001	1
			Subtracted		0	0	0
	4538		Divided	Low confidence	177.657	176.223	1.00814
	4604		Subtracted				1.434
brca1-associated ring domain protein 1 (bard-1). [swissprot;acc:q99728]	1745	BARD1		High confidence	216.271	218.991	2.72
	1752		Divided				1.01258
	3479			Low confidence	199.172	196.226	1.01501
	3509		Subtracted				2.946
brca2 and cdkn1a-interacting protein isoform bccipalpha; brca2 and cdkn1a-interacting protein; cdk inhibitor p21 binding protein; bccipalpha; bccipbeta; tok-1alpha; tok-1beta. [refseq;acc:nm_016567]	209	BCCIP		High confidence	240.782	265.717	24.935
	294		Divided				1.10356
	1466		Subtracted	Low confidence	202.583	198.329	4.254
	1490		Divided				1.02145
breast cancer antiestrogen resistance 3. [refseq;acc:nm_003567]	229	BCAR3		High confidence	226.401	202.094	1.12028
	232		Subtracted				24.307
	603		Divided	Low confidence	201.427	195.587	1.02986
	614		Subtracted				5.84
breast cancer antigen ny-br-1. [refseq;acc:nm_052997]	227	ANKRD30A			216.842	207.332	9.51
	262		Divided				1.04587
breast cancer type 1 susceptibility protein. [swissprot;acc:p38398]	920	BRCA1	Subtracted	High confidence	216.501	224.27	7.769
	939		Divided				1.03588
	3632		Subtracted	Low confidence	201.391	198.576	2.815
	3636		Divided				1.01418
breast carcinoma amplified sequence 2; spliceosome associated protein, amplified in breast cancer. [refseq;acc:nm_005872]	691	BCAS2		High confidence	217.602	206.195	1.05532
	693		Subtracted				11.407
	1680			Low confidence	202.346	198.294	4.052
	1733		Divided				1.02043
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]	647	ARFGEF1			203.293	197.621	1.0287
	658		Subtracted				5.672
	2705			High confidence	220.521	220.395	0.126
	2713		Divided				1.00057
brefeldin a-inhibited guanine nucleotide-exchange protein 2 (brefeldin a-inhibited gep 2). [swissprot;acc:q9y6d5]	649	ARFGEF2		Low confidence	203.283	197.617	1.02867
	661		Subtracted				5.666
	2703			High confidence	220.521	220.395	0.126
	2711		Divided				1.00057
brg1-binding protein eld/osa1; eld (eyelid)/osa protein. [refseq;acc:nm_020732]	593	ARID1B	Subtracted	Low confidence	204.856	198.854	6.002
	597		Divided				1.03018
	939		Subtracted	High confidence	212.44	205.085	7.355
	945		Divided				1.03586

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.