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

Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

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

Results: HTML CSV LaTeX

Showing element 1808 to 1857 of 12912 in total

Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1

description	Rank	Hugo	Value Type	red	green	network_comparison
bystin. [swissprot;acc:q13895]	1475	BYSL	Squared	16837.1	18786.1	1.11576
c-1-tetrahydrofolate synthase, cytoplasmic (c1-thf synthase) [includes: methylenetetrahydrofolate dehydrogenase (ec 1.5.1.5); methenyltetrahydrofolate cyclohydrolase (ec 3.5.4.9); formyltetrahydrofolate synthetase (ec 6.3.4.3)]. [swissprot;acc:p11586]	1387	MTHFD1		19336.4	21711.3	1.12282
	1766		Ranked	228.932	231.732	1.01223
	2102		Measured	4860.34	5127.3	1.05493
	2475		Rooted	57.1085	57.8119	1.01232
c-jun-amino-terminal kinase interacting protein 3 (jnk-interacting protein 3) (jip-3) (jnk map kinase scaffold protein 3) (mitogen- activated protein kinase 8-interacting protein 3). [swissprot;acc:q9upt6]	1888	MAPK8IP3		62.2848	64.1142	1.02937
	1962		Measured	5941.24	6297.78	1.06001
	2362		Squared	28308.7	30320.8	1.07108
	2473		Ranked	218.644	217.991	1.003
c-terminal binding protein 1 (ctbp1). [swissprot;acc:q13363]	255	CTBP1	Squared	69123.3	52967	1.30503
	1554		Ranked	196.215	193.018	1.01656
	1638		Measured	9895.77	9248.18	1.07002
	2734		Rooted	78.1886	78.1257	1.00081
c-terminal binding protein 2 (ctbp2). [swissprot;acc:p56545]	250	CTBP2	Squared	69201.8	53013.4	1.30536
	1558		Ranked	196.171	192.977	1.01655
	1630		Measured	9903.22	9253.79	1.07018
	2729		Rooted	78.2186	78.151	1.00086
c-type lectin superfamily member 1 precursor (cartilage-derived c-type lectin). [swissprot;acc:o75596]	284	CLEC3A	Squared	59464	76120.8	1.28012
	488		Measured	10872.4	12447	1.14483
	686		Rooted	86.4264	92.8635	1.07448
	844		Ranked	178.033	170.82	1.04223
c1 domain-containing phosphatase and tensin-like protein isoform 2; putative protein tyrosine phosphatase; c1 domain-containing phosphatase and tensin-like protein; tensin 2. [refseq;acc:nm_015319]	1528	TENC1	Measured	5869.97	6301.24	1.07347
	1580		Squared	27757.8	30834	1.11082
	1693		Rooted	62.1092	64.1674	1.03314
	2475		Ranked	218.219	217.571	1.00298
c18b11 homolog (44.9kd). [refseq;acc:nm_152260]	707	RPUSD2	Measured	5317.78	5944.25	1.11781
	760		Squared	21186.4	24698.3	1.16576
	1035		Rooted	60.6801	63.8644	1.05248
	1625		Ranked	217.446	214.2	1.01515
c316g12.2 (novel protein similar to predicted yeast, worm and archae- bacterial proteins) (similar to und313) (s. cervisiae) (hypothetical protein). [sptrembl;acc:q9ujk0]	1493	C16orf42	Rooted	66.7295	69.2425	1.03766
	1506		Ranked	212.103	208.339	1.01807
	2120		Measured	6951.29	7329	1.05434
	2627		Squared	37111.5	38198.5	1.02929
c367g8.3 (novel protein similar to rpl23a (60s ribosomal protein l23a)) (60s ribosomal protein l23a like). [sptrembl;acc:q9br02]	321	no value	Ranked	241.892	265.959	1.09949
	421		Rooted	50.4666	45.9317	1.09873
	1951		Squared	12628.2	13801.5	1.09291
	2174		Measured	3641.45	3463.02	1.05152
c439a6.1 (novel protein similar to heparan sulfate (glucosamine) 3-o- sulfotransferases) (fragment). [sptrembl;acc:q96qi5]	185	HS3ST6	Squared	41502.9	30836.8	1.34589
	260		Ranked	219.421	196.978	1.11394
	899		Rooted	66.5785	70.6139	1.06061
	2421		Measured	7355.46	7088.93	1.0376
ca2+-dependent endoplasmic reticulum nucleoside diphosphatase; apyrase; soluble calcium-activated nucleotidase scan-1. [refseq;acc:nm_138793]	334	CANT1	Squared	64975.9	81151.2	1.24894
	874		Measured	9921.43	10941.2	1.10278
	1486		Rooted	79.3006	82.3013	1.03784
	2577		Ranked	192.625	192.922	1.00154
caax prenyl protease 1 homolog (ec 3.4.24.-) (prenyl protein-specific endoprotease 1) (farnesylated-proteins converting enzyme 1) (face-1) (zinc metalloproteinase ste24 homolog). [swissprot;acc:o75844]	941	ZMPSTE24	Measured	4970.21	5455.34	1.09761
	1086		Squared	19918.7	22827.3	1.14602
	1136		Rooted	57.8919	60.7081	1.04865
	1448		Ranked	226.532	222.117	1.01988
cab2. [refseq;acc:nm_033419]	769	PERLD1		210.946	221.225	1.04873

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.