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 1458 to 1507 of 8289 in total

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

description	Rank	Hugo	Interaction Map	red	green	network_comparison
chromodomain y-like protein 2. [refseq;acc:nm_152342]	2556	CDYL2	High confidence	193.119	193.46	1.00177
chromodomain-helicase-dna-binding protein 1 (chd-1). [swissprot;acc:o14646]	1894	CHD1	Low confidence	202.184	198.261	1.01979
chromodomain-helicase-dna-binding protein 2 (chd-2). [swissprot;acc:o14647]	1895	CHD2		202.176	198.255	1.01978
chromosome 11 open reading frame2; chromosome 11 open reading frame2. [refseq;acc:nm_013265]	1211	C11orf2	High confidence	214.364	219.759	1.02517
	2165		Low confidence	202.625	198.833	1.01907
chromosome 3p21.1 gene sequence. [refseq;acc:nm_013286]	153	RBM15B	High confidence	249.663	298.263	1.19466
	3551		Low confidence	203.689	200.746	1.01466
chromosome x open reading frame 9; likely ortholog of mouse sh3 gene sly. [refseq;acc:nm_018990]	486	CXorf9		204.331	211.075	1.03301
chromosome-associated kinesin kif4a (chromokinesin). [swissprot;acc:o95239]	1694	KIF4A		201.131	197.077	1.02057
cirhin; testis expressed gene 292; cirrhosis, autosomal recessive 1a. [refseq;acc:nm_032830]	982	CIRH1A	High confidence	243.312	235.351	1.03383
	1522		Low confidence	203.989	199.731	1.02132
cisplatin resistance related protein crr9p. [refseq;acc:nm_030782]	3197	CLPTM1L	High confidence	0.00001	0.00001	1
	4174		Low confidence	199.766	197.712	1.01039
citrate synthase, mitochondrial precursor (ec 2.3.3.1). [swissprot;acc:o75390]	1380	CS		199.901	195.604	1.02197
clathrin coat assembly protein ap17 (clathrin coat associated protein ap17) (plasma membrane adaptor ap-2 17 kda protein) (ha2 17 kda subunit) (clathrin assembly protein 2 small chain). [swissprot;acc:p53680]	351	AP2S1		204.762	197.135	1.03869
clathrin coat assembly protein ap180 (clathrin coat associated protein ap180) (91 kda synaptosomal-associated protein). [swissprot;acc:o60641]	938	SNAP91		203.609	198.648	1.02497
	1392		High confidence	218.471	213.876	1.02148
clathrin coat assembly protein ap50 (clathrin coat associated protein ap50) (plasma membrane adaptor ap-2 50 kda protein) (ha2 50 kda subunit) (clathrin assembly protein complex 2 medium chain) (ap-2 mu 2 chain). [swissprot;acc:p20172]	590	AP2M1	Low confidence	211.788	218.216	1.03035
	2208		High confidence	199.129	200.413	1.00645
clathrin heavy chain 1 (clh-17). [swissprot;acc:q00610]	399	CLTC		207.889	226.226	1.08821
	3363		Low confidence	201.674	198.593	1.01551
clathrin heavy chain 2 (clh-22). [swissprot;acc:p53675]	405	CLTCL1	High confidence	207.931	226.209	1.0879
	3291		Low confidence	201.645	198.534	1.01567
cleavage and polyadenylation specific factor 4, 30kd subunit; cleavage-polyadenylation specificity factor, 30kd; no arches-like (zebrafish) zinc finger protein; cleavage-polyadenylation specificity factor. [refseq;acc:nm_006693]	850	CPSF4	High confidence	107.842	112.329	1.04161
	3825		Low confidence	193.329	190.814	1.01318
cleavage and polyadenylation specific factor 5, 25 kd subunit; pre-mrna cleavage factor im (25kd); pre-mrna cleavage factor im, 25kd subunit. [refseq;acc:nm_007006]	322	NUDT21		212.262	203.991	1.04055
	1657		High confidence	219.314	216.195	1.01443
cleavage and polyadenylation specific factor 6, 68 kd subunit; pre-mrna cleavage factor im (68kd); cleavage and polyadenylation specific factor 6, 68kd subunit; pre-mrna cleavage factor i, 68kd subunit. [refseq;acc:nm_007007]	1480	CPSF6		218.664	214.55	1.01918
	1765		Low confidence	204.752	200.684	1.02027
cleavage and polyadenylation specificity factor, 100 kda subunit (cpsf 100 kda subunit) (fragment). [swissprot;acc:q9p2i0]	871	CPSF2	High confidence	110.2	114.552	1.03949
	3378		Low confidence	194.18	191.237	1.01539
cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570]	854	CPSF1	High confidence	108.289	112.772	1.0414
	2974		Low confidence	192.667	189.478	1.01683
cleavage and polyadenylation specificity factor, 73 kda subunit (cpsf 73 kda subunit). [swissprot;acc:q9ukf6]	1006	CPSF3	High confidence	116.524	120.375	1.03305
	3362		Low confidence	194.547	191.574	1.01552
cleavage stimulation factor subunit 3; cleavage stimulation factor, 3' pre-rna, subunit 3, 77kd. [refseq;acc:nm_001326]	1089	CSTF3	High confidence	121.428	125.004	1.02945
	3628		Low confidence	195.951	193.207	1.0142
cleavage stimulation factor, 50 kda subunit (cstf 50 kda subunit) (cf-1 50 kda subunit). [swissprot;acc:q05048]	3129	CSTF1	High confidence	0.00001	0.00001	1
	3702		Low confidence	201.889	199.149	1.01376
cleavage stimulation factor, 64 kda subunit (cstf 64 kda subunit) (cf-1 64 kda subunit). [swissprot;acc:p33240]	2140	CSTF2	High confidence	161.547	162.665	1.00692
	3237		Low confidence	199.985	196.854	1.01591
cleft lip and palate associated transmembrane protein 1. [refseq;acc:nm_001294]	756	CLPTM1	High confidence	224.434	235.583	1.04968
	1690		Low confidence	207.138	202.959	1.02059
clip-associating protein 1; drosophila 'multiple asters' (mast)-like homolog 1. [refseq;acc:nm_015282]	381	CLASP1		205.928	198.554	1.03714
clll6 protein. [refseq;acc:nm_020456]	2679	C13orf1		203.566	200.041	1.01762
	3028		High confidence	0.00001	0.00001	1
cln3 protein (battenin) (batten disease protein). [swissprot;acc:q13286]	277	no value	Low confidence	211.912	202.965	1.04408
coactosin-like protein. [swissprot;acc:q14019]	1219	COTL1	High confidence	211.959	217.258	1.025
	4736		Low confidence	203.334	202.239	1.00541
coagulation factor xiii a chain precursor (ec 2.3.2.13) (protein- glutamine gamma-glutamyltransferase a chain) (transglutaminase a chain). [swissprot;acc:p00488]	117	F13A1		226.395	211.713	1.06935

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.