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 [...,...].

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

Results: HTML CSV LaTeX

Showing element 1308 to 1357 of 6456 in total

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

description	Rank	Hugo	Network Comparison Type	red	green	network_comparison
ctp synthase (ec 6.3.4.2) (utp--ammonia ligase) (ctp synthetase). [swissprot;acc:p17812]	1885	CTPS	Subtracted	180.609	178.393	2.216
cug triplet repeat rna-binding protein 1 (cug-bp1) (rna-binding protein brunol-2) (deadenylation factor cug-bp) (50 kda nuclear polyadenylated rna-binding protein) (eden-bp). [swissprot;acc:q92879]	1778	CUGBP1		217.984	215.441	2.543
	1801		Divided			1.0118
cug triplet repeat, rna binding protein 2; elav-type rna-binding protein; cug triplet repeat,rna-binding protein 2; cug triplet repeat, rna-binding protein 2; neuroblastoma apoptosis-related rna-binding protein. [refseq;acc:nm_006561]	1780	CUGBP2	Subtracted		215.442	2.542
	1804		Divided			1.0118
cullin homolog 1 (cul-1). [swissprot;acc:q13616]	129	CUL1	Subtracted	285.684	252.234	33.45
	212		Divided			1.13261
cullin homolog 2 (cul-2). [swissprot;acc:q13617]	127	CUL2	Subtracted			33.45
	210		Divided			1.13261
cyclic-amp-dependent transcription factor atf-2 (activating transcription factor 2) (camp response element binding protein cre- bp1) (hb16). [swissprot;acc:p15336]	1357	ATF2	Subtracted	218.657	214.11	4.547
	1401		Divided			1.02124
cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [swissprot;acc:p18847]	28	ATF3		201.949	153.671	1.31416
	96		Subtracted			48.278
cyclic-amp-dependent transcription factor atf-6 alpha (activating transcription factor 6 alpha) (atf6-alpha). [swissprot;acc:p18850]	1669	ATF6		216.899	213.889	3.01
	1683		Divided			1.01407
cyclic-amp-dependent transcription factor atf-6 beta (activating transcription factor 6 beta) (atf6-beta) (camp responsive element binding protein-like 1) (camp response element binding protein-related protein) (creb-rp) (g13 protein). [swissprot;acc:q99941]	1666	CREBL1	Subtracted			3.01
	1680		Divided			1.01407
cyclic-amp-dependent transcription factor atf-7 (activating transcription factor 7) (transcription factor atf-a). [swissprot;acc:p17544]	1356	ATF7	Subtracted	218.667	214.118	4.549
	1400		Divided			1.02125
cyclin c. [swissprot;acc:p24863]	1794	CCNC	Subtracted	217.071	214.564	2.507
	1812		Divided			1.01168
cyclin g1 (cyclin g). [swissprot;acc:p51959]	963	CCNG1		130.066	134.527	1.0343
	1384		Subtracted			4.461
cyclin g2. [swissprot;acc:q16589]	962	CCNG2	Divided			1.0343
	1383		Subtracted			4.461
cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946]	2983	CCNH	Divided	0.00001	0.00001	1
			Subtracted	0	0	0
cyclin k. [swissprot;acc:o75909]	3160	CCNK	Divided	0.00001	0.00001	1
			Subtracted	0	0	0
cyclin m1; ancient conserved domain protein 1. [refseq;acc:nm_020348]	2606	CNNM1	Divided	214.5	214.198	1.00141
	2624		Subtracted			0.302
cyclin m2; ancient conserved domain protein 2. [refseq;acc:nm_017649]	2604	CNNM2	Divided	214.486	214.184	1.00141
	2618		Subtracted			0.302
cyclin m3; ancient conserved domain protein 3. [refseq;acc:nm_017623]	2601	CNNM3	Divided	214.502	214.2	1.00141
	2614		Subtracted			0.302
cyclin m4; ancient conserved domain protein 4. [refseq;acc:nm_020184]	2603	CNNM4	Divided	214.494	214.192	1.00141
	2616		Subtracted			0.302
cyclin t1 (cyclin t) (cyct1). [swissprot;acc:o60563]	3002	CCNT1	Divided	0.00001	0.00001	1
			Subtracted	0	0	0
cyclin t2. [swissprot;acc:o60583]	3171	CCNT2	Divided	0.00001	0.00001	1
			Subtracted	0	0	0
cyclin-dependent kinase (cdc2-like) 11; death-preventing kinase. [refseq;acc:nm_015076]	2892	CDC2L6	Divided	0.00001	0.00001	1
			Subtracted	0	0	0
cyclin-dependent kinase 2-associated protein 1 (cdk2-associated protein 1) (putative oral cancer suppressor) (deleted in oral cancer- 1) (doc-1). [swissprot;acc:o14519]	169	CDK2AP1		312	284	28
	336		Divided			1.09859
cyclin-dependent kinases regulatory subunit 1 (cks-1) (sid1334) (pnas-16 / pnas-143). [swissprot;acc:p33551]	1452	no value		160.381	163.554	1.01978
	1638		Subtracted			3.173
cyclin-dependent kinases regulatory subunit 2 (cks-2). [swissprot;acc:p33552]	1833	CKS2	Divided	180.409	182.459	1.01136
	1955		Subtracted			2.05
cylindromatosis (turban tumor syndrome); cylindromatosis 1, turban tumor syndrome. [refseq;acc:nm_015247]	2560	CYLD		219.907	220.267	0.36

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.