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

Results: HTML CSV LaTeX

Showing element 1612 to 1661 of 6456 in total

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

description	Rank	Network Comparison Type	Hugo	red	network_comparison	green
dna directed rna polymerase ii polypeptide j-related gene isoform 1; rpb11b1alpha protein; rpb11b1beta; dna-directed rna polymerase ii subunit 11. [refseq;acc:nm_145325]	906	Divided	no value	230.764	1.03838	239.62
dna directed rna polymerase ii polypeptide j-related gene isoform 3; rpb11b1alpha protein; rpb11b1beta; dna-directed rna polymerase ii subunit 11. [refseq;acc:nm_032959]	834	Subtracted		230.768	8.864	239.632
	905	Divided			1.03841
dna excision repair protein ercc-1. [swissprot;acc:p07992]	3216		ERCC1	0.00001	1	0.00001
		Subtracted		0	0	0
dna fragmentation factor 40 kda subunit (ec 3.-.-.-) (dff-40) (caspase-activated deoxyribonuclease) (caspase-activated dnase) (cad) (caspase-activated nuclease) (cpan). [swissprot;acc:o76075]	2512		DFFB	215.835	0.506	216.341
	2515	Divided			1.00234
dna fragmentation factor alpha subunit (dna fragmentation factor 45 kda subunit) (dff-45) (inhibitor of cad) (icad). [swissprot;acc:o00273]	2514	Subtracted	DFFA		0.506
	2517	Divided			1.00234
dna ligase i (ec 6.5.1.1) (polydeoxyribonucleotide synthase [atp]). [swissprot;acc:p18858]	3103		LIG1	0.00001	1	0.00001
		Subtracted		0	0	0
dna ligase iv (ec 6.5.1.1) (polydeoxyribonucleotide synthase [atp]). [swissprot;acc:p49917]	2808	Divided	LIG4	0.00001	1	0.00001
		Subtracted		0	0	0
dna methyltransferase 1-associated protein 1 (dnmt1-associated protein 1) (dnmap1). [swissprot;acc:q9npf5]	2796	Divided	DMAP1	0.00001	1	0.00001
		Subtracted		0	0	0
dna mismatch repair protein mlh1 (mutl protein homolog 1). [swissprot;acc:p40692]	1871		MLH1	212.186	2.281	214.467
	1878	Divided			1.01075
dna mismatch repair protein mlh3 (mutl protein homolog 3). [swissprot;acc:q9uhc1]	1749		MLH3	206.058	1.01264	203.485
	1772	Subtracted			2.573
dna mismatch repair protein msh2. [swissprot;acc:p43246]	3151	Divided	MSH2	0.00001	1	0.00001
		Subtracted		0	0	0
dna mismatch repair protein msh6 (muts-alpha 160 kda subunit) (g/t mismatch binding protein) (gtbp) (gtmbp) (p160). [swissprot;acc:p52701]	3045	Divided	MSH6	0.00001	1	0.00001
		Subtracted		0	0	0
dna polymerase delta p38 subunit. [refseq;acc:nm_015584]	1830		POLDIP2	222.819	2.409	225.228
	1872	Divided			1.01081
dna polymerase epsilon p12 subunit (dna polymerase epsilon subunit 4). [swissprot;acc:q9nr33]	112	Subtracted	POLE4	275.754	39.846	235.908
	176	Divided			1.1689
dna polymerase epsilon p17 subunit (dna polymerase epsilon subunit 3) (chromatin accessibility complex 17) (huchrac17) (chrac-17). [swissprot;acc:q9nrf9]	1277	Subtracted	POLE3	250.854	4.988	255.842
	1447	Divided			1.01988
dna polymerase epsilon subunit b (ec 2.7.7.7) (dna polymerase ii subunit b). [swissprot;acc:p56282]	1516	Subtracted	POLE2	246.38	3.784	242.596
	1615	Divided			1.0156
dna polymerase epsilon, catalytic subunit a (ec 2.7.7.7) (dna polymerase ii subunit a). [swissprot;acc:q07864]	615	Subtracted	POLE	241.907	12.557	229.35
	694	Divided			1.05475
dna polymerase gamma subunit 1 (ec 2.7.7.7) (mitochondrial dna polymerase catalytic subunit) (polg-alpha). [swissprot;acc:p54098]	2064	Subtracted	POLG	216.324	1.725	214.599
	2074	Divided			1.00804
dna repair protein rad51 homolog 1 (hrad51) (hsrad51). [swissprot;acc:q06609]	2328	Subtracted	RAD51	219.878	0.985	218.893
	2345	Divided			1.0045
dna repair protein rad52 homolog. [swissprot;acc:p43351]	399	Subtracted	RAD52	207.908	18.31	226.218
	404	Divided			1.08807
dna replication licensing factor mcm3 (dna polymerase alpha holoenzyme-associated protein p1) (rlf beta subunit) (p102 protein) (p1-mcm3). [swissprot;acc:p25205]	1819	Subtracted	MCM3	233.828	2.433	231.395
	1891	Divided			1.01051
dna replication licensing factor mcm5 (cdc46 homolog) (p1-cdc46). [swissprot;acc:p33992]	1624	Subtracted	MCM5	228.496	3.233	231.729
	1673	Divided			1.01415
dna replication licensing factor mcm8 (minichromosome maintenance 8). [swissprot;acc:q9uja3]	3011		MCM8	0.00001	1	0.00001
		Subtracted		0	0	0
dna segment on chromosome 6(unique) 2654 expressed sequence; dna segment on chromosome x (unique) 2654 expressed sequence. [refseq;acc:nm_012135]	1667		FAM50B	216.899	3.01	213.889
	1681	Divided			1.01407
dna topoisomerase ii, alpha isozyme (ec 5.99.1.3). [swissprot;acc:p11388]	1790		no value	203.759	1.01197	201.349
	1825	Subtracted			2.41
dna topoisomerase ii, beta isozyme (ec 5.99.1.3). [swissprot;acc:q02880]	1796	Divided	TOP2B		1.01193	201.357

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.