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

Results: HTML CSV LaTeX

Showing element 1601 to 1650 of 6456 in total

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

description	Rank	Hugo	Network Comparison Type	red	green	network_comparison
dj850e9.1 (novel c2h2 type zinc finger protein similar to drosophila scratch (scrt), slug and xenopus snail) (fragment). [sptrembl;acc:q9nq03]	1879	no value	Subtracted	210.592	208.355	2.237
	1881		Divided			1.01074
dj947l8.1.1 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4v7]	1304		Subtracted	218.509	213.648	4.861
	1329		Divided			1.02275
dj947l8.1.6 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4w2]	1302	CSMD1	Subtracted			4.861
	1326		Divided			1.02275
dj999l4.1 (novel protein similar to ribosomal protein l12 (rpl12)). [sptrembl;acc:q9nq02]	248	no value	Subtracted	243.583	267.527	23.944
	339		Divided			1.0983
dna damage binding protein 1 (damage-specific dna binding protein 1) (ddb p127 subunit) (ddba) (uv-damaged dna-binding protein 1) (uv-ddb 1) (xeroderma pigmentosum group e complementing protein) (xpce) (x- associated protein 1) (xap-1). [swissprot;acc:q16531]	1008	DDB1	Subtracted	222.364	215.535	6.829
	1029		Divided			1.03168
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]	839	no value	Subtracted	230.764	239.62	8.856
	906		Divided			1.03838
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	239.632	8.864
	905		Divided			1.03841
dna excision repair protein ercc-1. [swissprot;acc:p07992]	3216	ERCC1		0.00001	0.00001	1
			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	216.341	0.506
	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	DFFA	Subtracted			0.506
	2517		Divided			1.00234
dna ligase i (ec 6.5.1.1) (polydeoxyribonucleotide synthase [atp]). [swissprot;acc:p18858]	3103	LIG1		0.00001	0.00001	1
			Subtracted	0	0	0
dna ligase iv (ec 6.5.1.1) (polydeoxyribonucleotide synthase [atp]). [swissprot;acc:p49917]	2808	LIG4	Divided	0.00001	0.00001	1
			Subtracted	0	0	0
dna methyltransferase 1-associated protein 1 (dnmt1-associated protein 1) (dnmap1). [swissprot;acc:q9npf5]	2796	DMAP1	Divided	0.00001	0.00001	1
			Subtracted	0	0	0
dna mismatch repair protein mlh1 (mutl protein homolog 1). [swissprot;acc:p40692]	1871	MLH1		212.186	214.467	2.281
	1878		Divided			1.01075
dna mismatch repair protein mlh3 (mutl protein homolog 3). [swissprot;acc:q9uhc1]	1749	MLH3		206.058	203.485	1.01264
	1772		Subtracted			2.573
dna mismatch repair protein msh2. [swissprot;acc:p43246]	3151	MSH2	Divided	0.00001	0.00001	1
			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	MSH6	Divided	0.00001	0.00001	1
			Subtracted	0	0	0
dna polymerase delta p38 subunit. [refseq;acc:nm_015584]	1830	POLDIP2		222.819	225.228	2.409
	1872		Divided			1.01081
dna polymerase epsilon p12 subunit (dna polymerase epsilon subunit 4). [swissprot;acc:q9nr33]	112	POLE4	Subtracted	275.754	235.908	39.846
	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	POLE3	Subtracted	250.854	255.842	4.988
	1447		Divided			1.01988
dna polymerase epsilon subunit b (ec 2.7.7.7) (dna polymerase ii subunit b). [swissprot;acc:p56282]	1516	POLE2	Subtracted	246.38	242.596	3.784
	1615		Divided			1.0156
dna polymerase epsilon, catalytic subunit a (ec 2.7.7.7) (dna polymerase ii subunit a). [swissprot;acc:q07864]	615	POLE	Subtracted	241.907	229.35	12.557
	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	POLG	Subtracted	216.324	214.599	1.725
	2074		Divided			1.00804
dna repair protein rad51 homolog 1 (hrad51) (hsrad51). [swissprot;acc:q06609]	2328	RAD51	Subtracted	219.878	218.893	0.985
	2345		Divided			1.0045
dna repair protein rad52 homolog. [swissprot;acc:p43351]	399	RAD52	Subtracted	207.908	226.218	18.31
	404		Divided			1.08807

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.