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

Results: HTML CSV LaTeX

Showing element 51 to 100 of 25824 in total

Interaction Map  : High confidence
Filtered  : 1

Rank	Hugo	Network Comparison Type	description	Value Type	red	green	network_comparison
7	MRPS17	Subtracted	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]	Measured	21185	28492	7307
	PANK2		pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23]	Rooted	145.551	168.796	23.245
	SMPD2	Divided	sphingomyelin phosphodiesterase 2 (ec 3.1.4.12) (neutral sphingomyelinase) (nsmase) (n-smase) (lyso-platelet activating factor- phospholipase c) (lyso-paf-plc). [swissprot;acc:o60906]	Measured	1153.5	339.5	3.39764
				Squared	314.926	27.2805	11.544
				Rooted	33.9632	18.4255	1.84327
	UFC1	Subtracted	protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8]	Ranked	288.754	212.554	76.2
8	DNASE2B		deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233]	Squared	250303	354894	104591
	HBS1L	Divided	hbs1-like. [refseq;acc:nm_006620]	Ranked	215	322	1.49767
	JPH3	Subtracted	junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2]		288	362	74
	PANK1		pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04]	Measured	21185	28492	7307
	PANK3		pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999]	Rooted	145.551	168.796	23.245
	TMEM33	Divided	db83 protein. [swissprot;acc:p57088]	Measured	1153.5	339.5	3.39764
				Squared	314.926	27.2805	11.544
				Rooted	33.9632	18.4255	1.84327
9	JPH2	Subtracted	junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39]	Ranked	288	362	74
	PANK2		pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23]	Measured	21185	28492	7307
	PPP1R7		protein phosphatase 1, regulatory subunit 7; sds22. [refseq;acc:nm_002712]	Squared	256169	162517	93652
	SLC25A43		mitochondrial solute carrier protein. [refseq;acc:nm_145305]	Rooted	145.551	168.796	23.245
	TOB2	Divided	tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106]	Measured	398.5	1281.5	3.21581
				Squared	37.5863	388.696	10.3414
				Rooted	19.9625	35.798	1.79326
	XAB1		xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]	Ranked	212	309	1.45755
10	ATPBD1C		protein x 0004. [refseq;acc:nm_016301]
	MAGED4	Subtracted	melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]	Squared	219048	129762	89286
	PANK3		pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999]	Measured	21185	28492	7307
	SMPD2		sphingomyelin phosphodiesterase 2 (ec 3.1.4.12) (neutral sphingomyelinase) (nsmase) (n-smase) (lyso-platelet activating factor- phospholipase c) (lyso-paf-plc). [swissprot;acc:o60906]	Ranked	288	362	74
	TOB1	Divided	tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616]	Measured	398.5	1281.5	3.21581
				Squared	37.5863	388.696	10.3414
				Rooted	19.9625	35.798	1.79326
	XAB1	Subtracted	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]		51.6817	29.5127	22.169
11	ATPBD1C		protein x 0004. [refseq;acc:nm_016301]
	DAB2IP	Divided	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]	Measured	398.5	1281.5	3.21581
				Squared	37.5863	388.696	10.3414
				Rooted	19.9625	35.798	1.79326
	MAGEE2	Subtracted	hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703]	Squared	219048	129762	89286
	RINT1	Divided	rad50-interacting protein 1. [refseq;acc:nm_021930]	Ranked	337	232	1.45259
	SLC25A43	Subtracted	mitochondrial solute carrier protein. [refseq;acc:nm_145305]	Measured	21185	28492	7307
	TMEM33		db83 protein. [swissprot;acc:p57088]	Ranked	288	362	74
12	no value		guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262]		266.856	336.233	69.377
			melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357]	Squared	219048	129762	89286
			nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]	Measured	34190.9	40795.8	6604.9
	ARRB2		beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121]	Rooted	80.4705	101.526	21.0555
	CPEB4	Divided	cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627]	Measured	398.5	1281.5	3.21581
				Squared	37.5863	388.696	10.3414
				Rooted	19.9625	35.798	1.79326
	RHOBTB2		rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	Ranked	337	232	1.45259
13	ARRB1	Subtracted	beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407]	Rooted	80.4705	101.526	21.0555
	CPEB3	Divided	cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912]	Measured	398.5	1281.5	3.21581
				Squared	37.5863	388.696	10.3414
				Rooted	19.9625	35.798	1.79326

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.