Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

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.

MK5 Proteome Analysis - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.

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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 [...,...].

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

Results: HTML CSV LaTeX

Showing element 51 to 100 of 33156 in total

Network Comparison Type	Divided
Filtered	1

Rank	Value Type	description	Interaction Map	red	green	network_comparison	
7	Ranked	homeobox protein hlx1 (homeobox protein hb24). [source:swissprot;acc:q14774]	High confidence	215	322	1.49767	
7	Ranked	oxysterol binding protein-related protein 3 (osbp-related protein 3) (orp-3). [source:swissprot;acc:q9h4l5]	Low confidence	318	240	1.325	
7	Squared	oxysterol binding protein-related protein 7 (osbp-related protein 7) (orp-7). [source:swissprot;acc:q9bzf2]	Low confidence	128.386	1057.25	8.23493	
7	Squared	sphingomyelin phosphodiesterase 2 (ec 3.1.4.12) (neutral sphingomyelinase) (nsmase) (n-smase) (lyso-platelet activating factor- phospholipase c) (lyso-paf-plc). [source:swissprot;acc:o60906]	High confidence	314.926	27.2805	11.544	
7	Rooted	oxysterol binding protein-related protein 7 (osbp-related protein 7) (orp-7). [source:swissprot;acc:q9bzf2]	Low confidence	27.1385	45.9728	1.69401	
7	Rooted	sphingomyelin phosphodiesterase 2 (ec 3.1.4.12) (neutral sphingomyelinase) (nsmase) (n-smase) (lyso-platelet activating factor- phospholipase c) (lyso-paf-plc). [source:swissprot;acc:o60906]	High confidence	33.9632	18.4255	1.84327	
8	Measured	db83 protein. [source:swissprot;acc:p57088]	High confidence	1153.5	339.5	3.39764	
8	Measured	phosphatidylinositol-glycan biosynthesis, class f protein (pig-f). [source:swissprot;acc:q07326]	Low confidence	3278	5058.5	1.54317	
8	Ranked	hbs1-like. [source:refseq;acc:nm_006620]	High confidence	215	322	1.49767	
8	Ranked	oxysterol binding protein-related protein 7 (osbp-related protein 7) (orp-7). [source:swissprot;acc:q9bzf2]	Low confidence	318	240	1.325	
8	Squared	db83 protein. [source:swissprot;acc:p57088]	High confidence	314.926	27.2805	11.544	
8	Squared	phosphatidylinositol-glycan biosynthesis, class f protein (pig-f). [source:swissprot;acc:q07326]	Low confidence	2543.26	6056.43	2.38136	
8	Rooted	db83 protein. [source:swissprot;acc:p57088]	High confidence	33.9632	18.4255	1.84327	
8	Rooted	thyroid receptor interacting protein 8 (trip-8) (fragment). [source:swissprot;acc:q15652]	Low confidence	31.8641	47.6922	1.49674	
9	Measured	n33 protein. [source:swissprot;acc:q13454]	Low confidence	3278	5058.5	1.54317	
9	Measured	tob2 protein (transducer of erbb-2 2). [source:swissprot;acc:q14106]	High confidence	398.5	1281.5	3.21581	
9	Ranked	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [source:swissprot;acc:q9y2r5]	Low confidence	58	44	1.31818	
9	Ranked	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [source:refseq;acc:nm_007266]	High confidence	212	309	1.45755	
9	Squared	n33 protein. [source:swissprot;acc:q13454]	Low confidence	2543.26	6056.43	2.38136	
9	Squared	tob2 protein (transducer of erbb-2 2). [source:swissprot;acc:q14106]	High confidence	37.5863	388.696	10.3414	
9	Rooted	gbp protein isoform a. [source:refseq;acc:nm_017870]	Low confidence	31.8923	47.7107	1.49599	
9	Rooted	tob2 protein (transducer of erbb-2 2). [source:swissprot;acc:q14106]	High confidence	19.9625	35.798	1.79326	
10	Measured	implantation-associated protein. [source:refseq;acc:nm_032121]	Low confidence	3278	5058.5	1.54317	
10	Measured	tob1 protein (transducer of erbb-2 1). [source:swissprot;acc:p50616]	High confidence	398.5	1281.5	3.21581	
10	Ranked	mitochondrial solute carrier protein. [source:refseq;acc:nm_145305]	Low confidence	58	44	1.31818	
10	Ranked	protein x 0004. [source:refseq;acc:nm_016301]	High confidence	212	309	1.45755	
10	Squared	implantation-associated protein. [source:refseq;acc:nm_032121]	Low confidence	2543.26	6056.43	2.38136	
10	Squared	tob1 protein (transducer of erbb-2 1). [source:swissprot;acc:p50616]	High confidence	37.5863	388.696	10.3414	
10	Rooted	jumonji domain containing 1; zinc finger protein; testis-specific protein a. [source:refseq;acc:nm_018433]	Low confidence	31.9296	47.7352	1.49501	
10	Rooted	tob1 protein (transducer of erbb-2 1). [source:swissprot;acc:p50616]	High confidence	19.9625	35.798	1.79326	
11	Measured	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [source:refseq;acc:nm_032552]	High confidence	398.5	1281.5	3.21581	
11	Measured	thyroid receptor interacting protein 8 (trip-8) (fragment). [source:swissprot;acc:q15652]	Low confidence	1917.64	2950.5	1.53861	
11	Ranked	bestrophin (vitelliform macular dystrophy protein) (tu15b). [source:swissprot;acc:o76090]	Low confidence	37.318	28.4944	1.30966	
11	Ranked	rad50-interacting protein 1. [source:refseq;acc:nm_021930]	High confidence	337	232	1.45259	
11	Squared	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [source:swissprot;acc:q9y2r5]	Low confidence	106226	192141	1.80879	
11	Squared	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [source:refseq;acc:nm_032552]	High confidence	37.5863	388.696	10.3414	
11	Rooted	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [source:refseq;acc:nm_032552]	High confidence	19.9625	35.798	1.79326	
11	Rooted	trypsin iii precursor (ec 3.4.21.4) (brain trypsinogen) (mesotrypsinogen) (trypsin iv). [source:swissprot;acc:p35030]	Low confidence	32.2231	47.928	1.48738	
12	Measured	cytoplasmic polyadenylation element binding protein 4. [source:refseq;acc:nm_030627]	High confidence	398.5	1281.5	3.21581	
12	Measured	gbp protein isoform a. [source:refseq;acc:nm_017870]	Low confidence	1921.96	2954.24	1.5371	
12	Ranked	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [source:swissprot;acc:q9byz6]	High confidence	337	232	1.45259	
12	Ranked	vitelliform macular dystrophy 2-like protein 2. [source:refseq;acc:nm_153274]	Low confidence	37.3475	28.5242	1.30933	
12	Squared	cytoplasmic polyadenylation element binding protein 4. [source:refseq;acc:nm_030627]	High confidence	37.5863	388.696	10.3414	
12	Squared	mitochondrial solute carrier protein. [source:refseq;acc:nm_145305]	Low confidence	106226	192141	1.80879	
12	Rooted	cytoplasmic polyadenylation element binding protein 4. [source:refseq;acc:nm_030627]	High confidence	19.9625	35.798	1.79326	
12	Rooted	trypsin i precursor (ec 3.4.21.4) (cationic trypsinogen). [source:swissprot;acc:p07477]	Low confidence	32.2966	47.9763	1.48549	
13	Measured	cytoplasmic polyadenylation element binding protein 3. [source:refseq;acc:nm_014912]	High confidence	398.5	1281.5	3.21581	
13	Measured	jumonji domain containing 1; zinc finger protein; testis-specific protein a. [source:refseq;acc:nm_018433]	Low confidence	1927.68	2959.19	1.5351	
13	Ranked	nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [source:refseq;acc:nm_006333]	Low confidence	37.9984	29.1831	1.30207	
13	Ranked	protein cgi-126 (protein hspc155). [source:swissprot;acc:q9y3c8]	High confidence	288.754	212.554	1.3585	

Legend:
- Rank is the rank after comparing the two networks
- 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.

- http://analysis.yellowcouch.org/