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 description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 1 to 50 of 9634 in total 
Value Type	Measured
Network Comparison Type	Divided

Rank	description	Interaction Map	Filtered	red	green	network_comparison	
1	lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [source:swissprot;acc:p11279]	Low confidence	1	2399.5	543.5	4.4149	
1	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [source:swissprot;acc:q9y6g3]	High confidence	0	364	0.00001	36400000	
1	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [source:swissprot;acc:q9y6g3]	Low confidence	0	364	0.00001	36400000	
1	rad50-interacting protein 1. [source:refseq;acc:nm_021930]	High confidence	1	450.5	2394.5	5.31521	
2	cab2. [source:refseq;acc:nm_033419]	High confidence	0	0.00001	174	17400000	
2	cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [source:swissprot;acc:p11802]	Low confidence	1	2399.5	543.5	4.4149	
2	homeobox protein hox-c4 (hox-3e) (cp19). [source:swissprot;acc:p09017]	Low confidence	0	0.00001	89	8900000	
2	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [source:swissprot;acc:q9byz6]	High confidence	1	450.5	2394.5	5.31521	
3	cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [source:swissprot;acc:q00534]	Low confidence	1	2399.5	543.5	4.4149	
3	homeobox protein hlx1 (homeobox protein hb24). [source:swissprot;acc:q14774]	High confidence	1	2597.5	698.5	3.71868	
3	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [source:swissprot;acc:p09630]	Low confidence	0	0.00001	89	8900000	
3	pyridoxine 5'-phosphate oxidase. [source:refseq;acc:nm_018129]	High confidence	0	0.00001	109	10900000	
4	hbs1-like. [source:refseq;acc:nm_006620]	High confidence	1	2597.5	698.5	3.71868	
4	homeobox protein hox-a4 (hox-1d) (hox-1.4). [source:swissprot;acc:q00056]	Low confidence	0	0.00001	89	8900000	
4	homeobox protein hox-c4 (hox-3e) (cp19). [source:swissprot;acc:p09017]	High confidence	0	0.00001	89	8900000	
4	lysosome-associated membrane glycoprotein 2 precursor (lamp-2) (cd107b antigen). [source:swissprot;acc:p13473]	Low confidence	1	2399.5	543.5	4.4149	
5	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [source:swissprot;acc:p09630]	High confidence	0	0.00001	89	8900000	
5	jumonji protein. [source:swissprot;acc:q92833]	Low confidence	0	0.00001	17.5166	1751660	
5	junctophilin 3 (junctophilin type 3) (jp-3). [source:swissprot;acc:q8wxh2]	High confidence	1	1153.5	339.5	3.39764	
5	oxysterol binding protein-related protein 6 (osbp-related protein 6) (orp-6). [source:swissprot;acc:q9bzf3]	Low confidence	1	736.5	2113.5	2.86965	
6	homeobox protein hox-a4 (hox-1d) (hox-1.4). [source:swissprot;acc:q00056]	High confidence	0	0.00001	89	8900000	
6	homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [source:swissprot;acc:q93099]	Low confidence	0	13	0.00001	1300000	
6	junctophilin 2 (junctophilin type 2) (jp-2). [source:swissprot;acc:q9br39]	High confidence	1	1153.5	339.5	3.39764	
6	oxysterol binding protein-related protein 3 (osbp-related protein 3) (orp-3). [source:swissprot;acc:q9h4l5]	Low confidence	1	736.5	2113.5	2.86965	
7	oxysterol binding protein-related protein 7 (osbp-related protein 7) (orp-7). [source:swissprot;acc:q9bzf2]	Low confidence	1	736.5	2113.5	2.86965	
7	sedlin. [source:swissprot;acc:o14582]	High confidence	0	0.00001	43	4300000	
7	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	1	1153.5	339.5	3.39764	
7	tbc1 domain family, member 8 (with gram domain); vascular rab-gap/tbc-containing. [source:refseq;acc:nm_007063]	Low confidence	0	2.31962	0.00001	231962	
8	ba508n22.1 (hspc025) (fragment). [source:sptrembl;acc:q9hcw5]	Low confidence	0	85	6410	75.4118	
8	db83 protein. [source:swissprot;acc:p57088]	High confidence	1	1153.5	339.5	3.39764	
8	phosphatidylinositol-glycan biosynthesis, class f protein (pig-f). [source:swissprot;acc:q07326]	Low confidence	1	3278	5058.5	1.54317	
8	synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [source:swissprot;acc:q9y296]	High confidence	0	0.00001	43	4300000	
9	ba508n22.1 (hspc025) (fragment). [source:sptrembl;acc:q9hcw5]	High confidence	0	85	6410	75.4118	
9	n33 protein. [source:swissprot;acc:q13454]	Low confidence	1	3278	5058.5	1.54317	
9	tob2 protein (transducer of erbb-2 2). [source:swissprot;acc:q14106]	High confidence	1	398.5	1281.5	3.21581	
9	ubiquitously transcribed y chromosome tetratricopeptide repeat protein (ubiquitously transcribed tpr protein on the y chromosome). [source:swissprot;acc:o14607]	Low confidence	0	383.762	10.6048	36.1876	
10	implantation-associated protein. [source:refseq;acc:nm_032121]	Low confidence	1	3278	5058.5	1.54317	
10	lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [source:swissprot;acc:p50851]	High confidence	0	85	6410	75.4118	
10	serpin b12. [source:swissprot;acc:q96p63]	Low confidence	0	199.549	5.56738	35.8425	
10	tob1 protein (transducer of erbb-2 1). [source:swissprot;acc:p50616]	High confidence	1	398.5	1281.5	3.21581	
11	dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [source:refseq;acc:nm_032552]	High confidence	1	398.5	1281.5	3.21581	
11	hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [source:swissprot;acc:q9uiv8]	Low confidence	0	199.249	5.71669	34.8539	
11	serpin b12. [source:swissprot;acc:q96p63]	High confidence	0	199.549	5.56738	35.8425	
11	thyroid receptor interacting protein 8 (trip-8) (fragment). [source:swissprot;acc:q15652]	Low confidence	1	1917.64	2950.5	1.53861	
12	cytoplasmic polyadenylation element binding protein 4. [source:refseq;acc:nm_030627]	High confidence	1	398.5	1281.5	3.21581	
12	gbp protein isoform a. [source:refseq;acc:nm_017870]	Low confidence	1	1921.96	2954.24	1.5371	
12	hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [source:swissprot;acc:q9uiv8]	High confidence	0	199.249	5.71669	34.8539	
12	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [source:swissprot;acc:q14849]	Low confidence	0	859	58	14.8103	
13	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [source:swissprot;acc:q9np61]	High confidence	0	1363	47	29	
13	cytoplasmic polyadenylation element binding protein 3. [source:refseq;acc:nm_014912]	High confidence	1	398.5	1281.5	3.21581	

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/