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 Network Comparison Type description Interaction Map red Filtered green network_comparison
Results: HTML CSV LaTeX Showing element 51 to 100 of 29840 in total 
Interaction Map	High confidence

Rank	Value Type	Network Comparison Type	description	red	Filtered	green	network_comparison	
4	Measured	Subtracted	cytohesin 4. [source:swissprot;acc:q9uia0]	41482.5	1	33356.5	8126	
4	Measured	Subtracted	small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [source:swissprot;acc:p08578]	18704	0	21730	3026	
4	Ranked	Divided	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [source:swissprot;acc:q99418]	15	1	28	1.86667	
4	Ranked	Divided	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [source:swissprot;acc:q9y6g3]	8906	0	21883	2.45711	
4	Ranked	Subtracted	nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [source:swissprot;acc:q9bzk7]	11525	0	21888	10363	
4	Ranked	Subtracted	rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [source:swissprot;acc:q9byz6]	337	1	232	105	
4	Squared	Divided	hbs1-like. [source:refseq;acc:nm_006620]	1596.92	1	115.48	13.8285	
4	Squared	Divided	pyridoxine 5'-phosphate oxidase. [source:refseq;acc:nm_018129]	0.00001	0	2.81207	281207	
4	Squared	Subtracted	cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [source:swissprot;acc:q99418]	407289	1	263351	143938	
4	Squared	Subtracted	similar to zinc finger protein 277. [source:sptrembl;acc:q8wwa6]	75446.7	0	105900	30453.3	
4	Rooted	Divided	hbs1-like. [source:refseq;acc:nm_006620]	50.9657	1	26.4292	1.92839	
4	Rooted	Divided	pyridoxine 5'-phosphate oxidase. [source:refseq;acc:nm_018129]	0.00001	0	10.4403	1044030	
4	Rooted	Subtracted	hbs1-like. [source:refseq;acc:nm_006620]	50.9657	1	26.4292	24.5365	
4	Rooted	Subtracted	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [source:swissprot;acc:q14849]	29.3087	0	7.61577	21.6929	
5	Measured	Divided	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [source:swissprot;acc:p09630]	0.00001	0	89	8900000	
5	Measured	Divided	junctophilin 3 (junctophilin type 3) (jp-3). [source:swissprot;acc:q8wxh2]	1153.5	1	339.5	3.39764	
5	Measured	Subtracted	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [source:swissprot;acc:o43739]	41482.5	1	33356.5	8126	
5	Measured	Subtracted	histone h4. [source:swissprot;acc:p02304]	21773.1	0	24446.3	2673.2	
5	Ranked	Divided	cytohesin 4. [source:swissprot;acc:q9uia0]	15	1	28	1.86667	
5	Ranked	Divided	ubiquitin-like protein smt3b (sentrin 2) (hsmt3). [source:swissprot;acc:p55855]	5510.5	0	11965.7	2.17144	
5	Ranked	Subtracted	transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [source:swissprot;acc:q9bq87]	11525	0	21888	10363	
5	Ranked	Subtracted	xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [source:refseq;acc:nm_007266]	212	1	309	97	
5	Squared	Divided	homeobox protein hox-c4 (hox-3e) (cp19). [source:swissprot;acc:p09017]	0.00001	0	1.87479	187479	
5	Squared	Divided	junctophilin 3 (junctophilin type 3) (jp-3). [source:swissprot;acc:q8wxh2]	314.926	1	27.2805	11.544	
5	Squared	Subtracted	cytohesin 4. [source:swissprot;acc:q9uia0]	407289	1	263351	143938	
5	Squared	Subtracted	zinc finger protein 277. [source:swissprot;acc:q9nrm2]	75446.7	0	105900	30453.3	
5	Rooted	Divided	homeobox protein hox-c4 (hox-3e) (cp19). [source:swissprot;acc:p09017]	0.00001	0	9.43398	943398	
5	Rooted	Divided	junctophilin 3 (junctophilin type 3) (jp-3). [source:swissprot;acc:q8wxh2]	33.9632	1	18.4255	1.84327	
5	Rooted	Subtracted	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [source:swissprot;acc:q9y2r5]	145.551	1	168.796	23.245	
5	Rooted	Subtracted	mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [source:swissprot;acc:q9y6g3]	19.0788	0	0	19.0788	
6	Measured	Divided	homeobox protein hox-a4 (hox-1d) (hox-1.4). [source:swissprot;acc:q00056]	0.00001	0	89	8900000	
6	Measured	Divided	junctophilin 2 (junctophilin type 2) (jp-2). [source:swissprot;acc:q9br39]	1153.5	1	339.5	3.39764	
6	Measured	Subtracted	putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [source:refseq;acc:nm_016172]	44490.5	1	36927.5	7563	
6	Measured	Subtracted	similar to zinc finger protein 277. [source:sptrembl;acc:q8wwa6]	13174.7	0	15605.1	2430.4	
6	Ranked	Divided	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [source:swissprot;acc:o43739]	15	1	28	1.86667	
6	Ranked	Divided	ubiquitin protein ligase. [source:refseq;acc:nm_130466]	7523	0	15339.2	2.03897	
6	Ranked	Subtracted	mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [source:swissprot;acc:q14849]	5865	0	14977	9112	
6	Ranked	Subtracted	protein x 0004. [source:refseq;acc:nm_016301]	212	1	309	97	
6	Squared	Divided	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [source:swissprot;acc:p09630]	0.00001	0	1.87479	187479	
6	Squared	Divided	junctophilin 2 (junctophilin type 2) (jp-2). [source:swissprot;acc:q9br39]	314.926	1	27.2805	11.544	
6	Squared	Subtracted	ataxin 2; olivopontocerebellar ataxia 2, autosomal dominant. [source:refseq;acc:nm_002973]	73080.8	0	102814	29733.2	
6	Squared	Subtracted	cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [source:swissprot;acc:o43739]	407289	1	263351	143938	
6	Rooted	Divided	homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [source:swissprot;acc:p09630]	0.00001	0	9.43398	943398	
6	Rooted	Divided	junctophilin 2 (junctophilin type 2) (jp-2). [source:swissprot;acc:q9br39]	33.9632	1	18.4255	1.84327	
6	Rooted	Subtracted	pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [source:swissprot;acc:q8te04]	145.551	1	168.796	23.245	
6	Rooted	Subtracted	potential phospholipid-transporting atpase iia (ec 3.6.1.-). [source:swissprot;acc:o75110]	12.1655	0	27.8029	15.6374	
7	Measured	Divided	sedlin. [source:swissprot;acc:o14582]	0.00001	0	43	4300000	
7	Measured	Divided	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]	1153.5	1	339.5	3.39764	
7	Measured	Subtracted	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [source:swissprot;acc:q9y2r5]	21185	1	28492	7307	
7	Measured	Subtracted	zinc finger protein 277. [source:swissprot;acc:q9nrm2]	13174.7	0	15605.1	2430.4	

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/