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 [...,...].
Gene Rank Value Type Filtered description red Interaction Map Network Comparison Type green network_comparison
Results: HTML CSV LaTeX Showing element 1 to 50 of 14920 in total
Interaction Map  : High confidence
Network Comparison Type  : Divided
Rank
Value Type
Filtered
description
red
green
network_comparison
1 Measured 0 mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3] 364 0.00001 36400000
1 rad50-interacting protein 1. [refseq;acc:nm_021930] 450.5 2394.5 5.31521
Ranked 0 adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61] 4294 15915 3.70633
1 putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172] 10 24 2.4
Squared 0 cab2. [refseq;acc:nm_033419] 0.00001 7.16592 716592
1 rad50-interacting protein 1. [refseq;acc:nm_021930] 48.0356 1357.07 28.2513
Rooted 0 mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3] 19.0788 0.00001 1907880
1 rad50-interacting protein 1. [refseq;acc:nm_021930] 21.225 48.9336 2.30547
2 Measured 0 cab2. [refseq;acc:nm_033419] 0.00001 174 17400000
1 rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6] 450.5 2394.5 5.31521
Ranked 0 mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849] 5865 14977 2.55362
1 mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [swissprot;acc:o60476] 15 28 1.86667
Squared 0 nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7] 5.61325 0.00001 561325
1 rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6] 48.0356 1357.07 28.2513
Rooted 0 nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7] 12.4097 0.00001 1240970
1 rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6] 21.225 48.9336 2.30547
3 Measured 0 pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129] 0.00001 109 10900000
1 homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774] 2597.5 698.5 3.71868
Ranked 0 nif3-like protein 1 (amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 1) (my018 protein) (mds015). [swissprot;acc:q9gzt8] 4475.84 11083.9 2.47638
1 cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438] 15 28 1.86667
Squared 0 transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87] 5.61325 0.00001 561325
1 homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774] 1596.92 115.48 13.8285
Rooted 0 transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87] 12.4097 0.00001 1240970
1 homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774] 50.9657 26.4292 1.92839
4 Measured 0 homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017] 0.00001 89 8900000
1 hbs1-like. [refseq;acc:nm_006620] 2597.5 698.5 3.71868
Ranked 0 mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3] 8906 21883 2.45711
1 cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418] 15 28 1.86667
Squared 0 pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129] 0.00001 2.81207 281207
1 hbs1-like. [refseq;acc:nm_006620] 1596.92 115.48 13.8285
Rooted 0 pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129] 0.00001 10.4403 1044030
1 hbs1-like. [refseq;acc:nm_006620] 50.9657 26.4292 1.92839
5 Measured 0 homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630] 0.00001 89 8900000
1 junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2] 1153.5 339.5 3.39764
Ranked 0 ubiquitin-like protein smt3b (sentrin 2) (hsmt3). [swissprot;acc:p55855] 5510.5 11965.7 2.17144
1 cytohesin 4. [swissprot;acc:q9uia0] 15 28 1.86667
Squared 0 homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017] 0.00001 1.87479 187479
1 junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2] 314.926 27.2805 11.544
Rooted 0 homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017] 0.00001 9.43398 943398
1 junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2] 33.9632 18.4255 1.84327
6 Measured 0 homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056] 0.00001 89 8900000
1 junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39] 1153.5 339.5 3.39764
Ranked 0 ubiquitin protein ligase. [refseq;acc:nm_130466] 7523 15339.2 2.03897
1 cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739] 15 28 1.86667
Squared 0 homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630] 0.00001 1.87479 187479
1 junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39] 314.926 27.2805 11.544
Rooted 0 homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630] 0.00001 9.43398 943398
1 junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39] 33.9632 18.4255 1.84327
7 Measured 0 sedlin. [swissprot;acc:o14582] 0.00001 43 4300000
1 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] 1153.5 339.5 3.39764

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
- 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/