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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Gene Rank Network Comparison Type description red Interaction Map Value Type Filtered network_comparison green
Results: HTML CSV LaTeX Showing element 1 to 50 of 19268 in total
Value Type  : Measured
Rank
Network Comparison Type
description
red
Interaction Map
Filtered
network_comparison
green
1 Divided lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279] 2399.5 Low confidence 1 4.4149 543.5
mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3] 364 High confidence 0 36400000 0.00001
Low confidence
rad50-interacting protein 1. [refseq;acc:nm_021930] 450.5 High confidence 1 5.31521 2394.5
Subtracted ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5] 85 0 6325 6410
Low confidence
carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976] 40899 1 8870.5 32028.5
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] 41482.5 High confidence 8126 33356.5
2 Divided cab2. [refseq;acc:nm_033419] 0.00001 0 17400000 174
cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802] 2399.5 Low confidence 1 4.4149 543.5
homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017] 0.00001 0 8900000 89
rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6] 450.5 High confidence 1 5.31521 2394.5
Subtracted 28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5] 21185 Low confidence 7307 28492
cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438] 41482.5 High confidence 8126 33356.5
lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851] 85 0 6325 6410
nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] 23818.1 Low confidence 4196.8 19621.3
3 Divided cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534] 2399.5 1 4.4149 543.5
homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774] 2597.5 High confidence 3.71868 698.5
homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630] 0.00001 Low confidence 0 8900000 89
pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129] High confidence 10900000 109
Subtracted cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418] 41482.5 1 8126 33356.5
mitochondrial solute carrier protein. [refseq;acc:nm_145305] 21185 Low confidence 7307 28492
nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] 23818.1 High confidence 0 4196.8 19621.3
nucleoporin nup43 (p42). [swissprot;acc:q8nfh3] 5106.93 Low confidence 2393.82 7500.75
4 Divided hbs1-like. [refseq;acc:nm_006620] 2597.5 High confidence 1 3.71868 698.5
homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056] 0.00001 Low confidence 0 8900000 89
homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017] High confidence
lysosome-associated membrane glycoprotein 2 precursor (lamp-2) (cd107b antigen). [swissprot;acc:p13473] 2399.5 Low confidence 1 4.4149 543.5
Subtracted anchor attachment protein 1; glycophosphatidylinositol anchor attachment 1; anchor attachment protein 1 (gaa1p, yeast) homolog. [refseq;acc:nm_003801] 2082 0 2274 4356
bestrophin (vitelliform macular dystrophy protein) (tu15b). [swissprot;acc:o76090] 36474.3 1 7035.1 43509.4
cytohesin 4. [swissprot;acc:q9uia0] 41482.5 High confidence 8126 33356.5
small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578] 18704 0 3026 21730
5 Divided homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630] 0.00001 8900000 89
jumonji protein. [swissprot;acc:q92833] Low confidence 1751660 17.5166
junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2] 1153.5 High confidence 1 3.39764 339.5
oxysterol binding protein-related protein 6 (osbp-related protein 6) (orp-6). [swissprot;acc:q9bzf3] 736.5 Low confidence 2.86965 2113.5
Subtracted cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739] 41482.5 High confidence 8126 33356.5
histone h4. [swissprot;acc:p02304] 21773.1 0 2673.2 24446.3
lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851] 485.286 Low confidence 2254.84 2740.13
vitelliform macular dystrophy 2-like protein 2. [refseq;acc:nm_153274] 36469.3 1 7034 43503.3
6 Divided homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056] 0.00001 High confidence 0 8900000 89
homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099] 13 Low confidence 1300000 0.00001
junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39] 1153.5 High confidence 1 3.39764 339.5
oxysterol binding protein-related protein 3 (osbp-related protein 3) (orp-3). [swissprot;acc:q9h4l5] 736.5 Low confidence 2.86965 2113.5
Subtracted nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] 36360.3 7008.5 43368.8
putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172] 44490.5 High confidence 7563 36927.5
similar to zinc finger protein 277. [sptrembl;acc:q8wwa6] 7592.37 Low confidence 0 1244.48 8836.85
13174.7 High confidence 2430.4 15605.1
7 Divided oxysterol binding protein-related protein 7 (osbp-related protein 7) (orp-7). [swissprot;acc:q9bzf2] 736.5 Low confidence 1 2.86965 2113.5
sedlin. [swissprot;acc:o14582] 0.00001 High confidence 0 4300000 43

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/