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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Rank Gene description Network Comparison Type Value Type red Interaction Map Filtered green network_comparison
Results: HTML CSV LaTeX Showing element 1 to 50 of 16578 in total
Value Type  : Measured
Filtered  : 1
Rank
description
Network Comparison Type
red
Interaction Map
green
network_comparison
1 carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976] Subtracted 40899 Low confidence 32028.5 8870.5
lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279] Divided 2399.5 543.5 4.4149
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] Subtracted 41482.5 High confidence 33356.5 8126
rad50-interacting protein 1. [refseq;acc:nm_021930] Divided 450.5 2394.5 5.31521
2 28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5] Subtracted 21185 Low confidence 28492 7307
cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802] Divided 2399.5 543.5 4.4149
cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438] Subtracted 41482.5 High confidence 33356.5 8126
rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6] Divided 450.5 2394.5 5.31521
3 cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534] 2399.5 Low confidence 543.5 4.4149
cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418] Subtracted 41482.5 High confidence 33356.5 8126
homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774] Divided 2597.5 698.5 3.71868
mitochondrial solute carrier protein. [refseq;acc:nm_145305] Subtracted 21185 Low confidence 28492 7307
4 bestrophin (vitelliform macular dystrophy protein) (tu15b). [swissprot;acc:o76090] 36474.3 43509.4 7035.1
cytohesin 4. [swissprot;acc:q9uia0] 41482.5 High confidence 33356.5 8126
hbs1-like. [refseq;acc:nm_006620] Divided 2597.5 698.5 3.71868
lysosome-associated membrane glycoprotein 2 precursor (lamp-2) (cd107b antigen). [swissprot;acc:p13473] 2399.5 Low confidence 543.5 4.4149
5 cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739] Subtracted 41482.5 High confidence 33356.5 8126
junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2] Divided 1153.5 339.5 3.39764
oxysterol binding protein-related protein 6 (osbp-related protein 6) (orp-6). [swissprot;acc:q9bzf3] 736.5 Low confidence 2113.5 2.86965
vitelliform macular dystrophy 2-like protein 2. [refseq;acc:nm_153274] Subtracted 36469.3 43503.3 7034
6 junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39] Divided 1153.5 High confidence 339.5 3.39764
nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] Subtracted 36360.3 Low confidence 43368.8 7008.5
oxysterol binding protein-related protein 3 (osbp-related protein 3) (orp-3). [swissprot;acc:q9h4l5] Divided 736.5 2113.5 2.86965
putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172] Subtracted 44490.5 High confidence 36927.5 7563
7 28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5] 21185 28492 7307
oxysterol binding protein-related protein 7 (osbp-related protein 7) (orp-7). [swissprot;acc:q9bzf2] Divided 736.5 Low confidence 2113.5 2.86965
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 High confidence 339.5 3.39764
vitelliform macular dystrophy 2-like protein 1. [refseq;acc:nm_017682] Subtracted 36360.3 Low confidence 43368.8 7008.5
8 db83 protein. [swissprot;acc:p57088] Divided 1153.5 High confidence 339.5 3.39764
deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233] Subtracted 33111.4 Low confidence 39358.1 6246.7
pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04] 21185 High confidence 28492 7307
phosphatidylinositol-glycan biosynthesis, class f protein (pig-f). [swissprot;acc:q07326] Divided 3278 Low confidence 5058.5 1.54317
9 n33 protein. [swissprot;acc:q13454]
pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23] Subtracted 21185 High confidence 28492 7307
sperm associated antigen 7. [refseq;acc:nm_004890] 23318 Low confidence 19280.8 4037.2
tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106] Divided 398.5 High confidence 1281.5 3.21581
10 implantation-associated protein. [refseq;acc:nm_032121] 3278 Low confidence 5058.5 1.54317
pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999] Subtracted 21185 High confidence 28492 7307
putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172] 19498.1 Low confidence 17265.4 2232.7
tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616] Divided 398.5 High confidence 1281.5 3.21581
11 dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552]
mitochondrial solute carrier protein. [refseq;acc:nm_145305] Subtracted 21185 28492 7307
retinoblastoma-associated factor 600. [refseq;acc:nm_020765] 7256.71 Low confidence 9368.87 2112.16
thyroid receptor interacting protein 8 (trip-8) (fragment). [swissprot;acc:q15652] Divided 1917.64 2950.5 1.53861
12 cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627] 398.5 High confidence 1281.5 3.21581
gbp protein isoform a. [refseq;acc:nm_017870] 1921.96 Low confidence 2954.24 1.5371
homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017] Subtracted 15464.1 17572.7 2108.6
nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] 34190.9 High confidence 40795.8 6604.9
13 cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912] Divided 398.5 1281.5 3.21581
homeobox protein hox-b4 (hox-2f) (hox-2.6). [swissprot;acc:p17483] Subtracted 15464.1 Low confidence 17572.7 2108.6

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/