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 Value Type Network Comparison Type Interaction Map Filtered red 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
Interaction Map
red
green
network_comparison
1 carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976] Subtracted Low confidence 40899 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 High confidence 41482.5 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 Low confidence 21185 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 High confidence 41482.5 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] Low confidence 2399.5 543.5 4.4149
cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418] Subtracted High confidence 41482.5 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 Low confidence 21185 28492 7307
4 bestrophin (vitelliform macular dystrophy protein) (tu15b). [swissprot;acc:o76090] 36474.3 43509.4 7035.1
cytohesin 4. [swissprot;acc:q9uia0] High confidence 41482.5 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] Low confidence 2399.5 543.5 4.4149
5 cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739] Subtracted High confidence 41482.5 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] Low confidence 736.5 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 High confidence 1153.5 339.5 3.39764
nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] Subtracted Low confidence 36360.3 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 High confidence 44490.5 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 Low confidence 736.5 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] High confidence 1153.5 339.5 3.39764
vitelliform macular dystrophy 2-like protein 1. [refseq;acc:nm_017682] Subtracted Low confidence 36360.3 43368.8 7008.5
8 db83 protein. [swissprot;acc:p57088] Divided High confidence 1153.5 339.5 3.39764
deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233] Subtracted Low confidence 33111.4 39358.1 6246.7
pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04] High confidence 21185 28492 7307
phosphatidylinositol-glycan biosynthesis, class f protein (pig-f). [swissprot;acc:q07326] Divided Low confidence 3278 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 High confidence 21185 28492 7307
sperm associated antigen 7. [refseq;acc:nm_004890] Low confidence 23318 19280.8 4037.2
tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106] Divided High confidence 398.5 1281.5 3.21581
10 implantation-associated protein. [refseq;acc:nm_032121] Low confidence 3278 5058.5 1.54317
pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999] Subtracted High confidence 21185 28492 7307
putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172] Low confidence 19498.1 17265.4 2232.7
tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616] Divided High confidence 398.5 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] Low confidence 7256.71 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] High confidence 398.5 1281.5 3.21581
gbp protein isoform a. [refseq;acc:nm_017870] Low confidence 1921.96 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] High confidence 34190.9 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 Low confidence 15464.1 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/