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

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/