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 green Value Type description Network Comparison Type Interaction Map network_comparison red Filtered
Results: HTML CSV LaTeX Showing element 1 to 50 of 16578 in total
Value Type  : Measured
Filtered  : 1
Rank
green
description
Network Comparison Type
Interaction Map
network_comparison
red
1 543.5 lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279] Divided Low confidence 4.4149 2399.5
2394.5 rad50-interacting protein 1. [refseq;acc:nm_021930] High confidence 5.31521 450.5
32028.5 carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976] Subtracted Low confidence 8870.5 40899
33356.5 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] High confidence 8126 41482.5
2 543.5 cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802] Divided Low confidence 4.4149 2399.5
2394.5 rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6] High confidence 5.31521 450.5
28492 28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5] Subtracted Low confidence 7307 21185
33356.5 cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438] High confidence 8126 41482.5
3 543.5 cell division protein kinase 6 (ec 2.7.1.37) (serine/threonine protein kinase plstire). [swissprot;acc:q00534] Divided Low confidence 4.4149 2399.5
698.5 homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774] High confidence 3.71868 2597.5
28492 mitochondrial solute carrier protein. [refseq;acc:nm_145305] Subtracted Low confidence 7307 21185
33356.5 cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418] High confidence 8126 41482.5
4 543.5 lysosome-associated membrane glycoprotein 2 precursor (lamp-2) (cd107b antigen). [swissprot;acc:p13473] Divided Low confidence 4.4149 2399.5
698.5 hbs1-like. [refseq;acc:nm_006620] High confidence 3.71868 2597.5
33356.5 cytohesin 4. [swissprot;acc:q9uia0] Subtracted 8126 41482.5
43509.4 bestrophin (vitelliform macular dystrophy protein) (tu15b). [swissprot;acc:o76090] Low confidence 7035.1 36474.3
5 339.5 junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2] Divided High confidence 3.39764 1153.5
2113.5 oxysterol binding protein-related protein 6 (osbp-related protein 6) (orp-6). [swissprot;acc:q9bzf3] Low confidence 2.86965 736.5
33356.5 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
43503.3 vitelliform macular dystrophy 2-like protein 2. [refseq;acc:nm_153274] Low confidence 7034 36469.3
6 339.5 junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39] Divided High confidence 3.39764 1153.5
2113.5 oxysterol binding protein-related protein 3 (osbp-related protein 3) (orp-3). [swissprot;acc:q9h4l5] Low confidence 2.86965 736.5
36927.5 putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172] Subtracted High confidence 7563 44490.5
43368.8 nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] Low confidence 7008.5 36360.3
7 339.5 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] Divided High confidence 3.39764 1153.5
2113.5 oxysterol binding protein-related protein 7 (osbp-related protein 7) (orp-7). [swissprot;acc:q9bzf2] Low confidence 2.86965 736.5
28492 28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5] Subtracted High confidence 7307 21185
43368.8 vitelliform macular dystrophy 2-like protein 1. [refseq;acc:nm_017682] Low confidence 7008.5 36360.3
8 339.5 db83 protein. [swissprot;acc:p57088] Divided High confidence 3.39764 1153.5
5058.5 phosphatidylinositol-glycan biosynthesis, class f protein (pig-f). [swissprot;acc:q07326] Low confidence 1.54317 3278
28492 pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04] Subtracted High confidence 7307 21185
39358.1 deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233] Low confidence 6246.7 33111.4
9 1281.5 tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106] Divided High confidence 3.21581 398.5
5058.5 n33 protein. [swissprot;acc:q13454] Low confidence 1.54317 3278
19280.8 sperm associated antigen 7. [refseq;acc:nm_004890] Subtracted 4037.2 23318
28492 pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23] High confidence 7307 21185
10 1281.5 tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616] Divided 3.21581 398.5
5058.5 implantation-associated protein. [refseq;acc:nm_032121] Low confidence 1.54317 3278
17265.4 putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172] Subtracted 2232.7 19498.1
28492 pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999] High confidence 7307 21185
11 1281.5 dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552] Divided 3.21581 398.5
2950.5 thyroid receptor interacting protein 8 (trip-8) (fragment). [swissprot;acc:q15652] Low confidence 1.53861 1917.64
9368.87 retinoblastoma-associated factor 600. [refseq;acc:nm_020765] Subtracted 2112.16 7256.71
28492 mitochondrial solute carrier protein. [refseq;acc:nm_145305] High confidence 7307 21185
12 1281.5 cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627] Divided 3.21581 398.5
2954.24 gbp protein isoform a. [refseq;acc:nm_017870] Low confidence 1.5371 1921.96
17572.7 homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017] Subtracted 2108.6 15464.1
40795.8 nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] High confidence 6604.9 34190.9
13 1281.5 cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912] Divided 3.21581 398.5
2959.19 jumonji domain containing 1; zinc finger protein; testis-specific protein a. [refseq;acc:nm_018433] Low confidence 1.5351 1927.68

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/