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 Value Type Rank Network Comparison Type description red Interaction Map Filtered network_comparison green
Results: HTML CSV LaTeX Showing element 1 to 50 of 6456 in total
Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1
Rank
Network Comparison Type
description
red
network_comparison
green
1 Divided rad50-interacting protein 1. [refseq;acc:nm_021930] 450.5 5.31521 2394.5
Subtracted 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 8126 33356.5
2 Divided rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6] 450.5 5.31521 2394.5
Subtracted cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438] 41482.5 8126 33356.5
3 Divided homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774] 2597.5 3.71868 698.5
Subtracted cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418] 41482.5 8126 33356.5
4 Divided hbs1-like. [refseq;acc:nm_006620] 2597.5 3.71868 698.5
Subtracted cytohesin 4. [swissprot;acc:q9uia0] 41482.5 8126 33356.5
5 Divided junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2] 1153.5 3.39764 339.5
Subtracted cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739] 41482.5 8126 33356.5
6 Divided junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39] 1153.5 3.39764 339.5
Subtracted putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172] 44490.5 7563 36927.5
7 Divided 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 3.39764 339.5
Subtracted 28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5] 21185 7307 28492
8 Divided db83 protein. [swissprot;acc:p57088] 1153.5 3.39764 339.5
Subtracted pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04] 21185 7307 28492
9 Divided tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106] 398.5 3.21581 1281.5
Subtracted pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23] 21185 7307 28492
10 Divided tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616] 398.5 3.21581 1281.5
Subtracted pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999] 21185 7307 28492
11 Divided dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552] 398.5 3.21581 1281.5
Subtracted mitochondrial solute carrier protein. [refseq;acc:nm_145305] 21185 7307 28492
12 Divided cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627] 398.5 3.21581 1281.5
Subtracted nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] 34190.9 6604.9 40795.8
13 Divided cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912] 398.5 3.21581 1281.5
Subtracted myosin vb (myosin 5b) (fragment). [swissprot;acc:q9ulv0] 21591.5 6313 27904.5
14 Divided ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2] 398.5 3.21581 1281.5
Subtracted myosin vc (myosin 5c). [swissprot;acc:q9nqx4] 21591.5 6313 27904.5
15 Divided xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266] 2671 3.06659 871
Subtracted myosin va (myosin 5a) (dilute myosin heavy chain, non-muscle) (myosin heavy chain 12) (myoxin). [swissprot;acc:q9y4i1] 21591.5 6313 27904.5
16 Divided protein x 0004. [refseq;acc:nm_016301] 2671 3.06659 871
Subtracted cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936] 24260.3 6088.2 18172.1
17 Divided dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8] 460 2.96739 1365
Subtracted microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8] 24255.7 6086.8 18168.9
18 Divided protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256] 677.5 2.75351 1865.5
Subtracted microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492] 24255.7 6086.8 18168.9
19 Divided microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083] 677.5 2.75351 1865.5
Subtracted cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326] 24250 6085.1 18164.9
20 Divided protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726] 677.5 2.75351 1865.5
Subtracted gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278] 23421.5 5841.1 17580.4
21 Divided ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485] 677.5 2.75351 1865.5
Subtracted melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801] 23693.7 5430.7 18263
22 Divided protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949] 677.5 2.75351 1865.5
Subtracted hepatocellular carcinoma-associated protein hca3. [refseq;acc:nm_138703] 23693.7 5430.7 18263
23 Divided gbp protein isoform a. [refseq;acc:nm_017870] 699.76 2.7072 1894.39
Subtracted melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357] 23693.7 5430.7 18263
24 Divided protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690] 950.561 2.21818 2108.52
Subtracted melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364] 23693.7 5430.7 18263
25 Divided guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262] 1833.01 2.0534 892.67
Subtracted melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356] 23693.7 5430.7 18263

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/