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 Value Type Network Comparison Type description Interaction Map Filtered green red network_comparison
Results: HTML CSV LaTeX Showing element 1 to 50 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
Network Comparison Type
description
green
red
network_comparison
1 Divided putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172] 24 10 2.4
Subtracted homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774] 322 215 107
2 Divided 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] 28 15 1.86667
Subtracted hbs1-like. [refseq;acc:nm_006620] 322 215 107
3 Divided cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438] 28 15 1.86667
Subtracted rad50-interacting protein 1. [refseq;acc:nm_021930] 232 337 105
4 Divided cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418] 28 15 1.86667
Subtracted rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6] 232 337 105
5 Divided cytohesin 4. [swissprot;acc:q9uia0] 28 15 1.86667
Subtracted xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266] 309 212 97
6 Divided cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739] 28 15 1.86667
Subtracted protein x 0004. [refseq;acc:nm_016301] 309 212 97
7 Divided homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774] 322 215 1.49767
Subtracted protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8] 212.554 288.754 76.2
8 Divided hbs1-like. [refseq;acc:nm_006620] 322 215 1.49767
Subtracted junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2] 362 288 74
9 Divided xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266] 309 212 1.45755
Subtracted junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39] 362 288 74
10 Divided protein x 0004. [refseq;acc:nm_016301] 309 212 1.45755
Subtracted 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] 362 288 74
11 Divided rad50-interacting protein 1. [refseq;acc:nm_021930] 232 337 1.45259
Subtracted db83 protein. [swissprot;acc:p57088] 362 288 74
12 Divided rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6] 232 337 1.45259
Subtracted guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262] 336.233 266.856 69.377
13 Divided protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8] 212.554 288.754 1.3585
Subtracted guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6] 336.233 266.856 69.377
14 Divided cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936] 75.3531 56.6768 1.32952
Subtracted guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150] 336.191 266.863 69.328
15 Divided microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8] 75.3948 56.7244 1.32914
Subtracted guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [swissprot;acc:p29798] 336.19 266.863 69.327
16 Divided microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492] 75.3954 56.7252 1.32913
Subtracted guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-8 subunit (gamma-9). [swissprot;acc:q9uk08] 336.184 266.864 69.32
17 Divided cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326] 75.447 56.7841 1.32866
Subtracted guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [swissprot;acc:p30670] 336.182 266.864 69.318
18 Divided 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] 245.247 185.678 1.32082
Subtracted guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-10 subunit. [swissprot;acc:p50151] 336.181 266.865 69.316
19 Divided glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216] 245.247 185.678 1.32082
Subtracted guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8] 336.178 266.865 69.313
20 Divided glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737] 245.247 185.678 1.32082
Subtracted guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152] 336.159 266.868 69.291
21 Divided myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7] 245.247 185.678 1.32082
Subtracted gbp protein isoform a. [refseq;acc:nm_017870] 256.492 325.586 69.094
22 Divided glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217] 245.247 185.678 1.32082
Subtracted protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256] 253 322 69
23 Divided 28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5] 44 58 1.31818
Subtracted microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083] 253 322 69
24 Divided pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04] 44 58 1.31818
Subtracted protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726] 253 322 69
25 Divided pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23] 44 58 1.31818
Subtracted ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485] 253 322 69

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/