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 Value Type description Hugo Network Comparison Type Interaction Map Filtered red network_comparison green
Results: HTML CSV LaTeX Showing element 1 to 50 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Hugo
Network Comparison Type
red
network_comparison
green
1 homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774] HLX Subtracted 215 107 322
putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172] UBAC1 Divided 10 2.4 24
2 hbs1-like. [refseq;acc:nm_006620] HBS1L Subtracted 215 107 322
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] no value Divided 15 1.86667 28
3 cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438] PSCD1
rad50-interacting protein 1. [refseq;acc:nm_021930] RINT1 Subtracted 337 105 232
4 cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418] PSCD2 Divided 15 1.86667 28
rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6] RHOBTB2 Subtracted 337 105 232
5 cytohesin 4. [swissprot;acc:q9uia0] PSCD4 Divided 15 1.86667 28
xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266] XAB1 Subtracted 212 97 309
6 cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739] PSCD3 Divided 15 1.86667 28
protein x 0004. [refseq;acc:nm_016301] ATPBD1C Subtracted 212 97 309
7 homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774] HLX Divided 215 1.49767 322
protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8] UFC1 Subtracted 288.754 76.2 212.554
8 hbs1-like. [refseq;acc:nm_006620] HBS1L Divided 215 1.49767 322
junctophilin 3 (junctophilin type 3) (jp-3). [swissprot;acc:q8wxh2] JPH3 Subtracted 288 74 362
9 junctophilin 2 (junctophilin type 2) (jp-2). [swissprot;acc:q9br39] JPH2
xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266] XAB1 Divided 212 1.45755 309
10 protein x 0004. [refseq;acc:nm_016301] ATPBD1C
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] SMPD2 Subtracted 288 74 362
11 db83 protein. [swissprot;acc:p57088] TMEM33
rad50-interacting protein 1. [refseq;acc:nm_021930] RINT1 Divided 337 1.45259 232
12 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262] no value Subtracted 266.856 69.377 336.233
rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6] RHOBTB2 Divided 337 1.45259 232
13 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6] GNG12 Subtracted 266.856 69.377 336.233
protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8] UFC1 Divided 288.754 1.3585 212.554
14 cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936] ATG4A 56.6768 1.32952 75.3531
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150] GNG4 Subtracted 266.863 69.328 336.191
15 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [swissprot;acc:p29798] GNG3 69.327 336.19
microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8] MAP1LC3B Divided 56.7244 1.32914 75.3948
16 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-8 subunit (gamma-9). [swissprot;acc:q9uk08] GNG8 Subtracted 266.864 69.32 336.184
microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492] MAP1LC3A Divided 56.7252 1.32913 75.3954
17 cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326] ATG4B 56.7841 1.32866 75.447
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [swissprot;acc:p30670] GNG5 Subtracted 266.864 69.318 336.182
18 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] GBE1 Divided 185.678 1.32082 245.247
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-10 subunit. [swissprot;acc:p50151] GNG10 Subtracted 266.865 69.316 336.181
19 glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216] PYGB Divided 185.678 1.32082 245.247
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8] no value Subtracted 266.865 69.313 336.178
20 glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737] PYGL Divided 185.678 1.32082 245.247
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152] GNG11 Subtracted 266.868 69.291 336.159
21 gbp protein isoform a. [refseq;acc:nm_017870] TMEM132A 325.586 69.094 256.492
myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7] MYO15A Divided 185.678 1.32082 245.247
22 glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217] PYGM
protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256] PPP1R14A Subtracted 322 69 253
23 28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5] MRPS17 Divided 58 1.31818 44
microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083] MFAP4 Subtracted 322 69 253
24 pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04] PANK1 Divided 58 1.31818 44
protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726] PPP1R14D Subtracted 322 69 253
25 ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485] FCN2
pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23] PANK2 Divided 58 1.31818 44

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
- Hugo is the HGNC identifier if it exists
- 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/