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 Network Comparison Type red green Value Type Hugo network_comparison Interaction Map Filtered Gene description
Results: HTML CSV LaTeX Showing element 1 to 50 of 3228 in total
Network Comparison Type  : Divided
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
red
green
Hugo
network_comparison
description
1 10 24 UBAC1 2.4 putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]
2 15 28 no value 1.86667 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]
3 PSCD1 cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438]
4 PSCD2 cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418]
5 PSCD4 cytohesin 4. [swissprot;acc:q9uia0]
6 PSCD3 cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739]
7 215 322 HLX 1.49767 homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]
8 HBS1L hbs1-like. [refseq;acc:nm_006620]
9 212 309 XAB1 1.45755 xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266]
10 ATPBD1C protein x 0004. [refseq;acc:nm_016301]
11 337 232 RINT1 1.45259 rad50-interacting protein 1. [refseq;acc:nm_021930]
12 RHOBTB2 rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]
13 288.754 212.554 UFC1 1.3585 protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8]
14 56.6768 75.3531 ATG4A 1.32952 cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936]
15 56.7244 75.3948 MAP1LC3B 1.32914 microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8]
16 56.7252 75.3954 MAP1LC3A 1.32913 microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492]
17 56.7841 75.447 ATG4B 1.32866 cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326]
18 185.678 245.247 GBE1 1.32082 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446]
19 PYGB glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216]
20 PYGL glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737]
21 MYO15A myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7]
22 PYGM glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217]
23 58 44 MRPS17 1.31818 28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]
24 PANK1 pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04]
25 PANK2 pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23]
26 PANK3 pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999]
27 SLC25A43 mitochondrial solute carrier protein. [refseq;acc:nm_145305]
28 201.949 153.671 ATF3 1.31416 cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [swissprot;acc:p18847]
29 187.458 243.678 PPP2R2D 1.29991 uncharacterized hematopoietic stem/progenitor cells protein mds026. [sptrembl;acc:q9nz48]
30 187.457 no value serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, alpha isoform (pp2a, subunit b, b-alpha isoform) (pp2a, subunit b, b55-alpha isoform) (pp2a, subunit b, pr55-alpha isoform) (pp2a, subunit b, r2-alpha isoform). [swissprot;acc:q00007]
31 187.458 243.677 PPP2R2B 1.2999 serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, beta isoform (pp2a, subunit b, b-beta isoform) (pp2a, subunit b, b55- beta isoform) (pp2a, subunit b, pr55-beta isoform) (pp2a, subunit b, r2-beta isoform). [swissprot;acc:q00005]
32 187.462 243.673 PPP2R2C 1.29985 serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, gamma isoform (pp2a, subunit b, b-gamma isoform) (pp2a, subunit b, b55-gamma isoform) (pp2a, subunit b, pr55-gamma isoform) (pp2a, subunit b, r2-gamma isoform) (imypno1). [swissprot;acc:q9y2t4]
33 188.688 242.742 PPP2R1B 1.28647 serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, beta isoform (pp2a, subunit a, pr65-beta isoform) (pp2a, subunit a, r1-beta isoform). [swissprot;acc:p30154]
34 189.07 242.453 PPP2R1A 1.28235 serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, alpha isoform (pp2a, subunit a, pr65-alpha isoform) (pp2a, subunit a, r1-alpha isoform) (medium tumor antigen-associated 61 kda protein). [swissprot;acc:p30153]
35 260.532 204.309 NFYC 1.27519 nuclear transcription factor y subunit gamma (nf-y protein chain c) (nuclear factor yc) (nf-yc) (ccaat-binding transcription factor subunit c) (cbf-c) (transactivator hsm-1/2). [swissprot;acc:q13952]
36 NFYA ccaat-binding transcription factor subunit b (cbf-b) (nf-y protein chain a) (nf-ya) (caat-box dna binding protein subunit a). [swissprot;acc:p23511]
37 322 253 PPP1R14A 1.27273 protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256]
38 MFAP4 microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083]
39 PPP1R14D protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726]
40 FCN2 ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485]
41 no value protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949]
42 204.641 160.957 FOS 1.2714 proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100]
43 no value jun dimerization protein. [refseq;acc:nm_130469]
44 161.046 FOSL2 1.2707 fos-related antigen 2. [swissprot;acc:p15408]
45 161.051 FOSB 1.27066 protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539]
46 204.642 161.068 FOSL1 1.27053 fos-related antigen 1 (fra-1). [swissprot;acc:p15407]
47 325.586 256.492 TMEM132A 1.26938 gbp protein isoform a. [refseq;acc:nm_017870]
48 65.4586 83.0461 GABARAP 1.26868 gaba(a) receptor-associated protein; gaba(a)-receptor-associated protein. [refseq;acc:nm_007278]
49 133 105 ARRB2 1.26667 beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121]
50 ARRB1 beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407]

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/