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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Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].
Value Type Rank Gene Filtered description green Interaction Map Network Comparison Type network_comparison red
Results: HTML CSV LaTeX Showing element 1 to 50 of 3730 in total
Value Type  : Ranked
Interaction Map  : High confidence
Network Comparison Type  : Divided
Rank
Filtered
description
green
network_comparison
red
1 0 adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61] 15915 3.70633 4294
1 putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172] 24 2.4 10
2 0 mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849] 14977 2.55362 5865
1 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 1.86667 15
3 0 nif3-like protein 1 (amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 1) (my018 protein) (mds015). [swissprot;acc:q9gzt8] 11083.9 2.47638 4475.84
1 cytohesin 1 (sec7 homolog b2-1). [swissprot;acc:q15438] 28 1.86667 15
4 0 mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3] 21883 2.45711 8906
1 cytohesin 2 (arf nucleotide-binding site opener) (arno protein) (arf exchange factor). [swissprot;acc:q99418] 28 1.86667 15
5 0 ubiquitin-like protein smt3b (sentrin 2) (hsmt3). [swissprot;acc:p55855] 11965.7 2.17144 5510.5
1 cytohesin 4. [swissprot;acc:q9uia0] 28 1.86667 15
6 0 ubiquitin protein ligase. [refseq;acc:nm_130466] 15339.2 2.03897 7523
1 cytohesin 3 (arf nucleotide-binding site opener 3) (arno3 protein) (general receptor of phosphoinositides 1) (grp1). [swissprot;acc:o43739] 28 1.86667 15
7 0 cab2. [refseq;acc:nm_033419] 10950 1.99689 21866
1 homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774] 322 1.49767 215
8 0 nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7] 21888 1.89918 11525
1 hbs1-like. [refseq;acc:nm_006620] 322 1.49767 215
9 0 transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87] 21888 1.89918 11525
1 xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266] 309 1.45755 212
10 0 fructose-1,6-bisphosphatase isozyme 2 (ec 3.1.3.11) (d-fructose-1,6- bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:o00757] 14178.1 1.88805 7509.39
1 protein x 0004. [refseq;acc:nm_016301] 309 1.45755 212
11 0 potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110] 6248 1.86092 11627
1 rad50-interacting protein 1. [refseq;acc:nm_021930] 232 1.45259 337
12 0 folylpolyglutamate synthase, mitochondrial precursor (ec 6.3.2.17) (folylpoly-gamma-glutamate synthetase) (fpgs). [swissprot;acc:q05932] 5208.84 1.81023 9429.18
1 rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6] 232 1.45259 337
13 0 heat shock 70 kda protein 1 (hsp70.1) (hsp70-1/hsp70-2). [swissprot;acc:p08107] 9264.5 1.77804 5210.5
1 protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8] 212.554 1.3585 288.754
14 0 dystrophin. [swissprot;acc:p11532] 18054.8 1.76446 10232.5
1 cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936] 75.3531 1.32952 56.6768
15 0 succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial precursor (cybs) (succinate-ubiquinone reductase membrane anchor subunit) (qps2) (cii-4) (succinate dehydrogenase complex subunit d) (succinate-ubiquinone oxidoreductase cytochrome b small subunit). [swissprot;acc:o14521] 11267 1.72211 19403
1 microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8] 75.3948 1.32914 56.7244
16 0 cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946] 20670.6 1.69839 12170.7
1 microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492] 75.3954 1.32913 56.7252
17 0 fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402] 6812 1.69451 11543
1 cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326] 75.447 1.32866 56.7841
18 0 homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017] 13216 1.68629 22286
1 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] 245.247 1.32082 185.678
19 0 homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630] 13216 1.68629 22286
1 glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216] 245.247 1.32082 185.678
20 0 homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056] 13216 1.68629 22286
1 glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737] 245.247 1.32082 185.678
21 0 acrc protein; putative nuclear protein. [refseq;acc:nm_052957] 10621.4 1.68236 6313.38
1 myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7] 245.247 1.32082 185.678
22 0 pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129] 12479 1.68195 20989
1 glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217] 245.247 1.32082 185.678
23 0 hepatocyte growth factor-regulated tyrosine kinase substrate; human growth factor-regulated tyrosine kinase substrate. [refseq;acc:nm_004712] 9285.44 1.67148 15520.4
1 28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5] 44 1.31818 58
24 0 ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5] 8257 1.66289 13730.5
1 pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04] 44 1.31818 58
25 0 lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851] 8257 1.66289 13730.5
1 pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23] 44 1.31818 58

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/