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 [...,...].
Rank Gene description Value Type Filtered Network Comparison Type Interaction Map green red network_comparison
Results: HTML CSV LaTeX Showing element 101 to 150 of 14920 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Rank
description
Value Type
Filtered
green
red
network_comparison
13 dok-like protein. [refseq;acc:nm_024872] Squared 0 0.00001 0.289941 28994.1
Rooted 5.91608 591608
heat shock 70 kda protein 1 (hsp70.1) (hsp70-1/hsp70-2). [swissprot;acc:p08107] Ranked 9264.5 5210.5 1.77804
protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8] 1 212.554 288.754 1.3585
14 ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5] Squared 0 19295.9 1.73869 11098
cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946] Measured 6.50325 130.512 20.0687
cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936] Ranked 1 75.3531 56.6768 1.32952
dystrophin. [swissprot;acc:p11532] 0 18054.8 10232.5 1.76446
phosphatidylinositol-4-phosphate 3-kinase c2 domain-containing beta polypeptide (ec 2.7.1.154) (phosphoinositide 3-kinase-c2-beta) (ptdins-3-kinase c2 beta) (pi3k-c2beta) (c2-pi3k). [swissprot;acc:o00750] Rooted 4.24264 0.00001 424264
ras gtpase-activating protein ngap (ras protein activator like 1). [swissprot;acc:q9ujf2] Measured 1 1281.5 398.5 3.21581
Squared 388.696 37.5863 10.3414
Rooted 35.798 19.9625 1.79326
15 gbp protein isoform a. [refseq;acc:nm_017870] 42.4773 23.9771 1.77158
lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851] Squared 0 19295.9 1.73869 11098
microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8] Ranked 1 75.3948 56.7244 1.32914
rna helicase-related protein; rna helicase-like protein; sf3b125 dead-box protein. [refseq;acc:nm_007372] Rooted 0 0.00001 4.24264 424264
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] Measured 156 10 15.6
Ranked 11267 19403 1.72211
xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266] Measured 1 871 2671 3.06659
Squared 179.56 1688.58 9.40399
16 cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946] Ranked 0 20670.6 12170.7 1.69839
microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492] 1 75.3954 56.7252 1.32913
phosphatidylinositol-4-phosphate 3-kinase c2 domain-containing beta polypeptide (ec 2.7.1.154) (phosphoinositide 3-kinase-c2-beta) (ptdins-3-kinase c2 beta) (pi3k-c2beta) (c2-pi3k). [swissprot;acc:o00750] Squared 0 0.0766864 0.00001 7668.64
protein transport protein sec24c (sec24-related protein c). [swissprot;acc:p53992] Measured 15 1 15
protein x 0004. [refseq;acc:nm_016301] 1 871 2671 3.06659
Squared 179.56 1688.58 9.40399
serpin b12. [swissprot;acc:q96p63] Rooted 0 1.18697 10.2928 8.67149
xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266] 1 29.5127 51.6817 1.75117
17 cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326] Ranked 75.447 56.7841 1.32866
dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8] Measured 1365 460 2.96739
Squared 441 50.0828 8.80542
fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402] Ranked 0 6812 11543 1.69451
hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8] Rooted 1.2188 10.3085 8.45791
mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849] Measured 58 859 14.8103
protein x 0004. [refseq;acc:nm_016301] Rooted 1 29.5127 51.6817 1.75117
rna helicase-related protein; rna helicase-like protein; sf3b125 dead-box protein. [refseq;acc:nm_007372] Squared 0 0.00001 0.0766864 7668.64
18 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] Ranked 1 245.247 185.678 1.32082
60s ribosomal protein l37a. [swissprot;acc:p12751] Measured 0 26.1599 305.45 11.6763
adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61] Squared 0.52284 439.709 841.001
ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5] Rooted 60.0707 9.20014 6.52932
dgcr14 protein (digeorge syndrome critical region 14) (es2 protein). [swissprot;acc:q96df8] 1 36.9459 21.4476 1.72261
homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017] Ranked 0 13216 22286 1.68629
protein phosphatase 1, regulatory (inhibitor) subunit 14a; 17-kda pkc-potentiated inhibitory protein of pp1. [refseq;acc:nm_033256] Measured 1 1865.5 677.5 2.75351
Squared 823.69 108.641 7.58176
19 25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [swissprot;acc:o15528] Measured 0 26.1599 305.45 11.6763
glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216] Ranked 1 245.247 185.678 1.32082
homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630] 0 13216 22286 1.68629
lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851] Rooted 60.0707 9.20014 6.52932
microfibril-associated glycoprotein 4 precursor. [swissprot;acc:p55083] Measured 1 1865.5 677.5 2.75351
Squared 823.69 108.641 7.58176

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/