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 Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 3927 to 3976 of 6456 in total
Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Network Comparison Type
red
green
network_comparison
1964 brca1-associated ring domain protein 1 (bard-1). [swissprot;acc:q99728] Subtracted 5669.9 6015.75 345.85
pp3111 protein. [refseq;acc:nm_022156] Divided 4374.32 4126.96 1.05994
1965 dna replication licensing factor mcm3 (dna polymerase alpha holoenzyme-associated protein p1) (rlf beta subunit) (p102 protein) (p1-mcm3). [swissprot;acc:p25205] Subtracted 4619.81 4965.45 345.64
syntaxin 18. [swissprot;acc:q9p2w9] Divided 4374.32 4126.96 1.05994
1966 kelch-like ech-associated protein 1 (cytosolic inhibitor of nrf2). [swissprot;acc:q14145] Subtracted 4619.81 4965.45 345.64
rd protein. [swissprot;acc:p18615] Divided 4374.32 4126.96 1.05994
1967 40s ribosomal protein s4, y isoform 2. [swissprot;acc:q8td47] 3678.56 3470.55
testis-specific bromodomain protein. [refseq;acc:nm_001726] Subtracted 5438.68 5783.2 344.52
1968 glutathione transferase omega 1 (ec 2.5.1.18) (gsto 1-1). [swissprot;acc:p78417] Divided 4374.32 4126.96 1.05994
protein regulator of cytokinesis 1; protein regulating cytokinesis 1. [refseq;acc:nm_003981] Subtracted 5438.6 5783.11 344.51
1969 androgen-induced 1; cgi-103 protein; androgen induced protein. [refseq;acc:nm_016108] Divided 4374.32 4126.96 1.05994
bromodomain-containing protein 4 (hunk1 protein). [swissprot;acc:o60885] Subtracted 5438.6 5783.11 344.51
1970 atp synthase b chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p24539] Divided 4374.32 4126.96 1.05994
nag14 protein. [refseq;acc:nm_022143] Subtracted 5438.6 5783.11 344.51
1971 bromodomain-containing protein 2 (ring3 protein) (o27.1.1). [swissprot;acc:p25440] 5438.52 5783.01 344.49
j domain containing protein 1. [swissprot;acc:q9ukb3] Divided 4374.32 4126.96 1.05994
1972 bromodomain-containing protein 3 (ring3-like protein). [swissprot;acc:q15059] Subtracted 5438.18 5782.62 344.44
sorting nexin 13 (rgs domain- and phox domain-containing protein) (rgs-px1). [swissprot;acc:q9y5w8] Divided 4374.32 4126.96 1.05994
1973 alpha-1-acid glycoprotein 2 precursor (agp 2) (orosomucoid 2) (omd 2). [swissprot;acc:p19652] Subtracted 7383.13 7727.39 344.26
ba127l20.1 (novel glutathione-s-transferase). [sptrembl;acc:q9h4y5] Divided 4374.32 4126.96 1.05994
1974 40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750] 3678.62 3470.64 1.05993
lim domain only 7; zinc-finger domain-containing protein; lomp protein; f-box only protein 20; f-box protein fbx20. [refseq;acc:nm_005358] Subtracted 5782.86 6126.69 343.83
1975 cop9 complex subunit 4; likely ortholog of mouse cop9 (constitutive photomorphogenic), subunit 4 (arabidopsis); cop9 (constitutive photomorphogenic, arabidopsis, homolog) subunit 4. [refseq;acc:nm_016129] Divided 6988.29 7406.53 1.05985
ubiquitin. [swissprot;acc:p02248] Subtracted 7390.36 7733.85 343.49
1976 rho-gtpase-activating protein 8. [swissprot;acc:q9nsg0] 6036.68 6379.44 342.76
splicing factor arginine/serine-rich 11 (arginine-rich 54 kda nuclear protein) (p54). [swissprot;acc:q05519] Divided 5939.85 6294.91 1.05978
1977 lim domain only 7; zinc-finger domain-containing protein; lomp protein; f-box only protein 20; f-box protein fbx20. [refseq;acc:nm_005358] 5782.86 6126.69 1.05946
rho-gtpase-activating protein 1 (gtpase-activating protein rhoogap) (rho-related small gtpase protein activator) (cdc42 gtpase-activating protein) (p50-rhogap). [swissprot;acc:q07960] Subtracted 6036.68 6379.44 342.76
1978 kinesin light chain 2 (klc 2). [swissprot;acc:q9h0b6] 6036.62 6379.38
uv excision repair protein rad23 homolog a (hhr23a). [swissprot;acc:p54725] Divided 5475.74 5800.97 1.05939
1979 26s proteasome non-atpase regulatory subunit 4 (26s proteasome regulatory subunit s5a) (rpn10) (multiubiquitin chain binding protein) (antisecretory factor-1) (af) (asf). [swissprot;acc:p55036]
kinesin heavy chain (ubiquitous kinesin heavy chain) (ukhc). [swissprot;acc:p33176] Subtracted 6036.68 6379.44 342.76
1980 bile acid coenzyme a: amino acid n-acyltransferase; glycine n-choloyltransferase. [refseq;acc:nm_001701] Divided 5830.46 6176.71 1.05939
kinesin heavy chain isoform 5c (kinesin heavy chain neuron-specific 2). [swissprot;acc:o60282] Subtracted 6036.68 6379.44 342.76
1981 inositol polyphosphate 5-phosphatase ocrl-1 (ec 3.1.3.36) (lowe's oculocerebrorenal syndrome protein). [swissprot;acc:q01968] Divided 5475.74 5800.97 1.05939
neuronal kinesin heavy chain (nkhc) (kinesin heavy chain isoform 5a) (kinesin heavy chain neuron-specific 1). [swissprot;acc:q12840] Subtracted 6036.68 6379.44 342.76
1982 transcription factor iiia (factor a) (tfiiia). [swissprot;acc:q92664]
uv excision repair protein rad23 homolog b (hhr23b) (xp-c repair complementing complex 58 kda protein) (p58). [swissprot;acc:p54727] Divided 5475.74 5800.97 1.05939
1983 exocyst complex component sec3 (bm-012). [swissprot;acc:q9nv70] Subtracted 6036.68 6379.44 342.76
myosin vi. [swissprot;acc:q9um54] Divided 5475.74 5800.97 1.05939
1984 kinesin light chain 1 (klc 1). [swissprot;acc:q07866] Subtracted 6036.73 6379.48 342.75
peroxisomal acyl-coenzyme a thioester hydrolase 2a (ec 3.1.2.2) (peroxisomal long-chain acyl-coa thioesterase 2) (zap128). [swissprot;acc:p49753] Divided 5830.03 6176.1 1.05936
1985 potassium voltage-gated channel subfamily a member 2 (potassium channel kv1.2) (rbk2) (hbk5) (ngk1) (mk2) (hukiv). [swissprot;acc:p16389] Subtracted 6674.58 7015.93 341.35
scribble. [refseq;acc:nm_015356] Divided 5516.89 5844.37 1.05936
1986 lap (leucine-rich repeats and pdz) and no pdz protein. [refseq;acc:nm_018214] 5517.24 5844.68 1.05935
peptidylprolyl isomerase-like 4; cyclophilin-type peptidyl-prolyl cis-trans isomerase; ppiase; serologically defined breast cancer antigen ny-br-18. [refseq;acc:nm_139126] Subtracted 6083.39 6423.12 339.73
1987 hydroxyindole o-methyltransferase (ec 2.1.1.4) (hiomt) (acetylserotonin o-methyltransferase) (asmt). [swissprot;acc:p46597] 5444.6 5783.95 339.35
peroxisomal acyl-coa thioesterase 2b; likely ortholog of mouse peroxisomal acyl-coa thioesterase 2b. [refseq;acc:nm_152331] Divided 5829.74 6175.69 1.05934
1988 protein translation factor sui1 homolog gc20. [swissprot;acc:o60739] 3559.49 3360.39 1.05925
seven in absentia homolog 2. [refseq;acc:nm_005067] Subtracted 5399.47 5737.79 338.32

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/