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 green red network_comparison
Results: HTML CSV LaTeX Showing element 3680 to 3729 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Network Comparison Type
green
red
network_comparison
1840 peroxisomal acyl-coa thioesterase 2b; likely ortholog of mouse peroxisomal acyl-coa thioesterase 2b. [refseq;acc:nm_152331] Subtracted 216.08 218.448 2.368
1841 presenilins associated rhomboid-like protein. [refseq;acc:nm_018622] Divided 210.113 212.455 1.01115
spectrin sh3 domain binding protein 1; eps8 binding protein; interactor protein ablbp4; abl-interactor protein 1 long; nap1 binding protein. [refseq;acc:nm_005470] Subtracted 214.698 217.066 2.368
1842 gamma-butyrobetaine,2-oxoglutarate dioxygenase (ec 1.14.11.1) (gamma-butyrobetaine hydroxylase) (gamma-bbh). [swissprot;acc:o75936] Divided 210.113 212.455 1.01115
tubulin-tyrosine ligase. [refseq;acc:nm_153712] Subtracted 215.564 217.924 2.36
1843 lanc lantibiotic synthetase component c-like 2; testis-specific adriamycin sensitivity protein; lanc (bacterial lantibiotic synthetase component c)-like 2; g protein-coupled receptor 69b. [refseq;acc:nm_018697] 217.75 220.107 2.357
potential phospholipid-transporting atpase ih (ec 3.6.3.1) (atpase class i type 11a) (atpase is). [swissprot;acc:p98196] Divided 210.113 212.455 1.01115
1844 lanthionine synthetase c-like protein 1; g protein-coupled receptor 69a; lanc (bacterial lantibiotic synthetase component c)-like 1; lanc (bacterial lantibiotic synthetase component). [refseq;acc:nm_006055] Subtracted 217.75 220.107 2.357
paired box protein pax-6 (oculorhombin) (aniridia, type ii protein). [swissprot;acc:p26367] Divided 212.417 214.773 1.01109
1845 abl-interactor 2; abl-interacting protein 1 (sh3-containing protein); abl binding protein 3; arg protein tyrosine kinase-binding protein; abl-interactor protein 2b; similar to spectrin sh3 domain binding protein 1. [refseq;acc:nm_005759] 214.702 217.077 1.01106
paired box protein pax-6 (oculorhombin) (aniridia, type ii protein). [swissprot;acc:p26367] Subtracted 212.417 214.773 2.356
1846 ribose 5-phosphate isomerase (ec 5.3.1.6) (phosphoriboisomerase). [swissprot;acc:p49247] 211.17 208.821 2.349
spectrin sh3 domain binding protein 1; eps8 binding protein; interactor protein ablbp4; abl-interactor protein 1 long; nap1 binding protein. [refseq;acc:nm_005470] Divided 214.698 217.066 1.01103
1847 brain protein 16. [refseq;acc:nm_016458] 219.195 216.811 1.011
g-rich sequence factor-1 (grsf-1). [swissprot;acc:q12849] Subtracted 215.542 217.891 2.349
1848 bile acid coenzyme a: amino acid n-acyltransferase; glycine n-choloyltransferase. [refseq;acc:nm_001701] Divided 216.064 218.441 1.011
heterogeneous nuclear ribonucleoprotein h3 (hnrnp h3) (hnrnp 2h9). [swissprot;acc:p31942] Subtracted 215.543 217.892 2.349
1849 heterogeneous nuclear ribonucleoprotein f (hnrnp f). [swissprot;acc:p52597] 215.545 217.893 2.348
peroxisomal acyl-coenzyme a thioester hydrolase 2a (ec 3.1.2.2) (peroxisomal long-chain acyl-coa thioesterase 2) (zap128). [swissprot;acc:p49753] Divided 216.074 218.445 1.01097
1850 adenylyl cyclase-associated protein 1 (cap 1). [swissprot;acc:q01518] 213.587 215.931
heterogeneous nuclear ribonucleoprotein h (hnrnp h). [swissprot;acc:p31943] Subtracted 215.547 217.895 2.348
1851 heterogeneous nuclear ribonucleoprotein h' (hnrnp h') (ftp-3). [swissprot;acc:p55795]
peroxisomal acyl-coa thioesterase 2b; likely ortholog of mouse peroxisomal acyl-coa thioesterase 2b. [refseq;acc:nm_152331] Divided 216.08 218.448 1.01096
1852 3-hydroxyisobutyryl-coenzyme a hydrolase. [refseq;acc:nm_014362] 198.154 196.008 1.01095
adenylyl cyclase-associated protein 1 (cap 1). [swissprot;acc:q01518] Subtracted 213.587 215.931 2.344
1853 presenilins associated rhomboid-like protein. [refseq;acc:nm_018622] 210.113 212.455 2.342
tubulin-tyrosine ligase. [refseq;acc:nm_153712] Divided 215.564 217.924 1.01095
1854 gamma-butyrobetaine,2-oxoglutarate dioxygenase (ec 1.14.11.1) (gamma-butyrobetaine hydroxylase) (gamma-bbh). [swissprot;acc:o75936] Subtracted 210.113 212.455 2.342
translation initiation factor eif-2b epsilon subunit (eif-2b gdp-gtp exchange factor). [swissprot;acc:q13144] Divided 224.637 222.215 1.0109
1855 g-rich sequence factor-1 (grsf-1). [swissprot;acc:q12849] 215.542 217.891
potential phospholipid-transporting atpase ih (ec 3.6.3.1) (atpase class i type 11a) (atpase is). [swissprot;acc:p98196] Subtracted 210.113 212.455 2.342
1856 dna-(apurinic or apyrimidinic site) lyase (ec 4.2.99.18) (ap endonuclease 1) (apex nuclease) (apen) (ref-1 protein). [swissprot;acc:p27695] 209.544 211.882 2.338
heterogeneous nuclear ribonucleoprotein h3 (hnrnp h3) (hnrnp 2h9). [swissprot;acc:p31942] Divided 215.543 217.892 1.0109
1857 gdp-mannose pyrophosphorylase b isoform 1; mannose-1-phosphate guanylyltransferase; amphoterin induced gene 3. [refseq;acc:nm_013334] Subtracted 225.17 222.842 2.328
translation initiation factor eif-2b gamma subunit (eif-2b gdp-gtp exchange factor). [swissprot;acc:q9nr50] Divided 224.637 222.215 1.0109
1858 gdp-mannose pyrophosphorylase a; mannose-1-phosphate guanylyltransferase (gdp). [refseq;acc:nm_013335] Subtracted 225.17 222.842 2.328
heterogeneous nuclear ribonucleoprotein f (hnrnp f). [swissprot;acc:p52597] Divided 215.545 217.893 1.01089
1859 heterogeneous nuclear ribonucleoprotein h (hnrnp h). [swissprot;acc:p31943] 215.547 217.895
sterile alpha and tir motif containing 1; sterile alpha and heat/armadillo motif protein, ortholog of drosophila. [refseq;acc:nm_015077] Subtracted 218.577 220.896 2.319
1860 fragile x mental retardation syndrome related protein 2. [swissprot;acc:p51116] 200.086 202.386 2.3
heterogeneous nuclear ribonucleoprotein h' (hnrnp h') (ftp-3). [swissprot;acc:p55795] Divided 215.547 217.895 1.01089
1861 cytochrome b5 reductase b5r.2. [refseq;acc:nm_016229] 213.147 210.856 1.01087
fragile x mental retardation syndrome related protein 1. [swissprot;acc:p51114] Subtracted 200.086 202.386 2.3
1862 cytochrome b5 reductase 1 (b5r.1). [refseq;acc:nm_016243] Divided 213.147 210.856 1.01087
nucleoporin nup43 (p42). [swissprot;acc:q8nfh3] Subtracted 200.094 202.393 2.299
1863 fragile x mental retardation 1 protein (protein fmr-1) (fmrp). [swissprot;acc:q06787] 200.115 202.41 2.295
nadh-cytochrome b5 reductase (ec 1.6.2.2) (b5r). [swissprot;acc:p00387] Divided 213.147 210.856 1.01087
1864 fuse-binding protein-interacting repressor isoform b; siah binding protein 1; pyrimidine tract binding splicing factor; ro ribonucleoprotein-binding protein 1; poly-u binding splicing factor puf60. [refseq;acc:nm_014281] 200.89 203.071 1.01086
putative gtp-binding protein ptd004 (pro2455). [swissprot;acc:q9ntk5] Subtracted 217.373 215.081 2.292
1865 cytochrome b5 reductase b5r.2. [refseq;acc:nm_016229] 213.147 210.856 2.291

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/