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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Gene description Rank Value Type Filtered Network Comparison Type network_comparison Interaction Map green red
Results: HTML CSV LaTeX Showing element 1610 to 1659 of 3730 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Interaction Map  : High confidence
description
Rank
Filtered
network_comparison
green
red
i-kappa-b-interacting ras-like protein 2. [refseq;acc:nm_017595] 1162 1 1.02632 215.097 220.758
immature colon carcinoma transcript 1 (digestion substraction 1) (ds- 1). [swissprot;acc:q14197] 1888 1.01056 216.131 218.414
immunoglobulin-binding protein 1 (cd79a-binding protein 1) (b cell signal transduction molecule alpha 4) (alpha 4 protein). [swissprot;acc:p78318] 1706 1.01358 220.847 223.846
imp2 inner mitochondrial membrane protease-like; inner mitochondrial membrane peptidase 2 like. [refseq;acc:nm_032549] 96 0 1.22703 10228.3 8335.82
926 1 1.03713 210.139 217.942
importin 4. [refseq;acc:nm_024658] 197 0 1.11763 13788.9 12337.6
2356 1 1.00426 221.863 220.921
importin 7; ran-binding protein 7. [refseq;acc:nm_006391] 181 0 1.13159 16820.7 14864.7
2709 1 1.00057 220.395 220.521
importin 8; ran-binding protein 8. [refseq;acc:nm_006390] 2710
importin 9. [refseq;acc:nm_018085] 32 0 1.52929 8691.76 13292.2
2860 1 1 0.00001 0.00001
importin alpha-1 subunit (karyopherin alpha-1 subunit) (srp1-beta) (rag cohort protein 2) (nucleoprotein interactor 1) (npi-1). [swissprot;acc:p52294] 1952 1.00981 213.724 211.647
importin alpha-2 subunit (karyopherin alpha-2 subunit) (srp1-alpha) (rag cohort protein 1). [swissprot;acc:p52292] 51 0 1.40494 5102 7168
2780 1 1 0.00001 0.00001
importin alpha-3 subunit (karyopherin alpha-3 subunit) (srp1-gamma). [swissprot;acc:o00505] 1018 1.03233 210.554 217.361
importin alpha-4 subunit (karyopherin alpha-4 subunit) (qip1 protein). [swissprot;acc:o00629] 1016 210.561 217.369
importin alpha-6 subunit (karyopherin alpha-5 subunit). [swissprot;acc:o15131] 1970 1.00975 213.683 211.62
importin beta-1 subunit (karyopherin beta-1 subunit) (nuclear factor p97) (importin 90). [swissprot;acc:q14974] 2523 1.00234 201.488 201.96
importin beta-2 subunit (karyopherin beta-2 subunit) (transportin) (m9 region interaction protein) (mip). [swissprot;acc:q92973] 1676 1.01413 215.645 218.691
importin beta-3 subunit (karyopherin beta-3 subunit) (ran-binding protein 5). [swissprot;acc:o00410] 1474 1.01938 214.427 218.582
importin-alpha re-exporter (chromosome segregation 1-like protein) (cellular apoptosis susceptibility protein). [swissprot;acc:p55060] 1459 1.01961 188.637 192.336
indolethylamine n-methyltransferase (ec 2.1.1.49) (aromatic alkylamine n-methyltransferase) (indolamine n-methyltransferase) (arylamine n- methyltransferase) (amine n-methyltransferase). [swissprot;acc:o95050] 2225 1.00637 220.108 221.509
inflammation-related g protein-coupled receptor ex33. [refseq;acc:nm_020370] 806 1.04425 221.785 212.386
inhibitor of growth family, member 1-like; inhibitor of growth 1-like. [refseq;acc:nm_001564] 500 1.07127 240.673 224.662
inhibitor of growth family, member 1; inhibitor of growth 1. [refseq;acc:nm_005537] 506 1.071 240.476 224.535
inorganic pyrophosphatase (ec 3.6.1.1) (pyrophosphate phospho- hydrolase) (ppase). [swissprot;acc:q15181] 1154 1.02646 230.242 224.307
inorganic pyrophosphatase 2 isoform 1. [refseq;acc:nm_176869] 1155
inosine-5'-monophosphate dehydrogenase 1 (ec 1.1.1.205) (imp dehydrogenase 1) (impdh-i) (impd 1). [swissprot;acc:p20839] 1695 1.01373 215.971 218.937
inosine-5'-monophosphate dehydrogenase 2 (ec 1.1.1.205) (imp dehydrogenase 2) (impdh-ii) (impd 2). [swissprot;acc:p12268] 499 0 1.00123 9069.58 9080.73
1693 1 1.01373 215.971 218.937
inositol polyphosphate 5-phosphatase ocrl-1 (ec 3.1.3.36) (lowe's oculocerebrorenal syndrome protein). [swissprot;acc:q01968] 1433 1.02028 225.468 220.987
inositol polyphosphate multikinase. [refseq;acc:nm_152230] 1724 1.01311 220.53 217.676
inositol polyphosphate-4-phosphatase, type 1 isoform b; inositol polyphosphate-4-phosphatase, type i, 107kd; 4-phosphatase i; inositol polyphosphate-4-phosphatase i. [refseq;acc:nm_001566] 544 1.06703 208.201 222.156
inositol polyphosphate-4-phosphatase, type ii, 105kd; inositol polyphosphate 4-phosphatase ii; 4-phosphatase ii. [refseq;acc:nm_003866] 542
inositol polyphosphate-5-phosphatase; phosphatidylinositol polyphosphate 5-phosphatase type iv; phosphatidylinositol (4,5) bisphosphate 5-phosphatase. [refseq;acc:nm_019892] 2912 1 0.00001 0.00001
inositol-1(or 4)-monophosphatase (ec 3.1.3.25) (impase) (imp) (inositol monophosphatase) (lithium-sensitive myo-inositol monophosphatase a1). [swissprot;acc:p29218] 1727 1.01308 213.118 210.366
inositol-1(or 4)-monophosphatase 2 (ec 3.1.3.25) (impase 2) (imp 2) (inositol monophosphatase 2) (myo-inositol monophosphatase a2). [swissprot;acc:o14732] 1728 1.01305 213.103 210.358
insulin gene enhancer protein isl-1 (islet-1). [swissprot;acc:p20663] 2106 1.00728 196.061 197.489
insulin gene enhancer protein isl-2 (islet-2). [swissprot;acc:q96a47] 2200 1.00656 195.466 196.748
integral membrane protein 2a (e25 protein). [swissprot;acc:o43736] 2244 1.00617 207.915 209.197
integral membrane protein 2b (transmembrane protein bri) [contains: abri/adan amyloid peptide]. [swissprot;acc:q9y287] 2242
integral membrane protein 2c (transmembrane protein bri3) (npd018). [swissprot;acc:q9nqx7] 2243
integral membrane protein cii-3b. [sptrembl;acc:o75609] 178 0 1.13234 13204.2 14951.6
1206 1 1.02526 212.891 207.646
integrin alpha-3 precursor (galactoprotein b3) (gapb3) (vla-3 alpha chain) (cd49c). [swissprot;acc:p26006] 3224 1 0.00001 0.00001
integrin alpha-6 precursor (vla-6) (cd49f). [swissprot;acc:p23229] 3158
integrin alpha-7 precursor. [swissprot;acc:q13683] 2978
integrin beta-1 precursor (fibronectin receptor beta subunit) (cd29 antigen) (integrin vla-4 beta subunit). [swissprot;acc:p05556] 2905
integrin beta-2 precursor (cell surface adhesion glycoproteins lfa- 1/cr3/p150,95 beta-subunit) (cd18) (complement receptor c3 beta- subunit). [swissprot;acc:p05107] 2873

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/