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.


Navigation/Query Panel:
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 Interaction Map Gene Rank Network Comparison Type Filtered description green red network_comparison
Results: HTML CSV LaTeX Showing element 12864 to 12913 of 29840 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
Network Comparison Type
description
green
red
network_comparison
2200 Subtracted bromodomain-containing protein 3 (ring3-like protein). [swissprot;acc:q15059] 224.343 222.965 1.378
2201 Divided p47 protein isoform a. [refseq;acc:nm_016143] 212.254 213.642 1.00654
Subtracted 3-hydroxyanthranilate 3,4-dioxygenase (ec 1.13.11.6) (3-hao) (3-hydroxyanthranilic acid dioxygenase) (3-hydroxyanthranilate oxygenase). [swissprot;acc:p46952] 208.162 209.54 1.378
2202 Divided tumor susceptibility gene 101 protein. [swissprot;acc:q99816] 194.7 195.97 1.00652
Subtracted zinc finger protein-like 1; zinc-finger protein in men1 region. [refseq;acc:nm_006782] 208.162 209.54 1.378
2203 Divided symplekin. [swissprot;acc:q92797] 163.8 162.741 1.00651
Subtracted bromodomain-containing protein 4 (hunk1 protein). [swissprot;acc:o60885] 224.337 222.959 1.378
2204 Divided ruvb-like 2 (ec 3.6.1.-) (48-kda tata box-binding protein-interacting protein) (48-kda tbp-interacting protein) (tip49b) (repressing pontin 52) (reptin 52) (51 kda erythrocyte cytosolic protein) (ecp-51) (tip60-associated protein 54-beta) (tap54-beta) (cgi-46). [swissprot;acc:q9y230] 220.8 219.377 1.00649
Subtracted testis-specific bromodomain protein. [refseq;acc:nm_001726] 224.336 222.958 1.378
2205 Divided 60s ribosomal protein l22 (epstein-barr virus small rna associated protein) (eber associated protein) (eap) (heparin binding protein hbp15). [swissprot;acc:p35268] 200.413 199.129 1.00645
Subtracted hus1 checkpoint protein; hus1 (s. pombe) checkpoint homolog; hus1+-like protein. [refseq;acc:nm_004507] 208.162 209.54 1.378
2206 Divided transitional endoplasmic reticulum atpase (ter atpase) (15s mg(2+)- atpase p97 subunit) (valosin containing protein) (vcp) [contains: valosin]. [swissprot;acc:p55072] 214.19 215.571 1.00645
Subtracted hyaluronan binding protein 4; intracellular antigen detected by monoclonal antibody ki-1; intracellular hyaluronan-binding protein; chromodomain helicase dna binding protein 3 interacting protein. [refseq;acc:nm_014282] 208.162 209.54 1.378
2207 Divided sin3 associated polypeptide p30; sin3-associated polypeptide, 30kd. [refseq;acc:nm_003864] 200.413 199.129 1.00645
Subtracted nag14 protein. [refseq;acc:nm_022143] 224.337 222.959 1.378
2208 Divided clathrin coat assembly protein ap50 (clathrin coat associated protein ap50) (plasma membrane adaptor ap-2 50 kda protein) (ha2 50 kda subunit) (clathrin assembly protein complex 2 medium chain) (ap-2 mu 2 chain). [swissprot;acc:p20172] 200.413 199.129 1.00645
Subtracted prolyl 4-hydroxylase alpha-1 subunit precursor (ec 1.14.11.2) (4-ph alpha-1) (procollagen-proline,2-oxoglutarate-4-dioxygenase alpha-1 subunit). [swissprot;acc:p13674] 208.162 209.54 1.378
2209 Divided atp-binding cassette, sub-family c, member 10; multidrug resistance-associated protein 7. [refseq;acc:nm_033450] 200.413 199.129 1.00645
Subtracted homeobox prospero-like protein prox1 (prox 1). [swissprot;acc:q92786] 208.162 209.54 1.378
2210 Divided lysosomal alpha-mannosidase precursor (ec 3.2.1.24) (mannosidase, alpha b) (lysosomal acid alpha-mannosidase) (laman) (mannosidase alpha class 2b member 1). [swissprot;acc:o00754] 200.413 199.129 1.00645
Subtracted rad1 homolog isoform 1; exonuclease homolog rad1; cell cycle checkpoint protein rad1 a/b; rad1-like protein; cell cycle checkpoint protein hrad1; dna repair exonuclease (rec1); dna repair protein rad1; rad1-like dna damage checkpoint protein. [refseq;acc:nm_002853] 208.162 209.54 1.378
2211 Divided rna polymerase i transcription factor rrn3. [refseq;acc:nm_018427] 200.413 199.129 1.00645
Subtracted bromodomain-containing protein 2 (ring3 protein) (o27.1.1). [swissprot;acc:p25440] 224.338 222.96 1.378
2212 Divided 28s ribosomal protein s16, mitochondrial precursor (mrp-s16) (cgi- 132). [swissprot;acc:q9y3d3] 225.854 224.411 1.00643
Subtracted prolyl 4-hydroxylase alpha-2 subunit precursor (ec 1.14.11.2) (4-ph alpha-2) (procollagen-proline,2-oxoglutarate-4-dioxygenase alpha-2 subunit). [swissprot;acc:o15460] 208.162 209.54 1.378
2213 Divided dimeric dihydrodiol dehydrogenase; 3-deoxyglucosone reductase. [refseq;acc:nm_014475] 211.475 210.127 1.00642
Subtracted mitochondrial ribosomal protein l18. [refseq;acc:nm_014161] 224.943 223.58 1.363
2214 Divided fatty acid-binding protein, adipocyte (afabp) (adipocyte lipid-binding protein) (albp) (a-fabp). [swissprot;acc:p15090] 220.108 221.509 1.00637
Subtracted vesicle-associated membrane protein 2 (vamp-2) (synaptobrevin 2). [swissprot;acc:p19065] 198.71 200.063 1.353
2215 Divided fatty acid-binding protein, epidermal (e-fabp) (psoriasis-associated fatty acid-binding protein homolog) (pa-fabp). [swissprot;acc:q01469] 220.108 221.509 1.00637
Subtracted 43 kda receptor-associated protein of the synapse (rapsyn) (acetylcholine receptor-associated 43 kda protein) (43 kda postsynaptic protein). [swissprot;acc:q13702] 214.194 215.547 1.353
2216 Divided fatty acid-binding protein, brain (b-fabp) (brain lipid-binding protein) (blbp) (mammary derived growth inhibitor related). [swissprot;acc:o15540] 220.108 221.509 1.00637
Subtracted vesicle-associated membrane protein 1 (vamp-1) (synaptobrevin 1). [swissprot;acc:p23763] 198.71 200.063 1.353
2217 Divided wd-repeat protein 4. [swissprot;acc:p57081] 220.108 221.509 1.00637
Subtracted vesicule-associated membrane protein 4 (vamp-4). [swissprot;acc:o75379] 198.71 200.063 1.353
2218 Divided myelin p2 protein. [swissprot;acc:p02689] 220.108 221.509 1.00637
Subtracted cdp-diacylglycerol--inositol 3-phosphatidyltransferase (ec 2.7.8.11) (phosphatidylinositol synthase) (ptdins synthase) (pi synthase). [swissprot;acc:o14735] 198.71 200.063 1.353
2219 Divided kelch-like protein 8. [swissprot;acc:q9p2g9] 220.108 221.509 1.00637
Subtracted adp-ribosylation factor gtpase activating protein 1 (adp-ribosylation factor 1 gtpase activating protein) (arf1 gap) (arf1-directed gtpase- activating protein) (gap protein). [swissprot;acc:q8n6t3] 198.71 200.063 1.353
2220 Divided phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086] 220.108 221.509 1.00637
Subtracted vesicle-associated membrane protein 3 (vamp-3) (synaptobrevin 3) (cellubrevin) (ceb). [swissprot;acc:q15836] 198.71 200.063 1.353
2221 Divided beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938] 220.108 221.509 1.00637
Subtracted dimeric dihydrodiol dehydrogenase; 3-deoxyglucosone reductase. [refseq;acc:nm_014475] 211.475 210.127 1.348
2222 Divided beta-carotene 15, 15'-dioxygenase; beta-carotene 15,15'-monooxygenase. [refseq;acc:nm_017429] 220.108 221.509 1.00637
Subtracted nadph:adrenodoxin oxidoreductase, mitochondrial precursor (ec 1.18.1.2) (adrenodoxin reductase) (ar) (ferredoxin-nadp(+) reductase). [swissprot;acc:p22570] 213.153 211.81 1.343
2223 Divided fatty acid-binding protein, heart (h-fabp) (muscle fatty acid-binding protein) (m-fabp) (mammary-derived growth inhibitor) (mdgi). [swissprot;acc:p05413] 220.108 221.509 1.00637
Subtracted kinesin-like protein kif3c. [swissprot;acc:o14782] 220.377 219.045 1.332
2224 Divided retinal pigment epithelium-specific protein 65kda; retinal pigment epithelium-specific protein (65kd); retinitis pigmentosa 20 (autosomal recessive). [refseq;acc:nm_000329] 220.108 221.509 1.00637
Subtracted kinesin-like protein kif3b (microtubule plus end-directed kinesin motor 3b) (hh0048). [swissprot;acc:o15066] 220.371 219.047 1.324
2225 Divided indolethylamine n-methyltransferase (ec 2.1.1.49) (aromatic alkylamine n-methyltransferase) (indolamine n-methyltransferase) (arylamine n- methyltransferase) (amine n-methyltransferase). [swissprot;acc:o95050] 220.108 221.509 1.00637

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/