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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Rank Gene description Value Type Network Comparison Type Interaction Map Filtered green red network_comparison
Results: HTML CSV LaTeX Showing element 1051 to 1100 of 7460 in total
Value Type  : Measured
Interaction Map  : High confidence
Rank
description
Network Comparison Type
Filtered
green
red
network_comparison
263 sirtuin 7; sir2-related protein type 7; sirtuin type 7; sirtuin (silent mating type information regulation 2, s.cerevisiae, homolog) 7; silent mating type information regulation 2, s.cerevisiae, homolog 7; sirtuin silent mating type information regulation 2 homolog 7 (s. cerevisiae). [refseq;acc:nm_016538] Divided 0 1633 1843 1.1286
trs85 homolog. [swissprot;acc:q9y2l5] 1 20431.7 24896.4 1.21852
264 3-ketoacyl-coa thiolase, peroxisomal precursor (ec 2.3.1.16) (beta- ketothiolase) (acetyl-coa acyltransferase) (peroxisomal 3-oxoacyl- coa thiolase). [swissprot;acc:p09110] Subtracted 0 1721.76 1837.26 115.5
cop9 constitutive photomorphogenic homolog subunit 3; cop9 complex subunit 3; jab1-containing signalosome subunit 3. [refseq;acc:nm_003653] Divided 1 4094.57 4987.58 1.2181
ctp synthase (ec 6.3.4.2) (utp--ammonia ligase) (ctp synthetase). [swissprot;acc:p17812] Subtracted 11212 12503.3 1291.3
sodium/potassium-transporting atpase alpha-2 chain precursor (ec 3.6.3.9) (sodium pump 2) (na+/k+ atpase 2). [swissprot;acc:p50993] Divided 0 2957.12 3336.48 1.12829
265 60s ribosomal protein l9. [swissprot;acc:p32969] 1894.01 1685.44 1.12375
pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129] Subtracted 109 0 109
splicing factor 3b subunit 1 (spliceosome associated protein 155) (sap 155) (sf3b155) (pre-mrna splicing factor sf3b 155 kda subunit). [swissprot;acc:o75533] 1 5923.4 4638.1 1285.3
wd-repeat protein wdc146. [swissprot;acc:q9c0j8] Divided 20369.9 24806.9 1.21782
266 40s ribosomal protein sa (p40) (34/67 kda laminin receptor) (colon carcinoma laminin-binding protein) (nem/1chd4) (multidrug resistance- associated protein mgr1-ag). [swissprot;acc:p08865] Subtracted 0 1104.61 1212.82 108.21
aldehyde dehydrogenase 8 (ec 1.2.1.5). [swissprot;acc:p48448] Divided 1312.91 1475.05 1.1235
cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570] 1 20369.9 24806.9 1.21782
solute carrier family 4 (anion exchanger), member 1, adaptor protein; kidney anion exchanger adaptor protein; kanadaptin; lung cancer oncogene 3. [refseq;acc:nm_018158] Subtracted 9948.93 11222.2 1273.27
267 cyclin-dependent kinases regulatory subunit 2 (cks-2). [swissprot;acc:p33552]
disks large-associated protein 2 (dap-2) (sap90/psd-95-associated protein 2) (sapap2) (psd-95/sap90 binding protein 2) (fragment). [swissprot;acc:q9p1a6] 0 975.647 870.93 104.717
ral guanine nucleotide dissociation stimulator (ralgef) (ralgds). [swissprot;acc:q12967] Divided 1 11523 14021.4 1.21682
uncharacterized bone marrow protein bm033. [refseq;acc:nm_018452] 0 1312.91 1475.05 1.1235
268 catenin (cadherin-associated protein), alpha-like 1; alpha-catulin. [refseq;acc:nm_003798] Subtracted 1 9948.93 11222.2 1273.27
cleavage and polyadenylation specificity factor, 100 kda subunit (cpsf 100 kda subunit) (fragment). [swissprot;acc:q9p2i0] Divided 20127.8 24473.9 1.21593
creatine kinase, ubiquitous mitochondrial precursor (ec 2.7.3.2) (u- mtck) (mia-ck) (acidic-type mitochondrial creatine kinase). [swissprot;acc:p12532] Subtracted 0 759.896 861.401 101.505
far upstream element-binding protein; far upstream element binding protein; fuse-binding protein. [refseq;acc:nm_003902] Divided 538.094 604.529 1.12346
269 60s ribosomal protein l10 (qm protein) (tumor suppressor qm) (laminin receptor homolog). [swissprot;acc:p27635] 1367.83 1217.92 1.12309
crk-associated substrate (p130cas) (breast cancer anti-estrogen resistance 1 protein). [swissprot;acc:p56945] Subtracted 1 6074.21 4808.79 1265.42
syntaxin 10 (syn10). [swissprot;acc:o60499] 0 17.6611 118.878 101.217
u6 snrna-associated sm-like protein lsm8. [swissprot;acc:o95777] Divided 1 5575.52 4590.18 1.21466
270 fip1-like 1; rearranged in hypereosinophilia. [refseq;acc:nm_030917] 19479.8 23640.2 1.21358
heparan sulfate 6-o-sulfotransferase 2. [refseq;acc:nm_147174] Subtracted 0 56 157 101
ribosomal protein l10-like protein. [refseq;acc:nm_080746] Divided 1367.88 1217.96 1.12309
t-complex protein 1, delta subunit (tcp-1-delta) (cct-delta) (stimulator of tar rna binding). [swissprot;acc:p50991] Subtracted 1 6075.04 4810.22 1264.82
271 60s ribosomal protein l39. [swissprot;acc:p02404] 0 2923.92 3024.78 100.86
chromatin accessibility complex protein 1 (chrac-1) (chrac-15) (huchrac15) (dna polymerase epsilon subunit p15). [swissprot;acc:q9nrg0] Divided 1 3093.78 2554.89 1.21092
enhancer of filamentation 1 (hef1) (crk-associated substrate-related protein) (cas-l) (casl) (pp105) (neural precursor cell expressed developmentally down-regulated 9). [swissprot;acc:q14511] Subtracted 6076.09 4812.01 1264.08
histone h4. [swissprot;acc:p02304] Divided 0 24446.3 21773.1 1.12278
272 60s ribosomal protein l15. [swissprot;acc:p39030] 753.793 846.216 1.12261
histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [swissprot;acc:o14929] 1 4669.27 3858.52 1.21012
hsp90 co-chaperone cdc37 (hsp90 chaperone protein kinase-targeting subunit) (p50cdc37). [swissprot;acc:q16543] Subtracted 0 650.724 750.981 100.257
nadh-ubiquinone oxidoreductase subunit b17.2 (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b17.2) (ci-b17.2) (cib17.2) (13 kda differentiation-associated protein). [swissprot;acc:q9ui09] 1 3221.38 1991.03 1230.35
273 cleavage stimulation factor, 64 kda subunit (cstf 64 kda subunit) (cf-1 64 kda subunit). [swissprot;acc:p33240] 0 758.411 658.544 99.867
eukaryotic translation initiation factor 5 (eif-5). [swissprot;acc:p55010] Divided 1 3870.8 3199.4 1.20985
ribosomal protein s6 kinase, 52kda, polypeptide 1; ribosomal protein s6 kinase, 52kd, polypeptide 1. [refseq;acc:nm_012424] Subtracted 6410.58 5181.2 1229.38
sorcin (22 kda protein) (cp-22) (v19). [swissprot;acc:p30626] Divided 0 1582.65 1410.81 1.1218
274 adenylate kinase isoenzyme 4, mitochondrial (ec 2.7.4.3) (atp-amp transphosphorylase). [swissprot;acc:p27144] Subtracted 1591.6 1491.75 99.85
brain protein 16. [refseq;acc:nm_016458] Divided 2418.14 2155.75 1.12172
chromosome 3p21.1 gene sequence. [refseq;acc:nm_013286] 1 2579.49 3119.98 1.20953
ribosomal protein s6 kinase-like 1. [refseq;acc:nm_031464] Subtracted 6410.58 5181.2 1229.38
275 deoxyuridine 5'-triphosphate nucleotidohydrolase, mitochondrial precursor (ec 3.6.1.23) (dutpase) (dutp pyrophosphatase). [swissprot;acc:p33316] 9043.51 10264.9 1221.39
pram-1 protein; pml-rara target gene encoding an adaptor molecule-1. [refseq;acc:nm_032152] 0 2254.12 2156.64 97.48
regulator of g-protein signaling 19 (rgs19) (g-alpha interacting protein) (gaip protein). [swissprot;acc:p49795] Divided 1 2579.49 3119.98 1.20953
swi/snf-related matrix-associated actin-dependent regulator of chromatin c2 isoform a; mammalian chromatin remodeling complex brg1-associated factor 170; chromatin remodeling complex baf170 subunit; swi3-like protein; swi/snf complex 170 kda subunit. [refseq;acc:nm_003075] 0 804.725 717.401 1.12172

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/