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 red green network_comparison
Results: HTML CSV LaTeX Showing element 2101 to 2150 of 33156 in total
Network Comparison Type  : Divided
Filtered  : 1
Rank
description
Value Type
Interaction Map
red
green
network_comparison
263 p10-binding protein. [refseq;acc:nm_024491] Squared Low confidence 52319.1 48005.3 1.08986
paxillin. [swissprot;acc:p49023] Rooted High confidence 59.4073 66.7002 1.12276
sodium/hydrogen exchanger 6 (na(+)/h(+) exchanger 6) (nhe-6). [swissprot;acc:q92581] Ranked Low confidence 216.546 207.063 1.0458
trs85 homolog. [swissprot;acc:q9y2l5] Measured High confidence 24896.4 20431.7 1.21852
264 adenylate cyclase, type v (ec 4.6.1.1) (atp pyrophosphate-lyase) (adenylyl cyclase) (fragment). [swissprot;acc:o95622] Squared 26157.6 20236.2 1.29261
bicaudal d homolog 1; bicaudal-d, drosophila, homolog of, 1. [refseq;acc:nm_001714] Rooted Low confidence 70.75 74.7143 1.05603
cop9 constitutive photomorphogenic homolog subunit 3; cop9 complex subunit 3; jab1-containing signalosome subunit 3. [refseq;acc:nm_003653] Measured High confidence 4987.58 4094.57 1.2181
diacylglycerol kinase, theta (ec 2.7.1.107) (diglyceride kinase) (dgk- theta) (dag kinase theta). [swissprot;acc:p52824] Low confidence 6396.44 6786.96 1.06105
mrna decapping enzyme; histidine triad protein member 5; heat shock-like protein 1. [refseq;acc:nm_014026] Ranked High confidence 219.421 196.978 1.11394
senescence downregulated leo1-like. [refseq;acc:nm_138792] Low confidence 216.546 207.063 1.0458
upf0183 protein. [swissprot;acc:q9bsu1] Squared 43982.2 40356.7 1.08984
wiskott-aldrich syndrome protein (wasp). [swissprot;acc:p42768] Rooted High confidence 66.1122 74.1438 1.12148
265 kinesin-like protein kif3a (microtubule plus end-directed kinesin motor 3a). [swissprot;acc:q9y496] Squared Low confidence 47740.4 43810.6 1.0897
leucine-rich repeat-containing protein 15 precursor (hlib). [swissprot;acc:q8tf66] High confidence 26157.6 20236.2 1.29261
solute carrier family 9, member 7; nonselective sodium potassium/proton exchanger; sodium/hydrogen exchanger 7. [refseq;acc:nm_032591] Ranked Low confidence 216.546 207.063 1.0458
splicing factor 3b subunit 1 (spliceosome associated protein 155) (sap 155) (sf3b155) (pre-mrna splicing factor sf3b 155 kda subunit). [swissprot;acc:o75533] High confidence 225.217 202.459 1.11241
synaptojanin 2 (ec 3.1.3.36) (synaptic inositol-1,4,5-trisphosphate 5- phosphatase 2) (fragment). [swissprot;acc:o15056] Measured Low confidence 8081.02 8573.8 1.06098
tuftelin-interacting protein 11 (hspc006). [swissprot;acc:q9ubb9] Rooted 70.75 74.7143 1.05603
u6 snrna-associated sm-like protein lsm8. [swissprot;acc:o95777] High confidence 56.031 62.8281 1.12131
wd-repeat protein wdc146. [swissprot;acc:q9c0j8] Measured 24806.9 20369.9 1.21782
266 40s ribosomal protein s25. [swissprot;acc:p25111] Squared Low confidence 48481.4 44504.2 1.08937
calcineurin b subunit isoform 1 (protein phosphatase 2b regulatory subunit 1) (protein phosphatase 3 regulatory subunit b alpha isoform 1). [swissprot;acc:p06705] Ranked 214.887 205.509 1.04563
carboxypeptidase a1 precursor (ec 3.4.17.1). [swissprot;acc:p15085] Measured 8817.03 9353.9 1.06089
cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570] High confidence 24806.9 20369.9 1.21782
fem-1 homolog b; fem-1-like death receptor binding protein; fem-1 (c.elegans) homolog b. [refseq;acc:nm_015322] Squared 26157.6 20236.2 1.29261
odd-skipped related 1; odz (odd oz/ten-m) related 1. [refseq;acc:nm_145260] Rooted Low confidence 66.2701 69.978 1.05595
proto-oncogene c-crk (p38) (adapter molecule crk). [swissprot;acc:p46108] High confidence 66.1064 74.1074 1.12103
transcriptional co-repressor sin3a; transcriptional regulator, sin3a (yeast). [refseq;acc:nm_015477] Ranked 241.07 267.88 1.11121
267 choline/ethanolaminephosphotransferase. [refseq;acc:nm_006090] Measured Low confidence 8813.83 9348.71 1.06069
density-regulated protein (drp) (drp1 protein) (smooth muscle cell associated protein-3) (smap-3). [swissprot;acc:o43583] Ranked High confidence 241.07 267.88 1.11121
dj310o13.4 (novel protein similar to predicted c. elegans and c. intestinalis proteins) (fragment). [sptrembl;acc:q9nug5] Squared Low confidence 33343.5 36296.7 1.08857
jm1 protein. [refseq;acc:nm_014008] Rooted 67.162 70.9153 1.05588
leucine-rich repeat protein lrrc3 precursor. [swissprot;acc:q9by71] Squared High confidence 26157.6 20236.2 1.29261
ral guanine nucleotide dissociation stimulator (ralgef) (ralgds). [swissprot;acc:q12967] Measured 14021.4 11523 1.21682
tensin. [refseq;acc:nm_022648] Ranked Low confidence 215.258 205.872 1.04559
tyrosine-protein kinase abl2 (ec 2.7.1.112) (tyrosine kinase arg). [swissprot;acc:p42684] Rooted High confidence 66.1064 74.1073 1.12103
268 cleavage and polyadenylation specificity factor, 100 kda subunit (cpsf 100 kda subunit) (fragment). [swissprot;acc:q9p2i0] Measured 24473.9 20127.8 1.21593
eukaryotic translation initiation factor 5 (eif-5). [swissprot;acc:p55010] Ranked 271.016 244.167 1.10996
exonuclease 1 isoform b; rad2 nuclease family member, homolog of s. cerevisiae exonuclease 1. [refseq;acc:nm_006027] Squared Low confidence 51352 47191.4 1.08816
laminin gamma-1 chain precursor (laminin b2 chain). [swissprot;acc:p11047] High confidence 26157.6 20236.2 1.29261
proto-oncogene tyrosine-protein kinase src (ec 2.7.1.112) (p60-src) (c-src). [swissprot;acc:p12931] Rooted 66.1064 74.1074 1.12103
reversion-inducing cysteine-rich protein with kazal motifs precursor (hreck) (suppressor of tumorigenicity 15) (st15). [swissprot;acc:o95980] Measured Low confidence 8813.83 9348.71 1.06069
serine/threonine-protein kinase kkialre (ec 2.7.1.-) (cyclin-dependent kinase-like 1). [swissprot;acc:q00532] Rooted 70.9046 74.8645 1.05585
sterol o-acyltransferase 2 (ec 2.3.1.26) (cholesterol acyltransferase 2) (acyl coenzyme a:cholesterol acyltransferase 2) (acat-2). [swissprot;acc:o75908] Ranked 208.469 199.455 1.04519
269 choline phosphotransferase 1; cholinephosphotransferase 1 alpha; cholinephosphotransferase 1. [refseq;acc:nm_020244] Measured 8813.95 9348.9 1.06069
cholinephosphate cytidylyltransferase a (ec 2.7.7.15) (phosphorylcholine transferase a) (ctp:phosphocholine cytidylyltransferase a) (ct a) (cct a) (cct-alpha). [swissprot;acc:p49585] Ranked High confidence 241.373 267.352 1.10763
fatty acid-binding protein, brain (b-fabp) (brain lipid-binding protein) (blbp) (mammary derived growth inhibitor related). [swissprot;acc:o15540] Squared Low confidence 50001.6 45954.4 1.08807
spliceosomal u5 snrnp-specific 15 kda protein (dim1 protein homolog) (thioredoxin-like u5 snrnp protein u5-15kd). [swissprot;acc:o14834] Rooted 70.8256 74.7762 1.05578
sterol o-acyltransferase 1 (ec 2.3.1.26) (cholesterol acyltransferase 1) (acyl coenzyme a:cholesterol acyltransferase 1) (acat-1). [swissprot;acc:p35610] Ranked 208.436 199.44 1.04511
thymic stromal co-transporter. [refseq;acc:nm_033051] Squared High confidence 26157.6 20236.2 1.29261

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/