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 5858 to 5907 of 77072 in total
Rank
description
Value Type
Network Comparison Type
Interaction Map
Filtered
red
green
network_comparison
184 alpha crystallin a chain. [swissprot;acc:p02489] Ranked Subtracted Low confidence 1 219.589 208.895 10.694
androgen-induced 1; cgi-103 protein; androgen induced protein. [refseq;acc:nm_016108] High confidence 227.357 254.15 26.793
ariadne-2 protein homolog (ari-2) (triad1 protein) (ht005). [swissprot;acc:o95376] 0 3284 4554.5 1270.5
associated molecule with the sh3 domain of stam (amsh) like protein. [refseq;acc:nm_020799] Measured 736.737 561.038 175.699
blood group rh(ce) polypeptide (rhesus c/e antigens) (rh30a) (rhixb) (rh polypeptide 1) (rhpi). [swissprot;acc:p18577] Divided 375.07 306.727 1.22281
calcyphosine. [swissprot;acc:q13938] Rooted 18.8902 21.6141 1.1442
cathepsin z precursor (ec 3.4.22.-) (cathepsin x) (cathepsin p). [swissprot;acc:q9ubr2] Measured Subtracted Low confidence 154 493 339
creatine kinase, ubiquitous mitochondrial precursor (ec 2.7.3.2) (u- mtck) (mia-ck) (acidic-type mitochondrial creatine kinase). [swissprot;acc:p12532] Squared Divided 8555.09 11751.7 1.37365
cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936] Rooted High confidence 1 153.602 133.195 1.15321
fibrillin 3. [refseq;acc:nm_032447] Low confidence 0 54.7341 47.9266 1.14204
heat shock 70 kda protein 6 (heat shock 70 kda protein b'). [swissprot;acc:p17066] Squared Subtracted 16275.6 15080 1195.6
keratin associated protein 4-10; keratin associated protein 4.10. [refseq;acc:nm_033060] Rooted High confidence 23.8722 20.9333 2.9389
keratin associated protein 4-12; keratin associated protein 4.12. [refseq;acc:nm_031854] Squared 3679.97 3222.25 457.72
ns1-associated protein 1. [refseq;acc:nm_006372] Measured Divided 1 4069.83 5252.17 1.29051
odd-skipped related 1; odz (odd oz/ten-m) related 1. [refseq;acc:nm_145260] Ranked 274.027 237.79 1.15239
protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726] Measured Subtracted Low confidence 5334.13 5933.4 599.27
putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37] Rooted High confidence 47.6504 36.9304 10.72
pyruvate carboxylase, mitochondrial precursor (ec 6.4.1.1) (pyruvic carboxylase) (pcb). [swissprot;acc:p11498] Squared 48127.9 62245.6 14117.7
similar to zinc finger protein 277. [sptrembl;acc:q8wwa6] Ranked Divided 0 6279.56 5569.42 1.12751
small glutamine rich protein with tetratricopeptide repeats 2. [refseq;acc:nm_019072] Squared 1 72886.3 98544.5 1.35203
soluble liver antigen/liver pancreas antigen. [refseq;acc:nm_153825] Rooted Subtracted Low confidence 0 21.0524 16.4963 4.5561
sorcin (22 kda protein) (cp-22) (v19). [swissprot;acc:p30626] Ranked 9210.38 7893.05 1317.33
spectrin alpha chain, brain (spectrin, non-erythroid alpha chain) (alpha-ii spectrin) (fodrin alpha chain). [swissprot;acc:q13813] Measured Divided 1 7764.08 8365.72 1.07749
spermidine synthase (ec 2.5.1.16) (putrescine aminopropyltransferase) (spdsy). [swissprot;acc:p19623] Squared 54936 49474.7 1.11039
sphingomyelin phosphodiesterase 2 (ec 3.1.4.12) (neutral sphingomyelinase) (nsmase) (n-smase) (lyso-platelet activating factor- phospholipase c) (lyso-paf-plc). [swissprot;acc:o60906] Rooted Subtracted 57.5193 53.0965 4.4228
tata element modulatory factor (tmf). [swissprot;acc:p82094] Squared 54650.6 49501.5 5149.1
testis specific, 10. [refseq;acc:nm_025244] Ranked Divided 196.373 206.946 1.05384
tetranectin precursor (tn) (plasminogen-kringle 4 binding protein). [swissprot;acc:p05452] Measured Subtracted High confidence 10804.7 12363.6 1558.9
transcription elongation factor a protein 1 (transcription elongation factor s-ii protein 1) (transcription elongation factor tfiis.o). [swissprot;acc:p23193] Squared Divided 0 4.23965 2.86829 1.47811
u2 small nuclear ribonucleoprotein b". [swissprot;acc:p08579] Rooted Low confidence 1 70.6712 75.0934 1.06257
zinc finger protein 134. [swissprot;acc:p52741] Ranked 0 4248.61 4845.01 1.14038
185 5'-amp-activated protein kinase, gamma-3 subunit (ampk gamma-3 chain) (ampk gamma3). [swissprot;acc:q9ugi9] Squared 1 54659.6 49230.2 1.11029
adiponectin receptor 2. [refseq;acc:nm_024551] Ranked High confidence 281.582 246.371 1.14292
adp-ribosylation factor-like protein 7 (adp-ribosylation factor-like protein lak). [swissprot;acc:p56559] Squared 0 0.125207 0.0854438 1.46537
atp synthase b chain, mitochondrial precursor (ec 3.6.3.14). [swissprot;acc:p24539] Ranked Subtracted 1 227.357 254.15 26.793
baculoviral iap repeat-containing protein 5 (apoptosis inhibitor survivin) (apoptosis inhibitor 4). [swissprot;acc:o15392] Measured Low confidence 0 5846.15 5516.84 329.31
blood group rh(ce) polypeptide (rhesus c/e antigens) (rh30a) (rhixb) (rh polypeptide 1) (rhpi). [swissprot;acc:p18577] Divided High confidence 375.322 306.933 1.22281
bromodomain-containing protein 2 (ring3 protein) (o27.1.1). [swissprot;acc:p25440] Squared Subtracted Low confidence 1 53878.5 48740.6 5137.9
c439a6.1 (novel protein similar to heparan sulfate (glucosamine) 3-o- sulfotransferases) (fragment). [sptrembl;acc:q96qi5] Divided High confidence 41502.9 30836.8 1.34589
cab2. [refseq;acc:nm_033419] Measured Subtracted 0 0 174 174
cdc42-binding protein kinase beta; cdc42-binding protein kinase beta (dmpk-like); mrck beta; dmpk-like. [refseq;acc:nm_006035] Rooted Divided Low confidence 29.5635 33.7491 1.14158
coatomer beta' subunit (beta'-coat protein) (beta'-cop) (p102). [swissprot;acc:p35606] High confidence 30.6682 26.8335 1.14291
db83 protein. [swissprot;acc:p57088] Subtracted Low confidence 1 57.5193 53.0965 4.4228
f-actin capping protein alpha-2 subunit (capz alpha-2). [swissprot;acc:p47755] Ranked Divided 212.589 201.755 1.0537
ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485] Measured Subtracted 5334.13 5933.4 599.27
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8] Ranked 211.457 222.138 10.681
hepatocyte growth factor-regulated tyrosine kinase substrate; human growth factor-regulated tyrosine kinase substrate. [refseq;acc:nm_004712] Squared High confidence 70830.5 56822 14008.5
heterogeneous nuclear ribonucleoprotein r (hnrnp r). [swissprot;acc:o43390] Measured Divided 4069.83 5252.17 1.29051
keratin associated protein 4-14; keratin associated protein 4.14. [refseq;acc:nm_033059] Rooted Subtracted 0 23.8722 20.9336 2.9386
microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8] Divided 1 153.578 133.176 1.1532

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/