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 Value Type Rank Network Comparison Type description Interaction Map green Filtered red network_comparison
Results: HTML CSV LaTeX Showing element 425 to 474 of 7460 in total
Value Type  : Ranked
Interaction Map  : High confidence
Rank
Network Comparison Type
description
green
Filtered
red
network_comparison
107 Divided homer, neuronal immediate early gene, 1b. [refseq;acc:nm_004272] 201.998 1 252.309 1.24907
sodium/potassium-transporting atpase alpha-2 chain precursor (ec 3.6.3.9) (sodium pump 2) (na+/k+ atpase 2). [swissprot;acc:p50993] 9808.86 0 11853.5 1.20845
Subtracted creatine kinase, ubiquitous mitochondrial precursor (ec 2.7.3.2) (u- mtck) (mia-ck) (acidic-type mitochondrial creatine kinase). [swissprot;acc:p12532] 11217.7 9183.49 2034.21
eap30 subunit of ell complex. [refseq;acc:nm_007241] 249.187 1 209.299 39.888
108 Divided homer, neuronal immediate early gene, 3. [refseq;acc:nm_004838] 201.995 252.296 1.24902
pyrroline-5-carboxylate reductase (ec 1.5.1.2) (p5cr) (p5c reductase). [swissprot;acc:p32322] 12769.1 0 10585.3 1.2063
Subtracted ataxin 2; olivopontocerebellar ataxia 2, autosomal dominant. [refseq;acc:nm_002973] 8759.5 6742.5 2017
liv-1 protein, estrogen regulated. [refseq;acc:nm_012319] 249.187 1 209.299 39.888
109 Divided dj947l8.1.6 (novel cub and sushi (scr repeat) domain protein) (fragment). [sptrembl;acc:q9h4w2] 12031.7 0 14466.8 1.20239
guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [swissprot;acc:q9hav0] 333.281 1 266.933 1.24856
Subtracted glutamate decarboxylase, 65 kda isoform (ec 4.1.1.15) (gad-65) (65 kda glutamic acid decarboxylase). [swissprot;acc:q05329] 249.187 209.299 39.888
protein-tyrosine phosphatase, non-receptor type 1 (ec 3.1.3.48) (protein-tyrosine phosphatase 1b) (ptp-1b). [swissprot;acc:p18031] 11929 0 9940.69 1988.31
110 Divided deltex 2. [refseq;acc:nm_020892] 267.393 1 333.144 1.2459
dna topoisomerase ii, beta isozyme (ec 5.99.1.3). [swissprot;acc:q02880] 10470.6 0 12584.5 1.20189
Subtracted gamma-soluble nsf attachment protein (snap-gamma) (n-ethylmaleimide- sensitive factor attachment protein, gamma). [swissprot;acc:q99747] 249.187 1 209.299 39.888
importin 7; ran-binding protein 7. [refseq;acc:nm_006391] 16820.7 0 14864.7 1956
111 Divided deltex homolog 1; hdx-1. [refseq;acc:nm_004416] 267.274 1 332.925 1.24563
protein-tyrosine phosphatase, non-receptor type 1 (ec 3.1.3.48) (protein-tyrosine phosphatase 1b) (ptp-1b). [swissprot;acc:p18031] 11929 0 9940.69 1.20002
Subtracted glutamate decarboxylase, 67 kda isoform (ec 4.1.1.15) (gad-67) (67 kda glutamic acid decarboxylase). [swissprot;acc:q99259] 249.187 1 209.299 39.888
ribose-phosphate pyrophosphokinase iii (ec 2.7.6.1) (phosphoribosyl pyrophosphate synthetase iii) (prs-iii). [swissprot;acc:p21108] 15183.2 0 13255.4 1927.8
112 Divided 40s ribosomal protein s26. [swissprot;acc:p02383] 17098 14269.7 1.1982
t-lak cell-originated protein kinase; spermatogenesis-related protein kinase; pdz-binding kinase; pbk; mapkk-like protein kinase; serine/threonine protein kinase. [refseq;acc:nm_018492] 267.246 1 332.874 1.24557
Subtracted dna polymerase epsilon p12 subunit (dna polymerase epsilon subunit 4). [swissprot;acc:q9nr33] 235.908 275.754 39.846
imp2 inner mitochondrial membrane protease-like; inner mitochondrial membrane peptidase 2 like. [refseq;acc:nm_032549] 10228.3 0 8335.82 1892.48
113 Divided kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [refseq;acc:nm_006558] 267.246 1 332.874 1.24557
segment polarity protein dishevelled homolog dvl-1 (dishevelled-1) (dsh homolog 1). [swissprot;acc:o14640] 6797.56 0 5673.33 1.19816
Subtracted microsomal signal peptidase 18 kda subunit (ec 3.4.-.-) (spase 18 kda subunit) (spc18) (endopeptidase sp18). [swissprot;acc:p21378] 10228.3 8335.82 1892.48
serine/threonine protein phosphatase 2a, catalytic subunit, alpha isoform (ec 3.1.3.16) (pp2a-alpha) (replication protein c) (rp-c). [swissprot;acc:p05323] 234.204 1 194.372 39.832
114 Divided bloom's syndrome protein (ec 3.6.1.-) (recq protein-like 3) (dna helicase, recq-like, type 2). [swissprot;acc:p54132] 10603.2 0 8871.11 1.19525
kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559] 267.246 1 332.874 1.24557
Subtracted b9 protein; likely ortholog of mouse endothelial precursor protein b9. [refseq;acc:nm_015681] 267.265 229.818 37.447
lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [refseq;acc:nm_003893] 17469.2 0 19355 1885.8
115 Divided kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688] 267.246 1 332.874 1.24557
spir-2 protein (fragment). [sptrembl;acc:q8wwl2] 15627 0 18662.8 1.19427
Subtracted dna directed rna polymerase ii polypeptide j-related gene isoform 3; rpb11b1alpha protein; rpb11b1beta; dna-directed rna polymerase ii subunit 11. [refseq;acc:nm_032959] 13005.3 11124.8 1880.5
histone acetyltransferase type b catalytic subunit (ec 2.3.1.48). [swissprot;acc:o14929] 240.461 1 277.546 37.085
116 Divided guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [swissprot;acc:p16520] 334.483 268.565 1.24545
metaxin 1. [swissprot;acc:q13505] 16422.1 0 13761.3 1.19335
Subtracted dna directed rna polymerase ii polypeptide j-related gene isoform 1; rpb11b1alpha protein; rpb11b1beta; dna-directed rna polymerase ii subunit 11. [refseq;acc:nm_145325] 13000.1 11123.4 1876.7
high-mobility group 20b; sox-like transcriptional factor; swi/snf-related matrix-associated actin-dependent regulator of chromatin subfamily e, member 1-related. [refseq;acc:nm_006339] 171.595 1 208.52 36.925
117 Divided basic proline-rich peptide p-e (ib-9). [swissprot;acc:p02811] 13771.5 0 11545 1.19285
neuralized-like. [refseq;acc:nm_004210] 266.948 1 332.326 1.24491
Subtracted block 23. [sptrembl;acc:q8nhw5] 13334.8 0 11469.3 1865.5
high-mobility group 20a. [refseq;acc:nm_018200] 171.778 1 208.588 36.81
118 Divided aquaporin-cd (aqp-cd) (water channel protein for renal collecting duct) (adh water channel) (aquaporin 2) (collecting duct water channel protein) (wch-cd). [swissprot;acc:p41181] 14370.7 0 12049 1.19269
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] 228.934 1 284.753 1.24382
Subtracted filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333] 5699 0 3845 1854
odd-skipped related 1; odz (odd oz/ten-m) related 1. [refseq;acc:nm_145260] 237.79 1 274.027 36.237
119 Divided mesoderm induction early response 1. [refseq;acc:nm_020948] 4302.5 0 3609 1.19216
nadh-ubiquinone oxidoreductase 18 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-18 kda) (ci-18 kda) (complex i- aqdq) (ci-aqdq). [swissprot;acc:o43181] 259.004 1 318.982 1.23157

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/