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

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.


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Gene Rank description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 101 to 150 of 9634 in total
Value Type  : Measured
Network Comparison Type  : Divided
Rank
description
Interaction Map
Filtered
red
green
network_comparison
26 fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402] High confidence 0 153 662 4.3268
glucosamine-6-phosphate isomerase (ec 3.5.99.6) (glucosamine-6- phosphate deaminase) (gnpda) (glcn6p deaminase) (oscillin). [swissprot;acc:p46926] Low confidence 143 47 3.04255
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6] High confidence 1 1833.01 892.67 2.0534
sperm associated antigen 7. [refseq;acc:nm_004890] Low confidence 23318 19280.8 1.20939
27 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150] High confidence 1834.33 895.134 2.04922
melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801] Low confidence 0 105.5 35.5 2.97183
phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086] High confidence 570 139 4.10072
protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690] Low confidence 1 3840.85 4614.87 1.20152
28 beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938] High confidence 0 570 139 4.10072
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [swissprot;acc:p29798] 1 1834.36 895.194 2.04912
melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357] Low confidence 0 105.5 35.5 2.97183
tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106] 1 3098.94 3719.66 1.2003
29 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-8 subunit (gamma-9). [swissprot;acc:q9uk08] High confidence 1834.52 895.507 2.04858
melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364] Low confidence 0 105.5 35.5 2.97183
potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281] High confidence 111.278 434.911 3.90833
tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616] Low confidence 1 3121.28 3739.84 1.19818
30 bestrophin (vitelliform macular dystrophy protein) (tu15b). [swissprot;acc:o76090] 36474.3 43509.4 1.19288
dystrophin. [swissprot;acc:p11532] High confidence 0 427.217 111.739 3.82335
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [swissprot;acc:p30670] 1 1834.59 895.633 2.04837
melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356] Low confidence 0 105.5 35.5 2.97183
31 dok-like protein. [refseq;acc:nm_024872] High confidence 35 0.00001 3500000
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-10 subunit. [swissprot;acc:p50151] 1 1834.63 895.697 2.04827
hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932] Low confidence 0 105.5 35.5 2.97183
vitelliform macular dystrophy 2-like protein 2. [refseq;acc:nm_153274] 1 36469.3 43503.3 1.19287
32 cell division protein kinase 8 (ec 2.7.1.-) (protein kinase k35). [swissprot;acc:p49336] High confidence 0 598 184 3.25
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8] 1 1834.73 895.893 2.04793
melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360] Low confidence 0 105.5 35.5 2.97183
nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] 1 36360.3 43368.8 1.19275
33 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152] High confidence 1835.3 896.972 2.04611
lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [refseq;acc:nm_003893] 0 12.6208 39.8063 3.15402
melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3] Low confidence 105.5 35.5 2.97183
vitelliform macular dystrophy 2-like protein 1. [refseq;acc:nm_017682] 1 36360.3 43368.8 1.19275
34 glucosamine-6-phosphate isomerase (ec 3.5.99.6) (glucosamine-6- phosphate deaminase) (gnpda) (glcn6p deaminase) (oscillin). [swissprot;acc:p46926] High confidence 0 143 47 3.04255
guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992] 1 1836.71 907.546 2.02382
melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2] Low confidence 0 105.5 35.5 2.97183
protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8] 1 5339.5 6352.4 1.1897
35 adp,atp carrier protein, liver isoform t2 (adp/atp translocase 3) (adenine nucleotide translocator 3) (ant 3). [swissprot;acc:p12236] High confidence 0 459.5 1377 2.99674
deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233] Low confidence 1 33111.4 39358.1 1.18866
guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148] High confidence 1836.71 907.564 2.02378
melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358] Low confidence 0 105.5 35.5 2.97183
36 guanine nucleotide-binding protein g(z), alpha subunit (g(x) alpha chain) (gz-alpha). [swissprot;acc:p19086] High confidence 1 1836.76 907.741 2.02344
heparan sulfate 6-o-sulfotransferase 2. [refseq;acc:nm_147174] 0 157 56 2.80357
melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362] Low confidence 105.5 35.5 2.97183
proto-oncogene protein c-fos (cellular oncogene fos) (g0/g1 switch regulatory protein 7). [swissprot;acc:p01100] 1 6462.09 7593.77 1.17513
37 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] High confidence 0 334.401 934.348 2.79409
guanine nucleotide-binding protein g(t), alpha-1 subunit (transducin alpha-1 chain). [swissprot;acc:p11488] 1 1836.76 907.763 2.02339
jun dimerization protein. [refseq;acc:nm_130469] Low confidence 6462.09 7593.77 1.17513
melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361] 0 105.5 35.5 2.97183
38 guanine nucleotide-binding protein g(t), alpha-2 subunit (transducin alpha-2 chain). [swissprot;acc:p19087] High confidence 1 1836.76 907.774 2.02337
melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732] Low confidence 0 105.5 35.5 2.97183

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/