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 Rank Network Comparison Type description Filtered Interaction Map Value Type network_comparison red green
Results: HTML CSV LaTeX Showing element 401 to 450 of 38536 in total
Network Comparison Type  : Divided
Rank
description
Filtered
Interaction Map
Value Type
network_comparison
red
green
26 25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [swissprot;acc:o15528] 0 High confidence Squared 128.828 44.3683 0.344399
Rooted 3.62106 13.7805 3.80565
cathepsin z precursor (ec 3.4.22.-) (cathepsin x) (cathepsin p). [swissprot;acc:q9ubr2] Low confidence 1.78921 12.4097 22.2036
cytochrome p450 27, mitochondrial precursor (ec 1.14.-.-) (cytochrome p-450c27/25) (sterol 26-hydroxylase) (sterol 27-hydroxylase) (vitamin d(3) 25-hydroxylase) (5-beta-cholestane-3-alpha,7-alpha,12-alpha-triol 27-hydroxylase). [swissprot;acc:q02318] 1 Ranked 1.20085 286.347 238.454
dystrobrevin binding protein 1; dysbindin. [refseq;acc:nm_032122] 0 High confidence 1.60995 12128.3 7533.33
fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402] Measured 4.3268 153 662
folylpolyglutamate synthase, mitochondrial precursor (ec 6.3.2.17) (folylpoly-gamma-glutamate synthetase) (fpgs). [swissprot;acc:q05932] Low confidence Ranked 1.42223 9282.29 6526.57
glucosamine-6-phosphate isomerase (ec 3.5.99.6) (glucosamine-6- phosphate deaminase) (gnpda) (glcn6p deaminase) (oscillin). [swissprot;acc:p46926] Measured 3.04255 143 47
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-10 subunit. [swissprot;acc:p50151] 1 High confidence Rooted 1.66024 40.3362 24.2954
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6] Measured 2.0534 1833.01 892.67
melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357] 0 Low confidence Squared 9.62112 3.41692 0.355148
neurogenic differentiation factor 6 (neurod6) (my051 protein). [swissprot;acc:q96nk8] 1 High confidence 3.18404 143.692 457.521
pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999] Ranked 1.31818 58 44
son protein (son3) (negative regulatory element-binding protein) (nre- binding protein) (dbp-5) (bax antagonist selected in saccharomyces 1) (bass1) (protein c21orf50). [swissprot;acc:p18583] Low confidence Rooted 1.1826 51.3588 60.737
sperm associated antigen 7. [refseq;acc:nm_004890] Measured 1.20939 23318 19280.8
vasodilator-stimulated phosphoprotein (vasp). [swissprot;acc:p50552] Squared 1.33526 97360.9 72915.2
27 camp-regulated phosphoprotein 19 (arpp-19) [contains: camp-regulated phosphoprotein 16 (arpp-16)]. [swissprot;acc:p56211] 0 Ranked 1.41246 13109 18516
cytochrome p450 24a1, mitochondrial precursor (ec 1.14.-.-) (p450- cc24) (vitamin d(3) 24-hydroxylase) (1,25-dihydroxyvitamin d(3) 24- hydroxylase) (24-ohase). [swissprot;acc:q07973] 1 1.19792 284.798 237.743
dystrophin. [swissprot;acc:p11532] 0 High confidence Rooted 3.47237 17.8026 5.12693
ena/vasodilator stimulated phosphoprotein-like protein (ena/vasp-like protein). [swissprot;acc:q9ui08] 1 Low confidence Squared 1.33526 97360.9 72915.2
glucosamine-6-phosphate isomerase. [refseq;acc:nm_138335] Rooted 1.1617 52.3425 45.0567
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150] High confidence Measured 2.04922 1834.33 895.134
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8] Rooted 1.66015 40.3364 24.2968
melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801] 0 Low confidence Measured 2.97183 105.5 35.5
melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364] Squared 9.62112 3.41692 0.355148
mitochondrial solute carrier protein. [refseq;acc:nm_145305] 1 High confidence Ranked 1.31818 58 44
neurogenic differentiation factor 1 (neurod1) (neurod). [swissprot;acc:q13562] Squared 3.18404 143.692 457.521
phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086] 0 Measured 4.10072 570 139
pnas-129. [sptrembl;acc:q9bxv8] Low confidence Rooted 1.77673 16.4276 9.246
protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690] 1 Measured 1.20152 3840.85 4614.87
ptd016 protein. [refseq;acc:nm_016125] 0 High confidence Ranked 1.60673 18050 11234
syntaxin 10 (syn10). [swissprot;acc:o60499] Squared 39.2112 4.29982 0.109658
28 atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915] 1 Low confidence Ranked 1.19718 142 170
beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938] 0 High confidence Measured 4.10072 570 139
cab2. [refseq;acc:nm_033419] Low confidence Rooted 1.74737 5.30308 9.26646
cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [swissprot;acc:p18847] 1 High confidence Ranked 1.31416 201.949 153.671
elongation of very long chain fatty acids protein 2. [swissprot;acc:q9nxb9] 0 Low confidence 1.40082 16116.4 11505
glucosamine-6-phosphate isomerase (ec 3.5.99.6) (glucosamine-6- phosphate deaminase) (gnpda) (glcn6p deaminase) (oscillin). [swissprot;acc:p46926] 1 Rooted 1.1617 52.3425 45.0567
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152] High confidence 1.65967 40.3372 24.3043
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [swissprot;acc:p29798] Measured 2.04912 1834.36 895.194
melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801] Low confidence Squared 1.33073 82347.8 61881.5
melanoma-associated antigen 2 (mage-2 antigen). [swissprot;acc:p43356] 0 9.62112 3.41692 0.355148
melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357] Measured 2.97183 105.5 35.5
neurogenic differentiation factor 4 (neurod4). [swissprot;acc:q9hd90] 1 High confidence Squared 3.18404 143.692 457.521
p28 ing5. [refseq;acc:nm_032329] 0 Ranked 1.60337 12124.8 7562.05
ptd016 protein. [refseq;acc:nm_016125] Squared 27.7377 0.213018 5.90864
syntaxin 10 (syn10). [swissprot;acc:o60499] Rooted 2.63946 9.62443 3.64637
tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106] 1 Low confidence Measured 1.2003 3098.94 3719.66
29 chromodomain helicase dna binding protein 5. [refseq;acc:nm_015557] High confidence Squared 3.18404 143.692 457.521
cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [swissprot;acc:p18847] Low confidence Ranked 1.19089 203.115 170.557

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/