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 green red network_comparison
Results: HTML CSV LaTeX Showing element 151 to 200 of 33156 in total
Network Comparison Type  : Divided
Filtered  : 1
Rank
description
Value Type
Interaction Map
green
red
network_comparison
19 trypsin iii precursor (ec 3.4.21.4) (brain trypsinogen) (mesotrypsinogen) (trypsin iv). [swissprot;acc:p35030] Ranked Low confidence 246.824 304.548 1.23387
vitelliform macular dystrophy 2-like protein 1. [refseq;acc:nm_017682] Squared 473408 332411 1.42416
20 deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233] 424645 299771 1.41656
glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737] Ranked High confidence 245.247 185.678 1.32082
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262] Rooted 24.2744 40.3337 1.66157
phosphatidylinositol-glycan biosynthesis, class f protein (pig-f). [swissprot;acc:q07326] Low confidence 71.1231 57.2538 1.24224
protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726] Measured High confidence 1865.5 677.5 2.75351
Squared 823.69 108.641 7.58176
retinoblastoma-associated factor 600. [refseq;acc:nm_020765] Measured Low confidence 9368.87 7256.71 1.29106
trypsin i precursor (ec 3.4.21.4) (cationic trypsinogen). [swissprot;acc:p07477] Ranked 246.737 304.359 1.23354
21 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] Measured 3917.88 3035.43 1.29072
ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485] High confidence 1865.5 677.5 2.75351
Squared 823.69 108.641 7.58176
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6] Rooted 24.2744 40.3337 1.66157
myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7] Ranked 245.247 185.678 1.32082
n33 protein. [swissprot;acc:q13454] Rooted Low confidence 71.1231 57.2538 1.24224
phosphatidylinositol-glycan biosynthesis, class f protein (pig-f). [swissprot;acc:q07326] Ranked 163 198 1.21472
putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172] Squared 134787 189688 1.40732
22 cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936] 57685.7 80340.8 1.39273
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] Measured 3997.02 3126.88 1.27828
glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217] Ranked High confidence 245.247 185.678 1.32082
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150] Rooted 24.2915 40.3357 1.66049
implantation-associated protein. [refseq;acc:nm_032121] Low confidence 71.1231 57.2538 1.24224
n33 protein. [swissprot;acc:q13454] Ranked 163 198 1.21472
protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949] Measured High confidence 1865.5 677.5 2.75351
Squared 823.69 108.641 7.58176
23 28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5] Ranked 44 58 1.31818
carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976] Measured Low confidence 32028.5 40899 1.27696
cyclic-amp-dependent transcription factor atf-3 (activating transcription factor 3). [swissprot;acc:p18847] Rooted 76.7316 63.2736 1.2127
gbp protein isoform a. [refseq;acc:nm_017870] Measured High confidence 1894.39 699.76 2.7072
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [swissprot;acc:p29798] Rooted 24.2919 40.3358 1.66046
implantation-associated protein. [refseq;acc:nm_032121] Ranked Low confidence 163 198 1.21472
microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8] Squared 57169.1 78998 1.38183
neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784] High confidence 457.521 143.692 3.18404
24 atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915] Measured Low confidence 4577.5 5720.25 1.24965
bcl2-related ovarian killer. [refseq;acc:nm_032515] Rooted 61.2591 50.6099 1.21042
chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873] Squared High confidence 457.521 143.692 3.18404
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-8 subunit (gamma-9). [swissprot;acc:q9uk08] Rooted 24.2941 40.336 1.66032
histidine triad nucleotide-binding protein 1 (adenosine 5'- monophosphoramidase) (protein kinase c inhibitor 1) (protein kinase c- interacting protein 1) (pkci-1). [swissprot;acc:p49773] Ranked Low confidence 228.509 188.298 1.21355
microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492] Squared 57161.1 78977.2 1.38166
pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04] Ranked High confidence 44 58 1.31818
protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690] Measured 2108.52 950.561 2.21818
25 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] Ranked Low confidence 238.476 286.396 1.20094
cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326] Squared 56522.1 77316.3 1.3679
doc-1 related protein (doc-1r). [swissprot;acc:o75956] High confidence 457.521 143.692 3.18404
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [swissprot;acc:p30670] Rooted 24.295 40.3361 1.66026
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-7 subunit. [swissprot;acc:o60262] Measured 892.67 1833.01 2.0534
histidine triad nucleotide-binding protein 1 (adenosine 5'- monophosphoramidase) (protein kinase c inhibitor 1) (protein kinase c- interacting protein 1) (pkci-1). [swissprot;acc:p49773] Low confidence 4691.96 5847.46 1.24627
Rooted 56.875 67.7094 1.19049
pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23] Ranked High confidence 44 58 1.31818

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/