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 Filtered Value Type Network Comparison Type Interaction Map description red green network_comparison
Results: HTML CSV LaTeX Showing element 101 to 150 of 19268 in total
Value Type  : Ranked
Rank
Filtered
Network Comparison Type
Interaction Map
description
red
green
network_comparison
13 1 Divided High confidence protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8] 288.754 212.554 1.3585
Low confidence nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] 37.9984 29.1831 1.30207
Subtracted High confidence guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6] 266.856 336.233 69.377
Low confidence protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8] 255.046 202.362 52.684
14 0 Divided High confidence dystrophin. [swissprot;acc:p11532] 10232.5 18054.8 1.76446
Low confidence ptd016 protein. [refseq;acc:nm_016125] 18050 11234 1.60673
Subtracted High confidence ubiquitin protein ligase. [refseq;acc:nm_130466] 7523 15339.2 7816.2
Low confidence ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5] 13730.5 8257 5473.5
1 Divided High confidence cysteine endopeptidase aut-like 2 isoform a; autophagy-related cysteine endopeptidase 2; autophagin 2. [refseq;acc:nm_052936] 56.6768 75.3531 1.32952
Low confidence vitelliform macular dystrophy 2-like protein 1. [refseq;acc:nm_017682] 37.9984 29.1831 1.30207
Subtracted High confidence guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150] 266.863 336.191 69.328
Low confidence 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] 286.396 238.476 47.92
15 0 Divided High confidence succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial precursor (cybs) (succinate-ubiquinone reductase membrane anchor subunit) (qps2) (cii-4) (succinate dehydrogenase complex subunit d) (succinate-ubiquinone oxidoreductase cytochrome b small subunit). [swissprot;acc:o14521] 19403 11267 1.72211
Low confidence adenomatous polyposis coli like. [refseq;acc:nm_005883] 12074.1 7597.61 1.5892
Subtracted High confidence guanine nucleotide-binding protein beta subunit-like protein 1 (g protein beta-subunit like protein 1) (wd40 repeat containing protein deleted in vcfs) (wdvcf protein) (fksg1 protein) (dgcrk3). [swissprot;acc:q9byb4] 22422 14964 7458
Low confidence camp-regulated phosphoprotein 19 (arpp-19) [contains: camp-regulated phosphoprotein 16 (arpp-16)]. [swissprot;acc:p56211] 13109 18516 5407
1 Divided High confidence microtubule-associated proteins 1a/1b light chain 3b (map1a/map1b lc3 b) (map1a/1b light chain 3 b). [swissprot;acc:q9gzq8] 56.7244 75.3948 1.32914
Low confidence protein cgi-126 (protein hspc155). [swissprot;acc:q9y3c8] 255.046 202.362 1.26035
Subtracted High confidence guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [swissprot;acc:p29798] 266.863 336.19 69.327
Low confidence 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] 286.347 238.454 47.893
16 0 Divided High confidence cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946] 12170.7 20670.6 1.69839
Low confidence beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938] 7395 11625 1.57201
Subtracted High confidence ptd016 protein. [refseq;acc:nm_016125] 18050 11234 6816
Low confidence sorbitol dehydrogenase (ec 1.1.1.14) (l-iditol 2-dehydrogenase). [swissprot;acc:q00796] 7435.56 12191.6 4756.04
1 Divided High confidence microtubule-associated proteins 1a/1b light chain 3a (map1a/map1b lc3 a) (map1a/1b light chain 3 a). [swissprot;acc:q9h492] 56.7252 75.3954 1.32913
Low confidence thyroid receptor interacting protein 8 (trip-8) (fragment). [swissprot;acc:q15652] 305.472 247.246 1.2355
Subtracted High confidence guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-8 subunit (gamma-9). [swissprot;acc:q9uk08] 266.864 336.184 69.32
Low confidence 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] 284.798 237.743 47.055
17 0 Divided High confidence fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402] 11543 6812 1.69451
Low confidence leucine rich repeat (in flii) interacting protein 1. [refseq;acc:nm_004735] 8082.33 5266.67 1.53462
Subtracted High confidence ero1-like. [refseq;acc:nm_014584] 13853 20536 6683
Low confidence fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402] 11543 6812 4731
1 Divided High confidence cysteine endopeptidase aut-like isoform b. [refseq;acc:nm_178326] 56.7841 75.447 1.32866
Low confidence gbp protein isoform a. [refseq;acc:nm_017870] 305.399 247.213 1.23537
Subtracted High confidence guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [swissprot;acc:p30670] 266.864 336.182 69.318
Low confidence bcl2-related ovarian killer. [refseq;acc:nm_032515] 265.638 223.235 42.403
18 0 Divided High confidence homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017] 22286 13216 1.68629
Low confidence early hematopoietic zinc finger. [refseq;acc:nm_015461] 5850.23 8903.28 1.52187
Subtracted High confidence fructose-1,6-bisphosphatase isozyme 2 (ec 3.1.3.11) (d-fructose-1,6- bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:o00757] 7509.39 14178.1 6668.71
Low confidence elongation of very long chain fatty acids protein 2. [swissprot;acc:q9nxb9] 16116.4 11505 4611.4
1 Divided High confidence 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] 185.678 245.247 1.32082
Low confidence jumonji domain containing 1; zinc finger protein; testis-specific protein a. [refseq;acc:nm_018433] 305.303 247.169 1.2352
Subtracted High confidence guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-10 subunit. [swissprot;acc:p50151] 266.865 336.181 69.316
Low confidence protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690] 273.188 232.49 40.698
19 0 Divided High confidence homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630] 22286 13216 1.68629
Low confidence nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] 3208.8 4871.6 1.5182
Subtracted High confidence nif3-like protein 1 (amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 1) (my018 protein) (mds015). [swissprot;acc:q9gzt8] 4475.84 11083.9 6608.06
Low confidence alpha 2 globin. [refseq;acc:nm_000517] 11486.2 15987.1 4500.9
1 Divided High confidence glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216] 185.678 245.247 1.32082
Low confidence trypsin iii precursor (ec 3.4.21.4) (brain trypsinogen) (mesotrypsinogen) (trypsin iv). [swissprot;acc:p35030] 304.548 246.824 1.23387

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/