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.


Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].
Gene Rank Value Type Filtered description Network Comparison Type green Interaction Map red network_comparison
Results: HTML CSV LaTeX Showing element 501 to 550 of 29840 in total
Interaction Map  : High confidence
Rank
Value Type
Filtered
description
Network Comparison Type
green
red
network_comparison
32 Ranked 0 importin 9. [refseq;acc:nm_018085] Divided 8691.76 13292.2 1.52929
syntaxin 10 (syn10). [swissprot;acc:o60499] Subtracted 19014.6 13884.4 5130.2
1 guanine nucleotide-binding protein g(i), alpha-2 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04899] 336.074 267.142 68.932
serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, gamma isoform (pp2a, subunit b, b-gamma isoform) (pp2a, subunit b, b55-gamma isoform) (pp2a, subunit b, pr55-gamma isoform) (pp2a, subunit b, r2-gamma isoform) (imypno1). [swissprot;acc:q9y2t4] Divided 243.673 187.462 1.29985
Squared 0 phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086] 4.57302 76.8994 16.8159
sh3-containing grb2-like protein 1 (sh3 domain protein 2b) (extra eleven-nineteen leukemia fusion gene) (een) (een fusion partner of mll). [swissprot;acc:q99961] Subtracted 27221.2 19892.6 7328.6
1 beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407] Divided 25146.6 9924.76 2.53372
pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04] Subtracted 192141 106226 85915
Rooted 0 homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056] 9.43398 0 9.43398
ubiquitin protein ligase. [refseq;acc:nm_130466] Divided 11.258 24.0391 2.13529
1 ficolin 2 precursor (collagen/fibrinogen domain-containing protein 2) (ficolin-b) (ficolin b) (serum lectin p35) (ebp-37) (hucolin) (l- ficolin). [swissprot;acc:q15485] 43.1914 26.0288 1.65937
gbp protein isoform a. [refseq;acc:nm_017870] Subtracted 42.4773 23.9771 18.5002
33 Measured 0 lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [refseq;acc:nm_003893] Divided 39.8063 12.6208 3.15402
protein cgi-147. [swissprot;acc:q9y3e5] Subtracted 9192.38 8396.12 796.26
1 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152] Divided 896.972 1835.3 2.04611
melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362] Subtracted 18263 23693.7 5430.7
Ranked 0 nucleosome assembly protein 1-like 4 (nucleosome assembly protein 2) (nap2). [swissprot;acc:q99733] Divided 8691.76 13292.2 1.52929
similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517] Subtracted 20387 15264 5123
1 guanine nucleotide-binding protein g(i), alpha-1 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04898] 336.073 267.144 68.929
serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, beta isoform (pp2a, subunit a, pr65-beta isoform) (pp2a, subunit a, r1-beta isoform). [swissprot;acc:p30154] Divided 242.742 188.688 1.28647
Squared 0 ba271b5.1 (similar to ribosomal protein s7). [sptrembl;acc:q9h1s9] Subtracted 36822.7 29812 7010.7
beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938] Divided 4.57302 76.8994 16.8159
1 pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23] Subtracted 192141 106226 85915
spermatogenesis associated 6. [refseq;acc:nm_019073] Divided 25146.6 9924.76 2.53372
Rooted 0 fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402] 25.7294 12.3693 2.0801
nucleoporin nup43 (p42). [swissprot;acc:q8nfh3] Subtracted 70.9983 61.6393 9.359
1 protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690] 43.561 25.6987 17.8623
protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949] Divided 43.1914 26.0288 1.65937
34 Measured 0 acrc protein; putative nuclear protein. [refseq;acc:nm_052957] Subtracted 3340.03 4131.06 791.03
glucosamine-6-phosphate isomerase (ec 3.5.99.6) (glucosamine-6- phosphate deaminase) (gnpda) (glcn6p deaminase) (oscillin). [swissprot;acc:p46926] Divided 47 143 3.04255
1 guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992] 907.546 1836.71 2.02382
melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361] Subtracted 18263 23693.7 5430.7
Ranked 0 fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402] 6812 11543 4731
microtubule-associated protein, rp/eb family, member 2; t-cell activation protein, eb1 family; apc-binding protein eb1. [refseq;acc:nm_014268] Divided 17173.8 11284 1.52196
1 guanine nucleotide-binding protein g(k), alpha subunit (g(i) alpha-3). [swissprot;acc:p08754] Subtracted 336.073 267.144 68.929
serine/threonine protein phosphatase 2a, 65 kda regulatory subunit a, alpha isoform (pp2a, subunit a, pr65-alpha isoform) (pp2a, subunit a, r1-alpha isoform) (medium tumor antigen-associated 61 kda protein). [swissprot;acc:p30153] Divided 242.453 189.07 1.28235
Squared 0 coatomer beta' subunit (beta'-coat protein) (beta'-cop) (p102). [swissprot;acc:p35606] Subtracted 72701 79383.4 6682.4
lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [refseq;acc:nm_003893] Divided 0.697197 0.0435834 15.9968
1 amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433] 25146.6 9924.76 2.53372
pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999] Subtracted 192141 106226 85915
Rooted 0 phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086] Divided 11.7898 23.8747 2.02503
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] Subtracted 12.49 3.16228 9.32772
1 gaba-a receptor-associated protein. [sptrembl;acc:q9by60] 122.878 140.508 17.63
guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992] Divided 24.3678 40.2812 1.65305
35 Measured 0 adp,atp carrier protein, liver isoform t2 (adp/atp translocase 3) (adenine nucleotide translocator 3) (ant 3). [swissprot;acc:p12236] 1377 459.5 2.99674
filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333] Subtracted 898 1603 705
1 guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148] Divided 907.564 1836.71 2.02378
melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732] Subtracted 18263 23693.7 5430.7
Ranked 0 importin 9. [refseq;acc:nm_018085] 8691.76 13292.2 4600.44
nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] Divided 4871.6 3208.8 1.5182

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/