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 [...,...].
Rank Gene Network Comparison Type Value Type description Interaction Map green network_comparison Filtered red
Results: HTML CSV LaTeX Showing element 501 to 550 of 29840 in total
Interaction Map  : High confidence
Rank
Network Comparison Type
Value Type
description
green
network_comparison
Filtered
red
32 Divided Squared beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407] 25146.6 2.53372 1 9924.76
phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086] 4.57302 16.8159 0 76.8994
Rooted 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 1.65937 1 26.0288
ubiquitin protein ligase. [refseq;acc:nm_130466] 11.258 2.13529 0 24.0391
Subtracted Measured melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358] 18263 5430.7 1 23693.7
mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849] 58 801 0 859
Ranked guanine nucleotide-binding protein g(i), alpha-2 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04899] 336.074 68.932 1 267.142
syntaxin 10 (syn10). [swissprot;acc:o60499] 19014.6 5130.2 0 13884.4
Squared pantothenate kinase 1 (ec 2.7.1.33) (pantothenic acid kinase 1) (hpank1) (hpank). [swissprot;acc:q8te04] 192141 85915 1 106226
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] 27221.2 7328.6 0 19892.6
Rooted gbp protein isoform a. [refseq;acc:nm_017870] 42.4773 18.5002 1 23.9771
homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056] 9.43398 9.43398 0 0
33 Divided Measured guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152] 896.972 2.04611 1 1835.3
lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [refseq;acc:nm_003893] 39.8063 3.15402 0 12.6208
Ranked nucleosome assembly protein 1-like 4 (nucleosome assembly protein 2) (nap2). [swissprot;acc:q99733] 8691.76 1.52929 13292.2
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] 242.742 1.28647 1 188.688
Squared beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938] 4.57302 16.8159 0 76.8994
spermatogenesis associated 6. [refseq;acc:nm_019073] 25146.6 2.53372 1 9924.76
Rooted 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 2.0801 0 12.3693
protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949] 43.1914 1.65937 1 26.0288
Subtracted Measured melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362] 18263 5430.7 23693.7
protein cgi-147. [swissprot;acc:q9y3e5] 9192.38 796.26 0 8396.12
Ranked guanine nucleotide-binding protein g(i), alpha-1 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04898] 336.073 68.929 1 267.144
similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517] 20387 5123 0 15264
Squared ba271b5.1 (similar to ribosomal protein s7). [sptrembl;acc:q9h1s9] 36822.7 7010.7 29812
pantothenate kinase 2, mitochondrial precursor (ec 2.7.1.33) (pantothenic acid kinase 2) (hpank2). [swissprot;acc:q9bz23] 192141 85915 1 106226
Rooted nucleoporin nup43 (p42). [swissprot;acc:q8nfh3] 70.9983 9.359 0 61.6393
protein kinase, interferon-inducible double stranded rna dependent activator; protein activator of the interferon-induced protein kinase. [refseq;acc:nm_003690] 43.561 17.8623 1 25.6987
34 Divided Measured glucosamine-6-phosphate isomerase (ec 3.5.99.6) (glucosamine-6- phosphate deaminase) (gnpda) (glcn6p deaminase) (oscillin). [swissprot;acc:p46926] 47 3.04255 0 143
guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992] 907.546 2.02382 1 1836.71
Ranked microtubule-associated protein, rp/eb family, member 2; t-cell activation protein, eb1 family; apc-binding protein eb1. [refseq;acc:nm_014268] 17173.8 1.52196 0 11284
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] 242.453 1.28235 1 189.07
Squared amp deaminase 2 (ec 3.5.4.6) (amp deaminase isoform l). [swissprot;acc:q01433] 25146.6 2.53372 9924.76
lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [refseq;acc:nm_003893] 0.697197 15.9968 0 0.0435834
Rooted guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992] 24.3678 1.65305 1 40.2812
phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086] 11.7898 2.02503 0 23.8747
Subtracted Measured acrc protein; putative nuclear protein. [refseq;acc:nm_052957] 3340.03 791.03 4131.06
melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361] 18263 5430.7 1 23693.7
Ranked 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 4731 0 11543
guanine nucleotide-binding protein g(k), alpha subunit (g(i) alpha-3). [swissprot;acc:p08754] 336.073 68.929 1 267.144
Squared coatomer beta' subunit (beta'-coat protein) (beta'-cop) (p102). [swissprot;acc:p35606] 72701 6682.4 0 79383.4
pantothenate kinase 3 (ec 2.7.1.33) (pantothenic acid kinase 3) (hpank3). [swissprot;acc:q9h999] 192141 85915 1 106226
Rooted gaba-a receptor-associated protein. [sptrembl;acc:q9by60] 122.878 17.63 140.508
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] 12.49 9.32772 0 3.16228
35 Divided Measured adp,atp carrier protein, liver isoform t2 (adp/atp translocase 3) (adenine nucleotide translocator 3) (ant 3). [swissprot;acc:p12236] 1377 2.99674 459.5
guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148] 907.564 2.02378 1 1836.71
Ranked nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] 4871.6 1.5182 0 3208.8
nuclear transcription factor y subunit gamma (nf-y protein chain c) (nuclear factor yc) (nf-yc) (ccaat-binding transcription factor subunit c) (cbf-c) (transactivator hsm-1/2). [swissprot;acc:q13952] 204.309 1.27519 1 260.532
Squared 28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5] 192141 1.80879 106226
adp,atp carrier protein, liver isoform t2 (adp/atp translocase 3) (adenine nucleotide translocator 3) (ant 3). [swissprot;acc:p12236] 647.816 12.7767 0 50.7031

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/