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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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 [...,...].
Filtered Value Type green Gene Rank description network_comparison Network Comparison Type Interaction Map red
Results: HTML CSV LaTeX Showing element 1 to 50 of 38536 in total
Filtered  : 0
Value Type  : Measured
Network Comparison Type  : Divided
green
Rank
description
network_comparison
Interaction Map
red
0.00001 1 mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3] 36400000 High confidence 364
Low confidence
6 homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099] 1300000 13
7 tbc1 domain family, member 8 (with gram domain); vascular rab-gap/tbc-containing. [refseq;acc:nm_007063] 231962 2.31962
20 ero1-like. [refseq;acc:nm_014584] 8200000 High confidence 82
22 carbohydrate (n-acetylglucosamine 6-o) sulfotransferase 6; macular dystrophy, corneal, 1; carbohydate sulfotransferase 6; corneal n-acetylglucosamine 6-sulfotransferase. [refseq;acc:nm_021615] 3700000 Low confidence 37
similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517] 6000000 High confidence 60
23 carbohydrate (n-acetylglucosamine-6-o) sulfotransferase 2; carbohydrate (chondroitin 6/keratan) sulfotransferase 2. [refseq;acc:nm_004267] 3700000 Low confidence 37
31 dok-like protein. [refseq;acc:nm_024872] 3500000 High confidence 35
44 neurogenic locus notch homolog protein 1 precursor (notch 1) (hn1) (translocation-associated notch protein tan-1). [swissprot;acc:p46531] 28600000 Low confidence 286
45 neurogenic locus notch homolog protein 2 precursor (notch 2) (hn2). [swissprot;acc:q04721]
65 rna helicase-related protein; rna helicase-like protein; sf3b125 dead-box protein. [refseq;acc:nm_007372] 1800000 High confidence 18
95 nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7] 15400000 154
96 transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]
494 histone h2a.c/d/i/n/p (h2a.1) (h2a/c) (h2a/d) (h2a/i) (h2a/n) (h2a/p) (h2a.1b). [swissprot;acc:p02261] 1 0.00001
495 histone h2a.a (h2a/a) (h2a.2). [swissprot;acc:p28001]
496 mitochondrial 28s ribosomal protein s6 (mrp-s6). [swissprot;acc:p82932]
497 histone h2a; h2a histone family, member r. [refseq;acc:nm_170745]
498 translin-associated protein x (translin-associated factor x). [swissprot;acc:q99598]
499 homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099]
500 rwd domain containing 1; ptd013 protein; cgi-24 protein. [refseq;acc:nm_015952]
501 h2a histone family, member j isoform 1. [refseq;acc:nm_018267]
502 brca1 associated protein. [refseq;acc:nm_006768]
837 gamma-glutamyltranspeptidase 2 (ec 2.3.2.2) (gamma-glutamyltransferase 2) (fragment). [swissprot;acc:p36268] Low confidence
838 gamma-glutamyltransferase-like activity 4; gamma-glutamyltranspeptidase-like. [refseq;acc:nm_080920]
839 cobw-like protein. [refseq;acc:nm_018491]
840 translin-associated protein x (translin-associated factor x). [swissprot;acc:q99598]
841 gamma-glutamyltransferase. [sptrembl;acc:q14390]
842 gamma-glutamyltranspeptidase 1 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 1) (cd224 antigen). [swissprot;acc:p19440]
843 gamma-glutamyltranspeptidase 5 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 5) (ggt-rel). [swissprot;acc:p36269]
5.56738 10 serpin b12. [swissprot;acc:q96p63] 35.8425 199.549
11 High confidence
5.71669 hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8] 34.8539 Low confidence 199.249
12 High confidence
6.50325 14 cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946] 20.0687 130.512
10.6048 9 ubiquitously transcribed y chromosome tetratricopeptide repeat protein (ubiquitously transcribed tpr protein on the y chromosome). [swissprot;acc:o14607] 36.1876 Low confidence 383.762
11.5 176 protocadherin 16 precursor (cadherin 19) (cadherin fibroblast 1). [swissprot;acc:q96jq0] 1.21739 14
190 High confidence
14.3333 121 4-aminobutyrate aminotransferase, mitochondrial precursor (ec 2.6.1.19) (gamma-amino-n-butyrate transaminase) (gaba transaminase) (gaba aminotransferase) (gaba-at) (gaba-t). [swissprot;acc:p80404] 1.3721 19.6667
15 16 protein transport protein sec24c (sec24-related protein c). [swissprot;acc:p53992] 15 1
17.5166 5 jumonji protein. [swissprot;acc:q92833] 1751660 Low confidence 0.00001
17.6611 21 syntaxin 10 (syn10). [swissprot;acc:o60499] 6.73106 High confidence 118.878
18 64 phosphatidylinositol-4-phosphate 3-kinase c2 domain-containing beta polypeptide (ec 2.7.1.154) (phosphoinositide 3-kinase-c2-beta) (ptdins-3-kinase c2 beta) (pi3k-c2beta) (c2-pi3k). [swissprot;acc:o00750] 1800000 0.00001
19 18 camp-regulated phosphoprotein 19 (arpp-19) [contains: camp-regulated phosphoprotein 16 (arpp-16)]. [swissprot;acc:p56211] 5.21053 Low confidence 99
184 adp-ribosylation factor-like protein 7 (adp-ribosylation factor-like protein lak). [swissprot;acc:p56559] 1.21053 23
195 High confidence
21 50 transcription factor 4 (immunoglobulin transcription factor 2) (itf-2) (sl3-3 enhancer factor 2) (sef-2). [swissprot;acc:p15884] 2.09524 44
23.6984 64 dna helicase homolog (fragment). [sptrembl;acc:q9y645] 2.03615 Low confidence 48.2534
26.1599 18 60s ribosomal protein l37a. [swissprot;acc:p12751] 11.6763 High confidence 305.45
19 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]

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/