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 Network Comparison Type green Gene red Interaction Map Rank network_comparison description
Results: HTML CSV LaTeX Showing element 1 to 50 of 77072 in total
Filtered  : 0
Value Type  : Measured
Network Comparison Type  : Divided
green
red
Interaction Map
Rank
network_comparison
description
0.00001 0.00001 High confidence 494 1 histone h2a.c/d/i/n/p (h2a.1) (h2a/c) (h2a/d) (h2a/i) (h2a/n) (h2a/p) (h2a.1b). [swissprot;acc:p02261]
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]
Low confidence 837 gamma-glutamyltranspeptidase 2 (ec 2.3.2.2) (gamma-glutamyltransferase 2) (fragment). [swissprot;acc:p36268]
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]
2.31962 7 231962 tbc1 domain family, member 8 (with gram domain); vascular rab-gap/tbc-containing. [refseq;acc:nm_007063]
13 6 1300000 homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099]
18 High confidence 65 1800000 rna helicase-related protein; rna helicase-like protein; sf3b125 dead-box protein. [refseq;acc:nm_007372]
35 31 3500000 dok-like protein. [refseq;acc:nm_024872]
37 Low confidence 22 3700000 carbohydrate (n-acetylglucosamine 6-o) sulfotransferase 6; macular dystrophy, corneal, 1; carbohydate sulfotransferase 6; corneal n-acetylglucosamine 6-sulfotransferase. [refseq;acc:nm_021615]
23 carbohydrate (n-acetylglucosamine-6-o) sulfotransferase 2; carbohydrate (chondroitin 6/keratan) sulfotransferase 2. [refseq;acc:nm_004267]
60 High confidence 22 6000000 similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517]
82 20 8200000 ero1-like. [refseq;acc:nm_014584]
154 95 15400000 nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]
96 transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]
286 Low confidence 44 28600000 neurogenic locus notch homolog protein 1 precursor (notch 1) (hn1) (translocation-associated notch protein tan-1). [swissprot;acc:p46531]
45 neurogenic locus notch homolog protein 2 precursor (notch 2) (hn2). [swissprot;acc:q04721]
364 High confidence 1 36400000 mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]
Low confidence
5.56738 199.549 High confidence 11 35.8425 serpin b12. [swissprot;acc:q96p63]
Low confidence 10
5.71669 199.249 High confidence 12 34.8539 hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8]
Low confidence 11
6.50325 130.512 High confidence 14 20.0687 cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946]
10.6048 383.762 Low confidence 9 36.1876 ubiquitously transcribed y chromosome tetratricopeptide repeat protein (ubiquitously transcribed tpr protein on the y chromosome). [swissprot;acc:o14607]
11.5 14 High confidence 190 1.21739 protocadherin 16 precursor (cadherin 19) (cadherin fibroblast 1). [swissprot;acc:q96jq0]
Low confidence 176
14.3333 19.6667 High confidence 121 1.3721 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]
15 1 16 15 protein transport protein sec24c (sec24-related protein c). [swissprot;acc:p53992]
17.5166 0.00001 Low confidence 5 1751660 jumonji protein. [swissprot;acc:q92833]
17.6611 118.878 High confidence 21 6.73106 syntaxin 10 (syn10). [swissprot;acc:o60499]
18 0.00001 64 1800000 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]
19 23 195 1.21053 adp-ribosylation factor-like protein 7 (adp-ribosylation factor-like protein lak). [swissprot;acc:p56559]
Low confidence 184
99 18 5.21053 camp-regulated phosphoprotein 19 (arpp-19) [contains: camp-regulated phosphoprotein 16 (arpp-16)]. [swissprot;acc:p56211]
21 44 High confidence 50 2.09524 transcription factor 4 (immunoglobulin transcription factor 2) (itf-2) (sl3-3 enhancer factor 2) (sef-2). [swissprot;acc:p15884]
23.6984 48.2534 Low confidence 64 2.03615 dna helicase homolog (fragment). [sptrembl;acc:q9y645]
26.1599 305.45 High confidence 18 11.6763 60s ribosomal protein l37a. [swissprot;acc:p12751]
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/