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 [...,...].
Filtered green description Value Type Interaction Map network_comparison Gene Rank red Network Comparison Type
Results: HTML CSV LaTeX Showing element 1 to 50 of 9634 in total
Filtered  : 0
Value Type  : Ranked
Network Comparison Type  : Divided
green
description
Interaction Map
network_comparison
Rank
red
0.00001 brca1 associated protein. [refseq;acc:nm_006768] High confidence 1 502 0.00001
cobw-like protein. [refseq;acc:nm_018491] Low confidence 839
gamma-glutamyltransferase-like activity 4; gamma-glutamyltranspeptidase-like. [refseq;acc:nm_080920] 838
gamma-glutamyltransferase. [sptrembl;acc:q14390] 841
gamma-glutamyltranspeptidase 1 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 1) (cd224 antigen). [swissprot;acc:p19440] 842
gamma-glutamyltranspeptidase 2 (ec 2.3.2.2) (gamma-glutamyltransferase 2) (fragment). [swissprot;acc:p36268] 837
gamma-glutamyltranspeptidase 5 precursor (ec 2.3.2.2) (gamma- glutamyltransferase 5) (ggt-rel). [swissprot;acc:p36269] 843
homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099] High confidence 501
394 huntingtin interacting protein e; huntingtin interactor protein e. [refseq;acc:nm_007076] 500 394
Low confidence 840
696 small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578] High confidence 1.11351 209 775
754 trinucleotide repeat containing 15. [refseq;acc:nm_015575] 1.02387 433 772
825 cop9 signalosome complex subunit 1 (g protein pathway suppressor 1) (gps1 protein) (mfh protein). [swissprot;acc:q13098] 1.01103 473 816
953 fibrillin 3. [refseq;acc:nm_032447] 1.02473 432 930
1021 ba271b5.1 (similar to ribosomal protein s7). [sptrembl;acc:q9h1s9] 1.06856 307 1091
1294 caspr5 protein isoform 1. [refseq;acc:nm_130773] Low confidence 1.03025 622 1256
contactin associated protein-like 3 precursor (cell recognition molecule caspr3). [swissprot;acc:q9bz76] 623
1373 polyadenylate-binding protein 3 (poly(a)-binding protein 3) (pabp 3) (testis-specific poly(a)-binding protein). [swissprot;acc:q9h361] High confidence 1.09752 243 1251
1521 aspartate beta-hydroxylase isoform b; junctin isoform 1; junctate; aspartyl/asparaginyl-beta-hydroxylase; peptide-aspartate beta-dioxygenase; humbug. [refseq;acc:nm_032468] 1.01446 466 1543
Low confidence 730
1933 anchor attachment protein 1; glycophosphatidylinositol anchor attachment 1; anchor attachment protein 1 (gaa1p, yeast) homolog. [refseq;acc:nm_003801] 1.65028 12 3190
2582 dj570f3.6 (novel protein similar to lysophospholipase ii (lypla2)). [sptrembl;acc:q9uge0] High confidence 1.49458 37 3859
Low confidence 21
2668.83 vps10 domain-containing receptor sorcs1 precursor (hsorcs). [swissprot;acc:q8wy21] 1.00094 832 2671.33
2695 spectrin alpha chain, brain (spectrin, non-erythroid alpha chain) (alpha-ii spectrin) (fodrin alpha chain). [swissprot;acc:q13813] High confidence 1.28905 76 3474
2772 hepatocellularcarcinoma-associated antigen hca557a. [refseq;acc:nm_015433] Low confidence 1.07276 450 2584
2876 protein cgi-140 (protein ptd008) (my006 protein). [swissprot;acc:q9y284] High confidence 1.02191 448 2939
Low confidence 674
3141 erythropoietin 4 immediate early response; uncharacterized hypothalamus protein ht010. [refseq;acc:nm_018471] 1.03595 602 3032
3724 cervical cancer 1 protooncogene protein p40; regulator of tp53. [refseq;acc:nm_015416] 1.00377 811 3710
3778 sirtuin 7; sir2-related protein type 7; sirtuin type 7; sirtuin (silent mating type information regulation 2, s.cerevisiae, homolog) 7; silent mating type information regulation 2, s.cerevisiae, homolog 7; sirtuin silent mating type information regulation 2 homolog 7 (s. cerevisiae). [refseq;acc:nm_016538] High confidence 1.09065 262 3464
4302.5 mesoderm induction early response 1. [refseq;acc:nm_020948] 1.19216 119 3609
4546.87 high mobility group protein 1 (hmg-1). [swissprot;acc:p09429] 1.24876 86 5677.96
4547.43 dj579f20.1 (high-mobility group (nonhistone chromosomal) protein 1-like 1). [sptrembl;acc:q9nqj4] 1.24859 87 5677.89
4547.66 high mobility group protein 1-like 10 (hmg-1l10). [swissprot;acc:q9ugv6] 1.24852 88 5677.86
4549.85 nuclear autoantigen sp-100 (speckled 100 kda) (nuclear dot-associated sp100 protein) (lysp100b). [swissprot;acc:p23497] 1.24786 89 5677.58
4550.87 high mobility group protein 4-like (hmg-4l). [swissprot;acc:q9uj13] 1.24755 90 5677.45
4554.5 ariadne-2 protein homolog (ari-2) (triad1 protein) (ht005). [swissprot;acc:o95376] 1.38688 52 3284
ubiquitin-conjugating enzyme e2-18 kda ubch7 (ec 6.3.2.19) (ubiquitin- protein ligase) (ubiquitin carrier protein) (ubcm4) (e2-f1) (l-ubc). [swissprot;acc:p51966] 53
4817.62 zinc finger protein 75. [swissprot;acc:p51815] Low confidence 1.14085 157 4222.84
4817.95 putative zinc finger protein (fragment). [sptrembl;acc:q8n692] 1.14084 158 4223.15
zinc finger y-chromosomal protein. [swissprot;acc:p08048] 159
4819.15 zinc finger-like protein (fragment). [sptrembl;acc:q9uia8] 1.14082 160 4224.28
4819.7 ttf-i interacting peptide 20 (fragment). [sptrembl;acc:o00455] 1.14081 161 4224.79
4820.46 zinc finger protein 77 (znfpt1) (fragment). [swissprot;acc:q15935] 1.1408 162 4225.51
4830.06 zinc finger protein 32 (zinc finger protein kox30) (fragment). [swissprot;acc:p17041] 1.14063 163 4234.54
4834.52 zinc finger protein 95 homolog (zfp-95). [swissprot;acc:q9y2l8] 1.14056 164 4238.74
4835.4 zinc finger protein 80 (znfpt17). [swissprot;acc:p51504] 1.14054 165 4239.56
4835.88 zinc finger protein 187. [refseq;acc:nm_152736] 1.14053 166 4240.02
zinc finger protein 302 (znf135-like) (znf140-like). [swissprot;acc:q9nr11] 167

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/