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 [...,...].
Value Type Gene Filtered Rank Network Comparison Type red Interaction Map green network_comparison description
Results: HTML CSV LaTeX Showing element 1 to 50 of 19268 in total
Value Type  : Ranked
Filtered  : 0
Rank
Network Comparison Type
red
Interaction Map
green
network_comparison
description
1 Divided 4294 High confidence 15915 3.70633 adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]
5865 Low confidence 14977 2.55362 mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]
Subtracted 8906 High confidence 21883 12977 mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]
Low confidence
2 Divided 5865 High confidence 14977 2.55362 mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]
8906 Low confidence 21883 2.45711 mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]
Subtracted 4294 High confidence 15915 11621 adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]
9607 Low confidence 20617 11010 neurogenic locus notch homolog protein 1 precursor (notch 1) (hn1) (translocation-associated notch protein tan-1). [swissprot;acc:p46531]
3 Divided 4475.84 High confidence 11083.9 2.47638 nif3-like protein 1 (amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 1) (my018 protein) (mds015). [swissprot;acc:q9gzt8]
9607 Low confidence 20617 2.14604 neurogenic locus notch homolog protein 1 precursor (notch 1) (hn1) (translocation-associated notch protein tan-1). [swissprot;acc:p46531]
Subtracted 11010 neurogenic locus notch homolog protein 2 precursor (notch 2) (hn2). [swissprot;acc:q04721]
21866 High confidence 10950 10916 cab2. [refseq;acc:nm_033419]
4 Divided 8906 21883 2.45711 mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]
9607 Low confidence 20617 2.14604 neurogenic locus notch homolog protein 2 precursor (notch 2) (hn2). [swissprot;acc:q04721]
Subtracted 5865 14977 9112 mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]
11525 High confidence 21888 10363 nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]
5 Divided 5510.5 11965.7 2.17144 ubiquitin-like protein smt3b (sentrin 2) (hsmt3). [swissprot;acc:p55855]
10889.4 Low confidence 19873 1.82499 ubiquitously transcribed y chromosome tetratricopeptide repeat protein (ubiquitously transcribed tpr protein on the y chromosome). [swissprot;acc:o14607]
Subtracted 11525 High confidence 21888 10363 transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]
22286 Low confidence 13216 9070 homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]
6 Divided 5575.71 9583.37 1.71877 trinucleotide repeat containing 15. [refseq;acc:nm_015575]
7523 High confidence 15339.2 2.03897 ubiquitin protein ligase. [refseq;acc:nm_130466]
Subtracted 5865 14977 9112 mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]
22286 Low confidence 13216 9070 homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]
7 Divided 11543 6812 1.69451 fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402]
21866 High confidence 10950 1.99689 cab2. [refseq;acc:nm_033419]
Subtracted 22286 13216 9070 homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]
Low confidence homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]
8 Divided 11525 High confidence 21888 1.89918 nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]
22286 Low confidence 13216 1.68629 homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]
Subtracted 10889.4 19873 8983.6 ubiquitously transcribed y chromosome tetratricopeptide repeat protein (ubiquitously transcribed tpr protein on the y chromosome). [swissprot;acc:o14607]
22286 High confidence 13216 9070 homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]
9 Divided 11525 21888 1.89918 transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87]
22286 Low confidence 13216 1.68629 homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]
Subtracted High confidence 9070 homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]
22422 Low confidence 14964 7458 guanine nucleotide-binding protein beta subunit-like protein 1 (g protein beta-subunit like protein 1) (wd40 repeat containing protein deleted in vcfs) (wdvcf protein) (fksg1 protein) (dgcrk3). [swissprot;acc:q9byb4]
10 Divided 7509.39 High confidence 14178.1 1.88805 fructose-1,6-bisphosphatase isozyme 2 (ec 3.1.3.11) (d-fructose-1,6- bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:o00757]
22286 Low confidence 13216 1.68629 homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056]
Subtracted 18050 11234 6816 ptd016 protein. [refseq;acc:nm_016125]
20989 High confidence 12479 8510 pyridoxine 5'-phosphate oxidase. [refseq;acc:nm_018129]
11 Divided 11627 6248 1.86092 potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110]
13730.5 Low confidence 8257 1.66289 ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]
Subtracted 12170.7 High confidence 20670.6 8499.9 cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946]
14604.2 Low confidence 21138.6 6534.4 serpin b12. [swissprot;acc:q96p63]
12 Divided 3190 1933 1.65028 anchor attachment protein 1; glycophosphatidylinositol anchor attachment 1; anchor attachment protein 1 (gaa1p, yeast) homolog. [refseq;acc:nm_003801]
9429.18 High confidence 5208.84 1.81023 folylpolyglutamate synthase, mitochondrial precursor (ec 6.3.2.17) (folylpoly-gamma-glutamate synthetase) (fpgs). [swissprot;acc:q05932]
Subtracted 14592 Low confidence 21113.7 6521.7 hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8]
19403 High confidence 11267 8136 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]
13 Divided 5210.5 9264.5 1.77804 heat shock 70 kda protein 1 (hsp70.1) (hsp70-1/hsp70-2). [swissprot;acc:p08107]
7435.56 Low confidence 12191.6 1.63963 sorbitol dehydrogenase (ec 1.1.1.14) (l-iditol 2-dehydrogenase). [swissprot;acc:q00796]

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/