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 [...,...].
Rank Gene description Value Type Network Comparison Type Filtered Interaction Map red network_comparison green
Results: HTML CSV LaTeX Showing element 51 to 100 of 14920 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Rank
description
Value Type
Filtered
red
network_comparison
green
7 homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056] Squared 0 0.00001 187479 1.87479
Rooted 943398 9.43398
sedlin. [swissprot;acc:o14582] Measured 4300000 43
sphingomyelin phosphodiesterase 2 (ec 3.1.4.12) (neutral sphingomyelinase) (nsmase) (n-smase) (lyso-platelet activating factor- phospholipase c) (lyso-paf-plc). [swissprot;acc:o60906] 1 1153.5 3.39764 339.5
Squared 314.926 11.544 27.2805
Rooted 33.9632 1.84327 18.4255
8 db83 protein. [swissprot;acc:p57088] Measured 1153.5 3.39764 339.5
Squared 314.926 11.544 27.2805
Rooted 33.9632 1.84327 18.4255
ero1-like. [refseq;acc:nm_014584] Squared 0 1.59148 159148 0.00001
Rooted 9.05539 905539
hbs1-like. [refseq;acc:nm_006620] Ranked 1 215 1.49767 322
nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7] 0 11525 1.89918 21888
synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296] Measured 0.00001 4300000 43
9 ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5] 85 75.4118 6410
similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517] Squared 0.852071 85207.1 0.00001
Rooted 7.74597 774597
tob2 protein (transducer of erbb-2 2). [swissprot;acc:q14106] Measured 1 398.5 3.21581 1281.5
Squared 37.5863 10.3414 388.696
Rooted 19.9625 1.79326 35.798
transducin beta-like 1y protein (transducin-beta-like 1, y-linked). [swissprot;acc:q9bq87] Ranked 0 11525 1.89918 21888
xpa binding protein 1; mbd2 interactor protein; putative atp(gtp)-binding protein. [refseq;acc:nm_007266] 1 212 1.45755 309
10 fructose-1,6-bisphosphatase isozyme 2 (ec 3.1.3.11) (d-fructose-1,6- bisphosphate 1-phosphohydrolase) (fbpase). [swissprot;acc:o00757] 0 7509.39 1.88805 14178.1
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] Squared 0.00001 82390.5 0.823905
Rooted 768115 7.68115
lipopolysaccharide-responsive and beige-like anchor protein (cdc4-like protein) (beige-like protein). [swissprot;acc:p50851] Measured 85 75.4118 6410
protein x 0004. [refseq;acc:nm_016301] Ranked 1 212 1.45755 309
tob1 protein (transducer of erbb-2 1). [swissprot;acc:p50616] Measured 398.5 3.21581 1281.5
Squared 37.5863 10.3414 388.696
Rooted 19.9625 1.79326 35.798
11 dab2 interacting protein; ngap-like protein; doc-2/dab2 interactive protein. [refseq;acc:nm_032552] Measured 398.5 3.21581 1281.5
Squared 37.5863 10.3414 388.696
Rooted 19.9625 1.79326 35.798
potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110] Ranked 0 11627 1.86092 6248
rad50-interacting protein 1. [refseq;acc:nm_021930] 1 337 1.45259 232
sedlin. [swissprot;acc:o14582] Squared 0 0.00001 43763.3 0.437633
Rooted 655744 6.55744
serpin b12. [swissprot;acc:q96p63] Measured 199.549 35.8425 5.56738
12 cytoplasmic polyadenylation element binding protein 4. [refseq;acc:nm_030627] 1 398.5 3.21581 1281.5
Squared 37.5863 10.3414 388.696
Rooted 19.9625 1.79326 35.798
folylpolyglutamate synthase, mitochondrial precursor (ec 6.3.2.17) (folylpoly-gamma-glutamate synthetase) (fpgs). [swissprot;acc:q05932] Ranked 0 9429.18 1.81023 5208.84
hurpin (hacat uv-repressible serpin) (protease inhibitor 13) (headpin) (serpin b13). [swissprot;acc:q9uiv8] Measured 199.249 34.8539 5.71669
rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6] Ranked 1 337 1.45259 232
synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296] Squared 0 0.00001 43763.3 0.437633
Rooted 655744 6.55744
13 adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61] Measured 1363 29 47
cytoplasmic polyadenylation element binding protein 3. [refseq;acc:nm_014912] 1 398.5 3.21581 1281.5
Squared 37.5863 10.3414 388.696
Rooted 19.9625 1.79326 35.798

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/