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

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.


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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 Gene Value Type red Network Comparison Type Rank green network_comparison Interaction Map description
Results: HTML CSV LaTeX Showing element 1 to 50 of 19268 in total
Filtered  : 0
Value Type  : Ranked
red
Network Comparison Type
Rank
green
network_comparison
Interaction Map
description
0 Subtracted 501 0 0 High confidence homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099]
502 brca1 associated protein. [refseq;acc:nm_006768]
837 Low confidence 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]
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]
0.00001 Divided 501 0.00001 1 High confidence homogentisate 1,2-dioxygenase (ec 1.13.11.5) (homogentisicase) (homogentisate oxygenase) (homogentisic acid oxidase). [swissprot;acc:q93099]
502 brca1 associated protein. [refseq;acc:nm_006768]
837 Low confidence 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]
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]
394 500 394 High confidence huntingtin interacting protein e; huntingtin interactor protein e. [refseq;acc:nm_007076]
840 Low confidence
Subtracted 500 0 High confidence
840 Low confidence
772 Divided 433 754 1.02387 High confidence trinucleotide repeat containing 15. [refseq;acc:nm_015575]
Subtracted 495 18
775 Divided 209 696 1.11351 small nuclear ribonucleoprotein e (snrnp-e) (sm protein e) (sm-e) (sme). [swissprot;acc:p08578]
Subtracted 478 79
816 Divided 473 825 1.01103 cop9 signalosome complex subunit 1 (g protein pathway suppressor 1) (gps1 protein) (mfh protein). [swissprot;acc:q13098]
Subtracted 499 9
930 Divided 432 953 1.02473 fibrillin 3. [refseq;acc:nm_032447]
Subtracted 492 23
1091 Divided 307 1021 1.06856 ba271b5.1 (similar to ribosomal protein s7). [sptrembl;acc:q9h1s9]
Subtracted 483 70
1251 Divided 243 1373 1.09752 polyadenylate-binding protein 3 (poly(a)-binding protein 3) (pabp 3) (testis-specific poly(a)-binding protein). [swissprot;acc:q9h361]
Subtracted 469 122
1256 Divided 622 1294 1.03025 Low confidence caspr5 protein isoform 1. [refseq;acc:nm_130773]
623 contactin associated protein-like 3 precursor (cell recognition molecule caspr3). [swissprot;acc:q9bz76]
Subtracted 810 38 caspr5 protein isoform 1. [refseq;acc:nm_130773]
812 contactin associated protein-like 3 precursor (cell recognition molecule caspr3). [swissprot;acc:q9bz76]
1543 Divided 466 1521 1.01446 High confidence aspartate beta-hydroxylase isoform b; junctin isoform 1; junctate; aspartyl/asparaginyl-beta-hydroxylase; peptide-aspartate beta-dioxygenase; humbug. [refseq;acc:nm_032468]
730 Low confidence
Subtracted 494 22 High confidence
820 Low confidence
2584 Divided 450 2772 1.07276 hepatocellularcarcinoma-associated antigen hca557a. [refseq;acc:nm_015433]
Subtracted 704 188
2671.33 Divided 832 2668.83 1.00094 vps10 domain-containing receptor sorcs1 precursor (hsorcs). [swissprot;acc:q8wy21]
Subtracted 835 2.5
2939 Divided 448 2876 1.02191 High confidence protein cgi-140 (protein ptd008) (my006 protein). [swissprot;acc:q9y284]
674 Low confidence
Subtracted 484 63 High confidence
796 Low confidence
3032 Divided 602 3141 1.03595 erythropoietin 4 immediate early response; uncharacterized hypothalamus protein ht010. [refseq;acc:nm_018471]
Subtracted 757 109

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/