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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Rank Gene Value Type description Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 1725 to 1774 of 12912 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
Rank
Value Type
description
red
green
network_comparison
432 Measured mitochondrial processing peptidase beta subunit, mitochondrial precursor (ec 3.4.24.64) (beta-mpp) (p-52). [swissprot;acc:o75439] 5244.71 6036.27 1.15093
Ranked endonuclease g, mitochondrial precursor (ec 3.1.30.-) (endo g). [swissprot;acc:q14249] 212.547 229.411 1.07934
Squared calcium-dependent protease, small subunit (calpain regulatory subunit) (calcium-activated neutral proteinase) (canp). [swissprot;acc:p04632] 29095.3 35337.6 1.21455
Rooted leucine-rich repeat protein lrrc3 precursor. [swissprot;acc:q9by71] 54.4927 49.6125 1.09837
433 Measured mitochondrial processing peptidase alpha subunit, mitochondrial precursor (ec 3.4.24.64) (alpha-mpp) (p-55) (ha1523). [swissprot;acc:q10713] 5244.88 6036.38 1.15091
Ranked programmed cell death protein 8, mitochondrial precursor (ec 1.-.-.-) (apoptosis-inducing factor). [swissprot;acc:o95831] 212.547 229.411 1.07934
Squared grancalcin. [swissprot;acc:p28676] 29095.7 35338.3 1.21455
Rooted laminin gamma-1 chain precursor (laminin b2 chain). [swissprot;acc:p11047] 54.4927 49.6125 1.09837
434 Measured ubiquinol-cytochrome c reductase complex core protein i, mitochondrial precursor (ec 1.10.2.2). [swissprot;acc:p31930] 5246.38 6037.37 1.15077
Ranked t-box transcription factor tbx6 (t-box protein 6). [swissprot;acc:o95947] 212.547 229.411 1.07934
Squared splicing factor 3b subunit 1 (spliceosome associated protein 155) (sap 155) (sf3b155) (pre-mrna splicing factor sf3b 155 kda subunit). [swissprot;acc:o75533] 18306.1 22230.6 1.21438
Rooted thymic stromal co-transporter. [refseq;acc:nm_033051] 54.4927 49.6125 1.09837
435 Measured proline synthetase co-transcribed bacterial homolog protein. [swissprot;acc:o94903] 5233.86 6022.6 1.1507
Ranked polymerase (dna directed) iota; rad30 (s. cerevisiae) homolog b; polymerase (dna-directed), iota. [refseq;acc:nm_007195] 221.522 205.286 1.07909
Squared cytochrome b5 reductase b5r.2. [refseq;acc:nm_016229] 26598.9 32283.5 1.21372
Rooted 60s ribosomal protein l19. [swissprot;acc:p14118] 50.832 46.3081 1.09769
436 Measured arg/abl-interacting protein 2 isoform 2; arg binding protein 2. [refseq;acc:nm_021069] 6230.94 7168.2 1.15042
Ranked paxillin. [swissprot;acc:p49023] 221.522 205.286 1.07909
Squared cytochrome b5 reductase 1 (b5r.1). [refseq;acc:nm_016243] 26598.9 32283.5 1.21372
Rooted putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172] 210.928 192.165 1.09764
437 Measured suppressor of swi4 1 homolog (ssf-1) (peter pan homolog). [swissprot;acc:q9nq55] 3779.92 4348.48 1.15042
Ranked cdc42-interacting protein 4 (thyroid receptor interacting protein 10) (trip-10). [swissprot;acc:q15642] 209.921 226.459 1.07878
Squared nadh-cytochrome b5 reductase (ec 1.6.2.2) (b5r). [swissprot;acc:p00387] 26598.9 32283.5 1.21372
Rooted zinc finger protein t86. [swissprot;acc:o00488] 51.0466 56.024 1.09751
438 Measured swi/snf-related, matrix-associated, actin-dependent regulator of chromatin subfamily f member 1 (swi-snf complex protein p270) (b120). [swissprot;acc:o14497] 6252.58 7192.88 1.15039
Ranked n-terminal acetyltransferase complex ard1 subunit homolog (ec 2.3.1.-). [swissprot;acc:p41227] 233.723 216.674 1.07869
Squared arg/abl-interacting protein 2 isoform 2; arg binding protein 2. [refseq;acc:nm_021069] 28863.2 35031.5 1.21371
Rooted bag-family molecular chaperone regulator-3 (bcl-2 binding athanogene- 3) (bag-3) (bcl-2-binding protein bis) (docking protein cair-1). [swissprot;acc:o95817] 55.1867 60.5522 1.09722
439 Measured programmed cell death protein 6 (probable calcium-binding protein alg- 2). [swissprot;acc:o75340] 6252.58 7192.88 1.15039
Ranked 40s ribosomal protein s9. [swissprot;acc:p46781] 238.986 257.784 1.07866
Squared cell division cycle protein 23; anaphase-promoting complex subunit 8. [refseq;acc:nm_004661] 51616.7 42588.9 1.21198
Rooted dok-like protein. [refseq;acc:nm_024872] 63.2134 69.352 1.09711
440 Measured calcium-dependent protease, small subunit (calpain regulatory subunit) (calcium-activated neutral proteinase) (canp). [swissprot;acc:p04632] 6251.91 7192.08 1.15038
Ranked highly expressed in cancer, rich in leucine heptad repeats. [refseq;acc:nm_006101] 231.802 249.983 1.07843
Squared dna topoisomerase ii, alpha isozyme (ec 5.99.1.3). [swissprot;acc:p11388] 26348.4 31925.8 1.21168
Rooted docking protein 2 (p56(dok-2)) (downstream of tyrosine kinase 2). [swissprot;acc:o60496] 63.2134 69.352 1.09711
441 Measured grancalcin. [swissprot;acc:p28676] 6251.96 7192.13 1.15038
Ranked grb2-related adaptor protein. [swissprot;acc:q13588] 223.457 207.222 1.07835
Squared dna topoisomerase ii, beta isozyme (ec 5.99.1.3). [swissprot;acc:q02880] 26348.7 31924.3 1.21161
Rooted docking protein 1 (p62(dok)) (downstream of tyrosine kinase 1) (pp62). [swissprot;acc:q99704] 63.2134 69.352 1.09711
442 Measured sorcin (22 kda protein) (cp-22) (v19). [swissprot;acc:p30626] 6251.99 7192.17 1.15038
Ranked e2a-pbx1-associated protein; putative 47 kda protein. [refseq;acc:nm_020140] 223.802 207.55 1.0783
Squared centromere protein j; centrosomal p4.1-associated protein; lyst-interacting protein lip1; lag-3-associated protein. [refseq;acc:nm_018451] 51286.6 42334.5 1.21146
Rooted tyrosine-protein kinase frk (ec 2.7.1.112) (nuclear tyrosine protein kinase rak). [swissprot;acc:p42685] 63.2134 69.352 1.09711
443 Measured brg1-binding protein eld/osa1; eld (eyelid)/osa protein. [refseq;acc:nm_020732] 6252.27 7192.51 1.15038
Ranked neuron navigator 2 isoform l; retinoic acid inducible in neuroblastoma; pore membrane and/or filament interacting like protein 2; helicase helad1. [refseq;acc:nm_145117] 223.79 207.539 1.0783
Squared translation initiation factor if-2, mitochondrial precursor (if-2mt) (if-2(mt)). [swissprot;acc:p46199] 26472.8 32067.7 1.21135
Rooted 60s ribosomal protein l10a (csa-19). [swissprot;acc:p53025] 50.1766 45.7369 1.09707
444 Measured probable rrna processing protein ebp2 (ebna1 binding protein 2) (nucleolar protein p40). [swissprot;acc:q99848] 3758.67 4322.87 1.15011
Ranked neuron navigator 1; neuron navigator-1; pore membrane and/or filament interacting like protein 3. [refseq;acc:nm_020443] 223.801 207.549 1.0783

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/