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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Filtered Rank description Value Type Interaction Map Gene Network Comparison Type red green network_comparison
Results: HTML CSV LaTeX Showing element 651 to 700 of 9634 in total
Filtered  : 0
Value Type  : Ranked
Network Comparison Type  : Divided
Rank
description
Interaction Map
red
green
network_comparison
326 ba271b5.1 (similar to ribosomal protein s7). [sptrembl;acc:q9h1s9] Low confidence 9978.85 11061.5 1.10849
dead/h (asp-glu-ala-asp/his) box polypeptide 11; dead/h box-11 (chl1-related helicase gene-1); yeast chl1 homolog. [refseq;acc:nm_030655] High confidence 11948.4 11295.6 1.05779
327 3-hydroxyisobutyryl-coenzyme a hydrolase. [refseq;acc:nm_014362] 9897.29 10466.5 1.05751
lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [refseq;acc:nm_003893] Low confidence 19355 17469.2 1.10795
328 double-stranded rna-specific editase 1 (ec 3.5.-.-) (dsrna adenosine deaminase) (rna editing deaminase 1) (rna editing enzyme 1). [swissprot;acc:p78563] 9536 8611 1.10742
putative rna-binding protein 15 (rna binding motif protein 15) (one-twenty two protein). [swissprot;acc:q96t37] High confidence 10897 11520 1.05717
329 dimethylaniline monooxygenase [n-oxide forming] 3 (ec 1.14.13.8) (hepatic flavin-containing monooxygenase 3) (fmo 3) (dimethylaniline oxidase 3) (fmo form 2) (fmo ii). [swissprot;acc:p31513] Low confidence 10693.9 11839.1 1.10709
signal-induced proliferation-associated 1-like 1. [refseq;acc:nm_015556] High confidence 15977.3 15115.5 1.05701
330 glutamyl aminopeptidase (ec 3.4.11.7) (eap) (aminopeptidase a) (apa) (differentiation antigen gp160). [swissprot;acc:q07075] Low confidence 10952.3 12125.1 1.10708
pram-1 protein; pml-rara target gene encoding an adaptor molecule-1. [refseq;acc:nm_032152] High confidence 12320.2 13018.5 1.05668
331 40s ribosomal protein s3a. [swissprot;acc:p49241] 10405.1 10992.4 1.05644
wd-repeat protein 5 (wd-repeat protein big-3). [swissprot;acc:q9ugp9] Low confidence 14768.3 16345.9 1.10682
332 myosin heavy chain, cardiac muscle alpha isoform (myhc-alpha). [swissprot;acc:p13533] High confidence 8125.5 7697.5 1.0556
stromal membrane-associated protein; stromal membrane-associated protein smap1a. [refseq;acc:nm_021940] Low confidence 12594.6 13938.9 1.10674
333 guanine nucleotide-binding protein g(s), alpha subunit (adenylate cyclase-stimulating g alpha protein). [swissprot;acc:p04895] 12628.6 13965.7 1.10588
myosin heavy chain, skeletal muscle, fetal (myosin heavy chain iib) (myhc-iib). [swissprot;acc:q9y623] High confidence 8125.5 7697.5 1.0556
334 myosin heavy chain, skeletal muscle, adult 2 (myosin heavy chain iia) (myhc-iia). [swissprot;acc:q9ukx2]
tigger transposable element derived 6. [refseq;acc:nm_030953] Low confidence 12360 11200.2 1.10355
335 myosin heavy chain, skeletal muscle, adult 1 (myosin heavy chain iix/d) (myhc-iix/d). [swissprot;acc:p12882] High confidence 8125.5 7697.5 1.0556
soluble liver antigen/liver pancreas antigen. [refseq;acc:nm_153825] Low confidence 10303.5 11370.4 1.10355
336 myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3] High confidence 8125.5 7697.5 1.0556
napsin 1 precursor (ec 3.4.23.-) (napsin a) (napa) (ta01/ta02) (aspartyl protease 4) (asp 4) (asp4). [swissprot;acc:o96009] Low confidence 10354.8 11424.6 1.10331
337 glucosamine--fructose-6-phosphate aminotransferase [isomerizing] 1 (ec 2.6.1.16) (hexosephosphate aminotransferase 1) (d-fructose-6- phosphate amidotransferase 1) (gfat 1) (gfat1). [swissprot;acc:q06210] High confidence 12953.2 12273.2 1.05541
tigger transposable element derived 7; jerky (mouse) homolog-like. [refseq;acc:nm_033208] Low confidence 12364.7 11207.7 1.10323
338 hydroxyindole o-methyltransferase (ec 2.1.1.4) (hiomt) (acetylserotonin o-methyltransferase) (asmt). [swissprot;acc:p46597] High confidence 11149.7 10571.4 1.0547
tigger transposable element derived 1; jerky (mouse) homolog-like. [refseq;acc:nm_145702] Low confidence 12364.8 11207.9 1.10322
339 hexokinase, type i (ec 2.7.1.1) (hk i) (brain form hexokinase). [swissprot;acc:p19367] 12550.1 13838.9 1.10269
tfiih basal transcription factor complex p44 subunit (basic transcription factor 2 44 kda subunit) (btf2-p44) (general transcription factor iih polypeptide 2). [swissprot;acc:q13888] High confidence 10344.1 10903.3 1.05406
340 guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148] 11372.3 10792.3 1.05374
transcription factor cp2; transcription factor cp2, alpha globin. [refseq;acc:nm_005653] Low confidence 9097.31 10024.6 1.10193
341 e1a binding protein p400; p400 swi2/snf2-related protein; cagh32 protein; trinucleotide repeat containing 12. [refseq;acc:nm_015409] 9600.88 10576.1 1.10158
ferritin heavy polypeptide-like 17. [swissprot;acc:q9bxu8] High confidence 8702.94 9169.98 1.05366
342 gaba-a receptor-associated protein. [sptrembl;acc:q9by60] 10074 10609 1.05311
uncharacterized bone marrow protein bm033. [refseq;acc:nm_018452] Low confidence 12294.5 13531.6 1.10062
343 casein kinase i alpha s-like. [refseq;acc:nm_145203] High confidence 8356.31 8788.62 1.05173
phosphoinositide-3-kinase, regulatory subunit 4, p150; phosphatidylinositol 3-kinase-associated p150. [refseq;acc:nm_014602] Low confidence 9903.38 10888 1.09942
344 dihydropyrimidine dehydrogenase [nadp+] precursor (ec 1.3.1.2) (dpd) (dhpdhase) (dihydrouracil dehydrogenase) (dihydrothymine dehydrogenase). [swissprot;acc:q12882] High confidence 10540.6 10027.6 1.05116
secreted modular calcium-binding protein 1. [refseq;acc:nm_022137] Low confidence 14003.7 12743.3 1.09891
345 60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914] 12003.2 10927.4 1.09845
alcohol dehydrogenase class iii chi chain (ec 1.1.1.1) (glutathione- dependent formaldehyde dehydrogenase) (ec 1.2.1.1) (fdh). [swissprot;acc:p11766] High confidence 11563.7 12151.8 1.05086
346 potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110] Low confidence 12067.3 10994.9 1.09754
rna polymerase i transcription factor rrn3. [refseq;acc:nm_018427] High confidence 9267.81 9736.2 1.05054
347 aldehyde dehydrogenase 8 (ec 1.2.1.5). [swissprot;acc:p48448] Low confidence 13596.7 12389.7 1.09742
carboxypeptidase h precursor (ec 3.4.17.10) (cph) (carboxypeptidase e) (cpe) (enkephalin convertase) (prohormone processing carboxypeptidase). [swissprot;acc:p16870] High confidence 7670 7311 1.0491
348 melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801] 16321 15577 1.04776
probable glutamyl-trna(gln) amidotransferase subunit b, mitochondrial precursor (ec 6.3.5.-) (glu-adt subunit b) (cytochrome oxidase assembly factor pet112 homolog). [swissprot;acc:o75879] Low confidence 13145.3 14425.4 1.09738
349 blood group rh(ce) polypeptide (rhesus c/e antigens) (rh30a) (rhixb) (rh polypeptide 1) (rhpi). [swissprot;acc:p18577] 15659.1 17176.5 1.0969
melanoma-associated antigen 3 (mage-3 antigen) (antigen mz2-d). [swissprot;acc:p43357] High confidence 16321 15577 1.04776
350 blood group rh(d) polypeptide (rhesus d antigen) (rhxiii) (rh polypeptide 2) (rhpii). [swissprot;acc:q02161] Low confidence 15662.8 17178.7 1.09678
melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364] High confidence 16321 15577 1.04776

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/