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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Gene Rank description Value Type Network Comparison Type Interaction Map Filtered green red network_comparison
Results: HTML CSV LaTeX Showing element 601 to 650 of 3730 in total
Value Type  : Measured
Network Comparison Type  : Divided
Interaction Map  : High confidence
Rank
description
Filtered
green
red
network_comparison
301 cyclin-dependent kinases regulatory subunit 1 (cks-1) (sid1334) (pnas-16 / pnas-143). [swissprot;acc:p33551] 1 11466 13768.2 1.20078
forkhead box protein g1c (forkhead-related protein fkhl3) (hfk3) (fragment). [swissprot;acc:q14488] 0 149.371 135.294 1.10405
302 interleukin-1 receptor-associated kinase 4; interleukin-1 receptor associated kinase 4. [refseq;acc:nm_016123]
pallidin; pallid (mouse) homolog, pallidin. [refseq;acc:nm_012388] 1 7073.65 5894.75 1.19999
303 serine/threonine protein phosphatase pp1-gamma catalytic subunit (ec 3.1.3.16) (pp-1g). [swissprot;acc:p36873] 18560.4 22268.8 1.1998
sh2 domain binding protein 1; tpr-containing, sh2-binding phosphoprotein. [refseq;acc:nm_014633] 0 863.886 952.488 1.10256
304 pre-mrna processing factor 31 homolog; pre-mrna processing factor 31 homolog (yeast). [refseq;acc:nm_015629] 1 5824.52 4855.46 1.19958
ubiquitous tropomodulin (u-tmod) (tropomodulin 3). [swissprot;acc:q9nyl9] 0 5469.68 4962.34 1.10224
305 odd-skipped related 1; odz (odd oz/ten-m) related 1. [refseq;acc:nm_145260] 1 4624.15 3856.29 1.19912
sorting nexin 9 (sh3 and px domain-containing protein 1) (sdp1 protein). [swissprot;acc:q9y5x1] 0 5469.68 4962.34 1.10224
306 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] 1547.2 1705.19 1.10211
pnas-18. [sptrembl;acc:q9bzu3] 1 11409.6 13680.5 1.19903
307 ferritin heavy polypeptide-like 17. [swissprot;acc:q9bxu8] 0 3775.43 4159.87 1.10183
t-complex protein 1, gamma subunit (tcp-1-gamma) (cct-gamma). [swissprot;acc:p49368] 1 14824.9 12365.2 1.19892
308 neurocalcin delta. [swissprot;acc:p29554] 0 773.218 702.055 1.10136
segment polarity protein dishevelled homolog dvl-1 (dishevelled-1) (dsh homolog 1). [swissprot;acc:o14640] 1 5966.44 4977.09 1.19878
309 segment polarity protein dishevelled homolog dvl-2 (dishevelled-2) (dsh homolog 2). [swissprot;acc:o14641] 5966.14 4977.8 1.19855
suppressor of ty 5 homolog; suppressor of ty (s.cerevisiae) 5 homolog. [refseq;acc:nm_003169] 0 2081.91 1890.86 1.10104
310 purine nucleoside phosphorylase (ec 2.4.2.1) (inosine phosphorylase) (pnp). [swissprot;acc:p00491] 4320.09 4755.32 1.10075
squamous cell carcinoma antigen recognized by t cells 1; u4/u6.u5 tri-snrnp-associated 110 kda protein; ige autoantigen; sart1(259) protein; sart1(800) protein. [refseq;acc:nm_005146] 1 5878.79 4909.79 1.19736
311 segment polarity protein dishevelled homolog dvl-3 (dishevelled-3) (dsh homolog 3). [swissprot;acc:q92997] 5964.58 4981.52 1.19734
transcription factor cp2; transcription factor cp2, alpha globin. [refseq;acc:nm_005653] 0 2833.94 3117.17 1.09994
312 dyskerin (nucleolar protein nap57) (cbf5 homolog). [swissprot;acc:o60832] 3800.29 3455.43 1.0998
u6 snrna-associated sm-like protein lsm7. [swissprot;acc:q9uk45] 1 5500.48 4598.21 1.19622
313 60s acidic ribosomal protein p1. [swissprot;acc:p05386] 0 6739.34 6131.07 1.09921
protein phosphatase inhibitor 2 (ipp-2). [swissprot;acc:p41236] 1 18098.7 21644.2 1.1959
314 type 1 protein phosphatase inhibitor. [refseq;acc:nm_025210] 18090 21632.5 1.19583
tyrosine aminotransferase (ec 2.6.1.5) (l-tyrosine:2-oxoglutarate aminotransferase) (tat). [swissprot;acc:p17735] 0 4827.7 5302.7 1.09839
315 40s ribosomal protein sa (p40) (34/67 kda laminin receptor) (colon carcinoma laminin-binding protein) (nem/1chd4) (multidrug resistance- associated protein mgr1-ag). [swissprot;acc:p08865] 1104.61 1212.82 1.09796
ribosome biogenesis regulatory protein homolog. [swissprot;acc:q15050] 1 17896.5 21370.8 1.19413
316 carboxypeptidase h precursor (ec 3.4.17.10) (cph) (carboxypeptidase e) (cpe) (enkephalin convertase) (prohormone processing carboxypeptidase). [swissprot;acc:p16870] 0 576 525 1.09714
serine/threonine protein phosphatase pp1-alpha 1 catalytic subunit (ec 3.1.3.16) (pp-1a). [swissprot;acc:p08129] 1 17896.5 21370.8 1.19413
317 adiponectin receptor 2. [refseq;acc:nm_024551] 3762.56 3153.1 1.19329
my016 protein. [sptrembl;acc:q9h3k6] 0 1615.47 1770.21 1.09579
318 nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] 1 40795.8 34190.9 1.19318
protein cgi-147. [swissprot;acc:q9y3e5] 0 9192.38 8396.12 1.09484
319 cell division protein kinase 3 (ec 2.7.1.-). [swissprot;acc:q00526] 1268.19 1388.45 1.09483
ras-related gtp binding a; ras-related gtp-binding protein. [refseq;acc:nm_006570] 1 24908.5 20911 1.19117
320 ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157]
syntaxin 1a (neuron-specific antigen hpc-1). [swissprot;acc:q16623] 0 156.3 142.802 1.09452
321 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] 686.693 628.072 1.09333
ras-related gtp binding b short isoform; gtp-binding protein ragb. [refseq;acc:nm_006064] 1 24908.5 20911 1.19117
322 60s ribosomal protein l10a (csa-19). [swissprot;acc:p53025] 0 1771.04 1621.1 1.09249
anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685] 1 24908.5 20911 1.19117
323 histone deacetylase 2 (hd2). [swissprot;acc:q92769] 0 2244.06 2056.14 1.09139
u6 snrna-associated sm-like protein lsm4 (glycine-rich protein) (grp). [swissprot;acc:q9y4z0] 1 5501.94 4620.76 1.1907
324 deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233] 33457.6 28136.5 1.18912
testis-specific chromodomain y protein 1. [swissprot;acc:q9y6f8] 0 2784.08 3036.29 1.09059
325 septin-like protein kiaa0202 (fragment). [swissprot;acc:q92599] 1 19235.4 16177.9 1.18899
testis-specific chromodomain protein y protein 2. [swissprot;acc:q9y6f7] 0 2784.59 3036.85 1.09059

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/