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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Value Type Rank Gene description Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 1225 to 1274 of 29840 in total
Value Type  : Measured
Interaction Map  : High confidence
Rank
description
Network Comparison Type
Filtered
red
green
network_comparison
307 1-acyl-sn-glycerol-3-phosphate acyltransferase beta (ec 2.3.1.51) (1- agp acyltransferase 2) (1-agpat 2) (lysophosphatidic acid acyltransferase-beta) (lpaat-beta) (1-acylglycerol-3-phosphate o- acyltransferase 2). [swissprot;acc:o15120] Subtracted 1 7556.75 8636.87 1080.12
cytochrome p450 4f11 (ec 1.14.14.1) (cypivf11). [swissprot;acc:q9hbi6] 0 292.152 378.206 86.054
ferritin heavy polypeptide-like 17. [swissprot;acc:q9bxu8] Divided 4159.87 3775.43 1.10183
t-complex protein 1, gamma subunit (tcp-1-gamma) (cct-gamma). [swissprot;acc:p49368] 1 12365.2 14824.9 1.19892
308 ba305p22.3 (breast carcinoma amplified sequence 4). [sptrembl;acc:q8ndy6] Subtracted 11852.9 10773.5 1079.4
cytochrome p450 4f12 (ec 1.14.14.1) (cypivf12). [swissprot;acc:q9hcs2] 0 291.639 377.574 85.935
neurocalcin delta. [swissprot;acc:p29554] Divided 702.055 773.218 1.10136
segment polarity protein dishevelled homolog dvl-1 (dishevelled-1) (dsh homolog 1). [swissprot;acc:o14640] 1 4977.09 5966.44 1.19878
309 basic helix-loop-helix domain containing, class b, 5; trinucleotide repeat containing 20. [refseq;acc:nm_152414] Subtracted 11848.8 10770.3 1078.5
mms19-like (met18 homolog, s. cerevisiae); homolog of yeast mms19; mms19 (met18 s. cerevisiae)-like. [refseq;acc:nm_022362] 0 260.986 346.751 85.765
segment polarity protein dishevelled homolog dvl-2 (dishevelled-2) (dsh homolog 2). [swissprot;acc:o14641] Divided 1 4977.8 5966.14 1.19855
suppressor of ty 5 homolog; suppressor of ty (s.cerevisiae) 5 homolog. [refseq;acc:nm_003169] 0 1890.86 2081.91 1.10104
310 1-acyl-sn-glycerol-3-phosphate acyltransferase alpha (ec 2.3.1.51) (1- agp acyltransferase 1) (1-agpat 1) (lysophosphatidic acid acyltransferase-alpha) (lpaat-alpha) (1-acylglycerol-3-phosphate o- acyltransferase 1) (g15 protein). [swissprot;acc:q99943] Subtracted 1 7551.8 8630.06 1078.26
integral membrane protein cii-3b. [sptrembl;acc:o75609] 0 2218.63 2304.22 85.59
purine nucleoside phosphorylase (ec 2.4.2.1) (inosine phosphorylase) (pnp). [swissprot;acc:p00491] Divided 4755.32 4320.09 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 4909.79 5878.79 1.19736
311 amyloid beta a4 precursor protein-binding family a member 1 (neuron- specific x11 protein) (neuronal munc18-1-interacting protein 1) (mint-1) (adapter protein x11alpha). [swissprot;acc:q02410] Subtracted 2820.51 3897.1 1076.59
glycine receptor alpha-3 chain precursor. [swissprot;acc:o75311] 0 470.251 384.733 85.518
segment polarity protein dishevelled homolog dvl-3 (dishevelled-3) (dsh homolog 3). [swissprot;acc:q92997] Divided 1 4981.52 5964.58 1.19734
transcription factor cp2; transcription factor cp2, alpha globin. [refseq;acc:nm_005653] 0 3117.17 2833.94 1.09994
312 dyskerin (nucleolar protein nap57) (cbf5 homolog). [swissprot;acc:o60832] 3455.43 3800.29 1.0998
likely ortholog of rat cytochrome p450 4x1. [refseq;acc:nm_178033] Subtracted 287.903 372.961 85.058
max protein. [swissprot;acc:p25912] 1 4640.26 5704.87 1064.61
u6 snrna-associated sm-like protein lsm7. [swissprot;acc:q9uk45] Divided 4598.21 5500.48 1.19622
313 60s acidic ribosomal protein p1. [swissprot;acc:p05386] 0 6131.07 6739.34 1.09921
60s ribosomal protein l18a. [swissprot;acc:q02543] Subtracted 2688.7 2604.71 83.99
protein phosphatase inhibitor 2 (ipp-2). [swissprot;acc:p41236] Divided 1 21644.2 18098.7 1.1959
u6 snrna-associated sm-like protein lsm5. [swissprot;acc:q9y4y9] Subtracted 4567.04 5631.2 1064.16
314 bifunctional 3'-phosphoadenosine 5'-phosphosulfate synthethase 2 (paps synthethase 2) (papss 2) (sulfurylase kinase 2) (sk2) (sk 2) [includes: sulfate adenylyltransferase (ec 2.7.7.4) (sulfate adenylate transferase) (sat) (atp-sulfurylase); adenylylsulfate kinase (ec 2.7.1.25) (adenylylsulfate 3'-phosphotransferase) (aps kinase) (adenosine-5'-phosphosulfate 3'-phosphotransferase) (3'- phosphoadenosine-5'-phosphosulfate synthetase)]. [swissprot;acc:o95340] 0 252 335 83
ribonucleotide reductase m2 b (tp53 inducible); p53-inducible ribonucleotide reductase small subunit 2 homolog. [refseq;acc:nm_015713] 1 6563.65 7627.29 1063.64
type 1 protein phosphatase inhibitor. [refseq;acc:nm_025210] Divided 21632.5 18090 1.19583
tyrosine aminotransferase (ec 2.6.1.5) (l-tyrosine:2-oxoglutarate aminotransferase) (tat). [swissprot;acc:p17735] 0 5302.7 4827.7 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] 1212.82 1104.61 1.09796
5-aminolevulinic acid synthase, nonspecific, mitochondrial precursor (ec 2.3.1.37) (delta-aminolevulinate synthase) (delta-ala synthetase) (alas-h). [swissprot;acc:p13196] Subtracted 726.245 808.929 82.684
ribosome biogenesis regulatory protein homolog. [swissprot;acc:q15050] Divided 1 21370.8 17896.5 1.19413
vav proto-oncogene. [swissprot;acc:p15498] Subtracted 6644.99 7707.8 1062.81
316 carboxypeptidase h precursor (ec 3.4.17.10) (cph) (carboxypeptidase e) (cpe) (enkephalin convertase) (prohormone processing carboxypeptidase). [swissprot;acc:p16870] Divided 0 525 576 1.09714
ero1-like. [refseq;acc:nm_014584] Subtracted 82 0 82
serine/threonine protein phosphatase pp1-alpha 1 catalytic subunit (ec 3.1.3.16) (pp-1a). [swissprot;acc:p08129] Divided 1 21370.8 17896.5 1.19413
wiskott-aldrich syndrome protein interacting protein (wasp interacting protein) (prpl-2 protein). [swissprot;acc:o43516] Subtracted 6603.41 7664.65 1061.24
317 adiponectin receptor 2. [refseq;acc:nm_024551] Divided 3153.1 3762.56 1.19329
my016 protein. [sptrembl;acc:q9h3k6] 0 1770.21 1615.47 1.09579
selenide,water dikinase 2 (ec 2.7.9.3) (selenophosphate synthetase 2) (selenium donor protein 2). [swissprot;acc:q99611] Subtracted 72 151 79
vav-3 protein. [swissprot;acc:q9ukw4] 1 6647.43 7706.18 1058.75
318 1-acyl-sn-glycerol-3-phosphate acyltransferase gamma (ec 2.3.1.51) (1- agp acyltransferase 3) (1-agpat 3) (lysophosphatidic acid acyltransferase-gamma) (lpaat-gamma) (1-acylglycerol-3-phosphate o- acyltransferase 3). [swissprot;acc:q9nrz7] 7485.08 8543.66 1058.58
importin 7; ran-binding protein 7. [refseq;acc:nm_006391] 0 191.333 115.333 76
nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333] Divided 1 34190.9 40795.8 1.19318
protein cgi-147. [swissprot;acc:q9y3e5] 0 8396.12 9192.38 1.09484
319 1-acyl-sn-glycerol-3-phosphate acyltransferase delta (ec 2.3.1.51) (1- agp acyltransferase 4) (1-agpat 4) (lysophosphatidic acid acyltransferase-delta) (lpaat-delta) (1-acylglycerol-3-phosphate o- acyltransferase 4). [swissprot;acc:q9nrz5] Subtracted 1 7477 8532.02 1055.02
cell division protein kinase 3 (ec 2.7.1.-). [swissprot;acc:q00526] Divided 0 1388.45 1268.19 1.09483

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/