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 description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 12864 to 12913 of 77072 in total
Rank
description
Value Type
Network Comparison Type
Interaction Map
Filtered
red
green
network_comparison
402 x-linked protein sts1769. [swissprot;acc:q99871] Ranked Divided Low confidence 1 211.253 203.883 1.03615
403 40s ribosomal protein s4, y isoform 2. [swissprot;acc:q8td47] Rooted Subtracted 0 22.8712 24.621 1.7498
basic proline-rich peptide p-e (ib-9). [swissprot;acc:p02811] Ranked Divided 12779.3 11825.8 1.08063
beta enolase (ec 4.2.1.11) (2-phospho-d-glycerate hydro-lyase) (skeletal muscle enolase) (mse) (enolase 3). [swissprot;acc:p13929] Squared Subtracted High confidence 1 28190.4 33984.1 5793.7
calcyphosine. [swissprot;acc:q13938] Rooted 59.5128 65.604 6.0912
cytochrome p450 4b1 (ec 1.14.14.1) (cypivb1) (p450-hp). [swissprot;acc:p13584] Low confidence 72.2945 75.765 3.4705
eferin. [swissprot;acc:o75154] Squared 34469.6 37645.4 3175.8
elongation factor 1-beta (ef-1-beta). [swissprot;acc:p24534] Rooted Divided 70.3162 73.6827 1.04788
fem-1 homolog b; fem-1-like death receptor binding protein; fem-1 (c.elegans) homolog b. [refseq;acc:nm_015322] Measured High confidence 5201.41 4479.76 1.16109
glycerol kinase, testis specific 2 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [swissprot;acc:q14410] Squared Subtracted Low confidence 0 2454.14 2709.21 255.07
glycogen [starch] synthase, liver (ec 2.4.1.11). [swissprot;acc:p54840] Divided High confidence 1 39463.9 48362.1 1.22548
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150] Measured Subtracted Low confidence 0 864.333 746.529 117.804
Rooted High confidence 15.4896 14.7645 0.7251
heat shock 70 kda protein 1 (hsp70.1) (hsp70-1/hsp70-2). [swissprot;acc:p08107] Ranked Low confidence 10966.5 11580 613.5
hepatocellularcarcinoma-associated antigen hca557a. [refseq;acc:nm_015433] Measured Divided 2800 2539 1.1028
ischemia/reperfusion inducible protein. [refseq;acc:nm_024640] Squared High confidence 1872.12 1754.91 1.06679
maleylacetoacetate isomerase (ec 5.2.1.2) (maai) (glutathione s- transferase zeta 1) (ec 2.5.1.18) (gstz1-1). [swissprot;acc:o43708] Measured Subtracted 2290.09 2264.37 25.72
microtubule-actin crosslinking factor 1, isoform 4. [swissprot;acc:q96pk2] Ranked 1 228.468 246.338 17.87
myosin heavy chain, skeletal muscle, extraocular (myhc-eo). [swissprot;acc:q9ukx3] Measured Divided 0 548.5 527.5 1.03981
nucleotide-binding protein 1 (nbp 1). [swissprot;acc:p53384] Subtracted Low confidence 1 7398.26 7826.48 428.22
Rooted Divided High confidence 59.6834 65.6741 1.10037
pellino protein. [refseq;acc:nm_020651] Squared Low confidence 0 8120.06 9031.19 1.11221
phosducin (phd) (33 kda phototransducing protein) (meka protein). [swissprot;acc:p20941] Ranked High confidence 1 207.908 226.218 1.08807
poly (adp-ribose) glycohydrolase. [refseq;acc:nm_003631] Rooted 0 19.4322 20.0671 1.03267
ponsin; sh3-domain protein 5 (ponsin). [refseq;acc:nm_015385] Measured Subtracted 1 6259.3 7190.91 931.61
probable serine protease htra3 precursor (ec 3.4.21.-). [swissprot;acc:p83110] Ranked Low confidence 200.049 192.942 7.107
prolyl endopeptidase (ec 3.4.21.26) (post-proline cleaving enzyme) (pe). [swissprot;acc:p48147] Squared Divided 48608.6 45485.7 1.06866
protein disulfide isomerase precursor (pdi) (ec 5.3.4.1) (prolyl 4- hydroxylase beta subunit) (cellular thyroid hormone binding protein) (p55). [swissprot;acc:p07237] Subtracted High confidence 0 94.678 87.5656 7.1124
ribosomal protein l10-like protein. [refseq;acc:nm_080746] Rooted Divided Low confidence 20.9858 22.7699 1.08501
scribble. [refseq;acc:nm_015356] Ranked Subtracted High confidence 12370.5 12719 348.5
seryl-trna synthetase, mitochondrial precursor (ec 6.1.1.11) (serine--trna ligase) (serrsmt). [swissprot;acc:q9np81] Measured Divided Low confidence 1 8853.13 9319.56 1.05269
three prime repair exonuclease 1 isoform c; deoxyribonuclease iii, dnaq/mutd (e. coli)-like; 3' repair exonuclease 1; atr interacting protein. [refseq;acc:nm_032166] Ranked 211.253 203.883 1.03615
udp-glucuronosyltransferase 2b17 precursor, microsomal (ec 2.4.1.17) (udpgt) (c19-steroid specific udp-glucuronosyltransferase). [swissprot;acc:o75795] High confidence 0 9783.63 10111.2 1.03348
404 40s ribosomal protein s3a. [swissprot;acc:p49241] Rooted 34.0198 32.9781 1.03159
40s ribosomal protein s4, x isoform (single copy abundant mrna protein) (scr10). [swissprot;acc:p12750] Subtracted Low confidence 22.9027 24.652 1.7493
60s ribosomal protein l10 (qm protein) (tumor suppressor qm) (laminin receptor homolog). [swissprot;acc:p27635] Divided 20.9571 22.7303 1.08461
adenylosuccinate synthetase (ec 6.3.4.4) (imp--aspartate ligase) (adss) (ampsase). [swissprot;acc:p30520] Squared High confidence 1 26819.1 32855.4 1.22507
adiponectin receptor 2. [refseq;acc:nm_024551] Measured Subtracted Low confidence 7170.39 7598.55 428.16
alpha enolase (ec 4.2.1.11) (2-phospho-d-glycerate hydro-lyase) (non- neural enolase) (nne) (enolase 1) (phosphopyruvate hydratase). [swissprot;acc:p06733] Squared High confidence 28190.4 33984.1 5793.7
atp synthase lipid-binding protein, mitochondrial precursor (ec 3.6.3.14) (atp synthase proteolipid p3) (atpase protein 9) (atpase subunit c). [swissprot;acc:p48201] Divided Low confidence 52108.1 48765.3 1.06855
ba526d8.2 (novel protein similar to kiaa1074). [sptrembl;acc:q9h560] Ranked 0 11658.5 12572.4 1.07839
bullous pemphigoid antigen 1 isoforms 1/2/3/4/5/8 (230 kda bullous pemphigoid antigen) (bpa) (hemidesmosomal plaque protein) (dystonia musculorum protein) (fragment). [swissprot;acc:q03001] Subtracted High confidence 1 228.463 246.33 17.867
crooked neck-like protein 1 (crooked neck homolog) (hcrn) (cgi-201) (mstp021). [swissprot;acc:q9bzj0] Rooted 59.5128 65.604 6.0912
cyclin-dependent kinases regulatory subunit 1 (cks-1) (sid1334) (pnas-16 / pnas-143). [swissprot;acc:p33551] Squared Divided Low confidence 0 28405.2 31588.7 1.11207
dj18d14.4 (cytochrome p450, subfamily iva, polypeptide 11). [sptrembl;acc:q9ntl5] Rooted 1 72.2476 75.7022 1.04782
dj470l14.3 (novel protein similar to the arp2/3 protein complex subunit p21-arc (arc21)). [sptrembl;acc:q9h5b6] Measured Subtracted 0 1709.74 1591.99 117.75
dna repair protein rad52 homolog. [swissprot;acc:p43351] Ranked Divided High confidence 1 207.908 226.218 1.08807
dna-directed rna polymerase i 16 kda polypeptide (ec 2.7.7.6) (rpa16). [swissprot;acc:q9y2s0] Squared Subtracted 0 3228.32 3221.55 6.77
enigma protein; lim domain protein. [refseq;acc:nm_005451] Ranked Low confidence 13552.2 12940.6 611.6
importin-alpha re-exporter (chromosome segregation 1-like protein) (cellular apoptosis susceptibility protein). [swissprot;acc:p55060] Measured High confidence 1 7802.31 8731.82 929.51

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/