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 Value Type description Interaction Map Network Comparison Type Filtered green red network_comparison
Results: HTML CSV LaTeX Showing element 3180 to 3229 of 19268 in total
Value Type  : Ranked
Rank
description
Interaction Map
Network Comparison Type
Filtered
green
red
network_comparison
398 muscle-specific beta 1 integrin binding protein. [refseq;acc:nm_014446] High confidence Divided 1 238.358 218.818 1.0893
peroxisomal 3,2-trans-enoyl-coa isomerase (ec 5.3.3.8) (dodecenoyl-coa delta-isomerase) (d3,d2-enoyl-coa isomerase) (dbi-related protein 1) (drs-1) (hepatocellular carcinoma-associated antigen 88). [swissprot;acc:o75521] Subtracted 0 10320.9 9953.39 367.51
phosducin (phd) (33 kda phototransducing protein) (meka protein). [swissprot;acc:p20941] 1 226.218 207.908 18.31
pr-domain zinc finger protein 16 (transcription factor mel1). [swissprot;acc:q9haz2] Low confidence Divided 0 13468.5 12445.8 1.08217
yme1-like 1 isoform 3; atp-dependent metalloprotease ftsh1 homolog. [refseq;acc:nm_014263] 1 213.496 205.997 1.0364
399 carboxypeptidase h precursor (ec 3.4.17.10) (cph) (carboxypeptidase e) (cpe) (enkephalin convertase) (prohormone processing carboxypeptidase). [swissprot;acc:p16870] High confidence Subtracted 0 7311 7670 359
clathrin heavy chain 1 (clh-17). [swissprot;acc:q00610] Divided 1 226.226 207.889 1.08821
dna repair protein rad52 homolog. [swissprot;acc:p43351] Subtracted 226.218 207.908 18.31
glycerol kinase, testis specific 1 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [swissprot;acc:q14409] Divided 0 17271.4 16703.1 1.03402
imp2 inner mitochondrial membrane protease-like; inner mitochondrial membrane peptidase 2 like. [refseq;acc:nm_032549] Low confidence Subtracted 10629.5 10002.6 626.9
lipopolysaccharide-binding protein precursor (lbp). [swissprot;acc:p18428] Divided 13511.7 12486.9 1.08207
sirtuin 7; sir2-related protein type 7; sirtuin type 7; sirtuin (silent mating type information regulation 2, s.cerevisiae, homolog) 7; silent mating type information regulation 2, s.cerevisiae, homolog 7; sirtuin silent mating type information regulation 2 homolog 7 (s. cerevisiae). [refseq;acc:nm_016538] Subtracted 1 197.863 205.017 7.154
transcription factor iiia (factor a) (tfiiia). [swissprot;acc:q92664] Divided 186.506 193.291 1.03638
400 clathrin heavy chain 2 (clh-22). [swissprot;acc:p53675] High confidence Subtracted 226.209 207.931 18.278
dj718p11.1.2 (novel class ii aminotransferase similar to serine palmotyltransferase (isoform 2)) (fragment). [sptrembl;acc:q9ugb5] Low confidence 0 11010.5 10384.6 625.9
glutamine synthetase (ec 6.3.1.2) (glutamate--ammonia ligase). [swissprot;acc:p15104] High confidence 12224.2 12581.7 357.5
glycerol kinase, testis specific 2 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [swissprot;acc:q14410] Divided 17278.4 16711 1.03395
nucleotide-binding protein 1 (nbp 1). [swissprot;acc:p53384] Low confidence Subtracted 1 193.766 200.894 7.128
phosducin-like protein (phlp). [swissprot;acc:q13371] High confidence Divided 226.218 207.908 1.08807
solute carrier family 35, member e1. [refseq;acc:nm_024881] Low confidence 211.03 203.661 1.03618
syntaxin 10 (syn10). [swissprot;acc:o60499] 0 12247.2 11318.7 1.08203
401 mitochondrial 28s ribosomal protein s6 (mrp-s6). [swissprot;acc:p82932] High confidence Subtracted 20558 20914 356
mki67 (fha domain) interacting nucleolar phosphoprotein; nucleolar phosphoprotein nopp34; nucleolar protein interacting with the fha domain of pki-67. [refseq;acc:nm_032390] 1 236.224 254.434 18.21
replication protein a 70 kda dna-binding subunit (rp-a) (rf-a) (replication factor-a protein 1) (single-stranded dna-binding protein). [swissprot;acc:p27694] Divided 226.218 207.908 1.08807
ribosomal protein l10-like protein. [refseq;acc:nm_080746] Low confidence 0 10971.5 11865.8 1.08151
serine protease htra1 precursor (ec 3.4.21.-) (l56). [swissprot;acc:q92743] Subtracted 1 192.938 200.057 7.119
sirtuin 7; sir2-related protein type 7; sirtuin type 7; sirtuin (silent mating type information regulation 2, s.cerevisiae, homolog) 7; silent mating type information regulation 2, s.cerevisiae, homolog 7; sirtuin silent mating type information regulation 2 homolog 7 (s. cerevisiae). [refseq;acc:nm_016538] Divided 197.863 205.017 1.03616
transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186] High confidence 0 11904.9 12305.9 1.03368
ubiquitin-conjugating enzyme e2-18 kda ubch7 (ec 6.3.2.19) (ubiquitin- protein ligase) (ubiquitin carrier protein) (ubcm4) (e2-f1) (l-ubc). [swissprot;acc:p51966] Low confidence Subtracted 11832.5 11212.4 620.1
402 60s ribosomal protein l10 (qm protein) (tumor suppressor qm) (laminin receptor homolog). [swissprot;acc:p27635] Divided 10979.9 11870.1 1.08108
adaptor-related protein complex 1, mu 2 subunit (mu-adaptin 2) (adaptor protein complex ap-1 mu-2 subunit) (golgi adaptor ha1/ap1 adaptin mu-2 subunit) (clathrin assembly protein assembly protein complex 1 medium chain 2) (ap-mu chain family member mu1b). [swissprot;acc:q9y6q5] High confidence 10918 10562.4 1.03367
Subtracted 355.6
highly expressed in cancer, rich in leucine heptad repeats. [refseq;acc:nm_006101] 1 249.983 231.802 18.181
microtubule-interacting protein that associates with traf3; interleukin 13 receptor alpha 1-binding protein-1. [refseq;acc:nm_015650] Low confidence 0 8815 9431 616
replication protein a 32 kda subunit (rp-a) (rf-a) (replication factor-a protein 2). [swissprot;acc:p15927] High confidence Divided 1 226.218 207.908 1.08807
voltage-dependent calcium channel gamma-5 subunit (neuronal voltage- gated calcium channel gamma-5 subunit). [swissprot;acc:q9uf02] Low confidence Subtracted 203.181 210.292 7.111
x-linked protein sts1769. [swissprot;acc:q99871] Divided 203.883 211.253 1.03615
403 basic proline-rich peptide p-e (ib-9). [swissprot;acc:p02811] 0 11825.8 12779.3 1.08063
heat shock 70 kda protein 1 (hsp70.1) (hsp70-1/hsp70-2). [swissprot;acc:p08107] Subtracted 11580 10966.5 613.5
microtubule-actin crosslinking factor 1, isoform 4. [swissprot;acc:q96pk2] High confidence 1 246.338 228.468 17.87
phosducin (phd) (33 kda phototransducing protein) (meka protein). [swissprot;acc:p20941] Divided 226.218 207.908 1.08807
probable serine protease htra3 precursor (ec 3.4.21.-). [swissprot;acc:p83110] Low confidence Subtracted 192.942 200.049 7.107
scribble. [refseq;acc:nm_015356] High confidence 0 12719 12370.5 348.5
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] Low confidence Divided 1 203.883 211.253 1.03615
udp-glucuronosyltransferase 2b17 precursor, microsomal (ec 2.4.1.17) (udpgt) (c19-steroid specific udp-glucuronosyltransferase). [swissprot;acc:o75795] High confidence 0 10111.2 9783.63 1.03348
404 ba526d8.2 (novel protein similar to kiaa1074). [sptrembl;acc:q9h560] Low confidence 12572.4 11658.5 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] High confidence Subtracted 1 246.33 228.463 17.867
dna repair protein rad52 homolog. [swissprot;acc:p43351] Divided 226.218 207.908 1.08807
enigma protein; lim domain protein. [refseq;acc:nm_005451] Low confidence Subtracted 0 12940.6 13552.2 611.6
metabotropic glutamate receptor 2 precursor (mglur2). [swissprot;acc:q14416] Divided 1 196 203.081 1.03613

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/