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