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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Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].
Gene Rank description Network Comparison Type Value Type Interaction Map Filtered green red network_comparison
Results: HTML CSV LaTeX Showing element 3908 to 3957 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Network Comparison Type
green
red
network_comparison
1954 voltage-gated potassium channel beta-3 subunit (k+ channel beta-3 subunit) (kv-beta-3). [swissprot;acc:o43448] Divided 213.703 211.632 1.00979
1955 cyclin-dependent kinases regulatory subunit 2 (cks-2). [swissprot;acc:p33552] Subtracted 182.459 180.409 2.05
yip1 interacting factor homolog; yip1p-interacting factor; putative rab5-interacting protein; putative transmembrane protein 54tmp. [refseq;acc:nm_020470] Divided 213.703 211.633 1.00978
1956 catenin (cadherin-associated protein), alpha-like 1; alpha-catulin. [refseq;acc:nm_003798] Subtracted 182.459 180.409 2.05
voltage-gated potassium channel beta-1 subunit (k+ channel beta-1 subunit) (kv-beta-1). [swissprot;acc:q14722] Divided 213.703 211.633 1.00978
1957 receptor protein-tyrosine kinase erbb-3 precursor (ec 2.7.1.112) (c-erbb3) (tyrosine kinase-type cell surface receptor her3). [swissprot;acc:p21860] Subtracted 222.969 225.019 2.05
similar to putative transmembrane protein; homolog of yeast golgi membrane protein yif1p (yip1p-interacting factor). [refseq;acc:nm_033557] Divided 213.703 211.633 1.00978
1958 aflatoxin b1 aldehyde reductase 2 (ec 1.-.-.-) (afb1-ar 2). [swissprot;acc:o95154]
lim domain binding 2; lim binding domain 2; lim domain-binding factor-2. [refseq;acc:nm_001290] Subtracted 197.835 199.883 2.048
1959 alpha/beta hydrolase domain containing protein 3; lung alpha/beta hydrolase 3. [refseq;acc:nm_138340] Divided 213.703 211.633 1.00978
lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [refseq;acc:nm_003893] Subtracted 197.835 199.883 2.048
1960 epidermal growth factor receptor precursor (ec 2.7.1.112) (receptor protein-tyrosine kinase erbb-1). [swissprot;acc:p00533] 222.971 225.019
golgi membrane protein sb140; smooth muscle cell associated protein 5. [refseq;acc:nm_030799] Divided 213.703 211.633 1.00978
1961 alpha/beta hydrolase domain containing protein 1 isoform 2; lung alpha/beta hydrolase protein 1. [refseq;acc:nm_152870]
receptor protein-tyrosine kinase erbb-2 precursor (ec 2.7.1.112) (p185erbb2) (neu proto-oncogene) (c-erbb-2) (tyrosine kinase-type cell surface receptor her2) (mln 19). [swissprot;acc:p04626] Subtracted 222.971 225.019 2.048
1962 lim/homeobox protein lhx4. [swissprot;acc:q969g2] 197.833 199.881
methylmalonate-semialdehyde dehydrogenase [acylating], mitochondrial precursor (ec 1.2.1.27) (mmsdh). [swissprot;acc:q02252] Divided 213.702 211.632 1.00978
1963 10 kda heat shock protein, mitochondrial (hsp10) (10 kda chaperonin) (cpn10). [swissprot;acc:q04984] 213.703 211.633
lim/homeobox protein lhx3. [swissprot;acc:q9ubr4] Subtracted 197.837 199.884 2.047
1964 endothelial-derived gene 1. [refseq;acc:nm_025205] 200.18 202.211 2.031
rab acceptor 1 (prenylated); prenylated rab acceptor 1. [refseq;acc:nm_006423] Divided 213.703 211.633 1.00978
1965 alpha adducin (erythrocyte adducin alpha subunit). [swissprot;acc:p35611] 222.258 224.432
homolog of yeast maf1. [refseq;acc:nm_032272] Subtracted 207.529 209.539 2.01
1966 oligoribonuclease, mitochondrial precursor (ec 3.1.-.-) (small fragment nuclease) (cgi-114). [swissprot;acc:q9y3b8] Divided 213.703 211.633 1.00978
tumor differentially expressed protein 2. [refseq;acc:nm_178865] Subtracted 207.529 209.539 2.01
1967 choline o-acetyltransferase (ec 2.3.1.6) (choactase) (choline acetylase) (chat). [swissprot;acc:p28329] Divided 213.702 211.632 1.00978
tumor differentially expressed protein 1 (transmembrane protein sbbi99). [swissprot;acc:q13530] Subtracted 207.529 209.539 2.01
1968 tumor differentially expressed 1 protein like. [swissprot;acc:q9nrx5]
voltage-gated potassium channel beta-2 subunit (k+ channel beta-2 subunit) (kv-beta-2) (hkvbeta2). [swissprot;acc:q13303] Divided 213.703 211.633 1.00978
1969 aflatoxin b1 aldehyde reductase 1 (ec 1.-.-.-) (afb1-ar 1) (aldoketoreductase 7). [swissprot;acc:o43488]
d-3-phosphoglycerate dehydrogenase (ec 1.1.1.95) (3-pgdh). [swissprot;acc:o43175] Subtracted 207.529 209.539 2.01
1970 importin alpha-6 subunit (karyopherin alpha-5 subunit). [swissprot;acc:o15131] Divided 213.683 211.62 1.00975
trna isopentenylpyrophosphate transferase. [refseq;acc:nm_017646] Subtracted 203.873 205.876 2.003
1971 creatine kinase, m chain (ec 2.7.3.2) (m-ck). [swissprot;acc:p06732] Divided 196.346 198.258 1.00974
rh type c glycoprotein. [refseq;acc:nm_016321] Subtracted 198.88 196.88 2
1972 regucalcin gene promotor region related protein; rgpr-p117. [refseq;acc:nm_033127] Divided 217.659 219.777 1.00973
u2 small nuclear ribonucleoprotein b". [swissprot;acc:p08579] Subtracted 216.769 214.775 1.994
1973 putative eukaryotic translation initiation factor 3 subunit (eif-3) (fragment). [swissprot;acc:o75153] 221.176 223.168 1.992
wiskott-aldrich syndrome protein family member 2 (wasp-family protein member 2) (verprolin homology domain-containing protein 2). [swissprot;acc:q9y6w5] Divided 212.546 214.611 1.00972
1974 rhesus blood group, b glycoprotein; rh type b glycoprotein. [refseq;acc:nm_020407] Subtracted 198.91 196.925 1.985
wiskott-aldrich syndrome protein family member 3 (wasp-family protein member 3) (verprolin homology domain-containing protein 3). [swissprot;acc:q9upy6] Divided 212.546 214.611 1.00972
1975 rhesus blood group-associated glycoprotein (erythrocyte plasma membrane 50 kda glycoprotein) (rh50a). [swissprot;acc:q02094] Subtracted 198.914 196.932 1.982
wiskott-aldrich syndrome protein family member 1 (wasp-family protein member 1) (verprolin homology domain-containing protein 1). [swissprot;acc:q92558] Divided 212.546 214.611 1.00972
1976 rest corepressor. [refseq;acc:nm_015156]
very-long-chain acyl-coa synthetase (ec 6.2.1.-) (very-long-chain- fatty-acid-coa ligase). [swissprot;acc:o14975] Subtracted 193.404 191.424 1.98
1977 homolog of yeast maf1. [refseq;acc:nm_032272] Divided 207.529 209.539 1.00969
solute carrier family 27 (fatty acid transporter), member 4; fatty acid transport protein 4. [refseq;acc:nm_005094] Subtracted 193.38 191.401 1.979
1978 delta(14)-sterol reductase (ec 1.3.1.70) (c-14 sterol reductase) (sterol c14-reductase) (delta14-sr) (transmembrane 7 superfamily member 2) (another new gene 1) (putative sterol reductase sr-1). [swissprot;acc:o76062] 193.39 191.411
tumor differentially expressed protein 2. [refseq;acc:nm_178865] Divided 207.529 209.539 1.00969
1979 lamin b receptor (integral nuclear envelope inner membrane protein) (lmn2r). [swissprot;acc:q14739] Subtracted 193.39 191.411 1.979

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/