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.


Navigation/Query Panel:
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 [...,...].
Rank Gene description Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 3908 to 3957 of 8289 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1
Rank
description
Interaction Map
red
green
network_comparison
1954 voltage-gated potassium channel beta-3 subunit (k+ channel beta-3 subunit) (kv-beta-3). [swissprot;acc:o43448] High confidence 211.632 213.703 1.00979
1955 probable atp-dependent rna helicase p54 (oncogene rck) (dead-box protein 6). [swissprot;acc:p26196] Low confidence 199.603 195.761 1.01963
yip1 interacting factor homolog; yip1p-interacting factor; putative rab5-interacting protein; putative transmembrane protein 54tmp. [refseq;acc:nm_020470] High confidence 211.633 213.703 1.00978
1956 rw1 protein (fragment). [swissprot;acc:q92545] Low confidence 199.603 195.761 1.01963
voltage-gated potassium channel beta-1 subunit (k+ channel beta-1 subunit) (kv-beta-1). [swissprot;acc:q14722] High confidence 211.633 213.703 1.00978
1957 similar to putative transmembrane protein; homolog of yeast golgi membrane protein yif1p (yip1p-interacting factor). [refseq;acc:nm_033557]
sorting nexin 13 (rgs domain- and phox domain-containing protein) (rgs-px1). [swissprot;acc:q9y5w8] Low confidence 204.481 200.546 1.01962
1958 aflatoxin b1 aldehyde reductase 2 (ec 1.-.-.-) (afb1-ar 2). [swissprot;acc:o95154] High confidence 211.633 213.703 1.00978
arginyl-trna synthetase-like; arginine-trna ligase. [refseq;acc:nm_020320] Low confidence 200.858 196.994 1.01961
1959 alpha/beta hydrolase domain containing protein 3; lung alpha/beta hydrolase 3. [refseq;acc:nm_138340] High confidence 211.633 213.703 1.00978
dihydrolipoamide succinyltransferase component of 2-oxoglutarate dehydrogenase complex, mitochondrial precursor (ec 2.3.1.61) (e2) (e2k). [swissprot;acc:p36957] Low confidence 200.486 196.63 1.01961
1960 golgi membrane protein sb140; smooth muscle cell associated protein 5. [refseq;acc:nm_030799] High confidence 211.633 213.703 1.00978
myb-related protein a (a-myb). [swissprot;acc:p10243] Low confidence 202.325 198.435 1.0196
1961 alpha/beta hydrolase domain containing protein 1 isoform 2; lung alpha/beta hydrolase protein 1. [refseq;acc:nm_152870] High confidence 211.633 213.703 1.00978
myb-related protein b (b-myb). [swissprot;acc:p10244] Low confidence 202.338 198.448 1.0196
1962 argininosuccinate lyase (ec 4.3.2.1) (arginosuccinase) (asal). [swissprot;acc:p04424] 194.702 190.961 1.01959
methylmalonate-semialdehyde dehydrogenase [acylating], mitochondrial precursor (ec 1.2.1.27) (mmsdh). [swissprot;acc:q02252] High confidence 211.632 213.702 1.00978
1963 10 kda heat shock protein, mitochondrial (hsp10) (10 kda chaperonin) (cpn10). [swissprot;acc:q04984] 211.633 213.703
eukaryotic initiation factor 4a-i (eif-4a-i) (eif4a-i). [swissprot;acc:p04765] Low confidence 201.642 197.768 1.01959
1964 latrophilin 3; latrophilin homolog 3 (cow); lectomedin 3. [refseq;acc:nm_015236] 194.702 190.961
rab acceptor 1 (prenylated); prenylated rab acceptor 1. [refseq;acc:nm_006423] High confidence 211.633 213.703 1.00978
1965 alpha adducin (erythrocyte adducin alpha subunit). [swissprot;acc:p35611] 224.432 222.258
eukaryotic initiation factor 4a-like nuk-34. [swissprot;acc:p38919] Low confidence 201.491 197.62 1.01959
1966 latrophilin 2; lectomedin-1; latrophilin homolog 2 (cow). [refseq;acc:nm_012302] 194.702 190.961
oligoribonuclease, mitochondrial precursor (ec 3.1.-.-) (small fragment nuclease) (cgi-114). [swissprot;acc:q9y3b8] High confidence 211.633 213.703 1.00978
1967 choline o-acetyltransferase (ec 2.3.1.6) (choactase) (choline acetylase) (chat). [swissprot;acc:p28329] 211.632 213.702
dna mismatch repair protein msh3 (divergent upstream protein) (dup) (mismatch repair protein 1) (mrp1). [swissprot;acc:p20585] Low confidence 202.178 198.294 1.01959
1968 latrophilin 1; lectomedin-2; latrophilin homolog 1 (cow). [refseq;acc:nm_014921] 194.702 190.961
voltage-gated potassium channel beta-2 subunit (k+ channel beta-2 subunit) (kv-beta-2) (hkvbeta2). [swissprot;acc:q13303] High confidence 211.633 213.703 1.00978
1969 aflatoxin b1 aldehyde reductase 1 (ec 1.-.-.-) (afb1-ar 1) (aldoketoreductase 7). [swissprot;acc:o43488]
suppressor of fused. [refseq;acc:nm_016169] Low confidence 203.16 199.259 1.01958
1970 importin alpha-6 subunit (karyopherin alpha-5 subunit). [swissprot;acc:o15131] High confidence 211.62 213.683 1.00975
serine/threonine protein kinase mask; ste20-like kinase mst4. [refseq;acc:nm_016542] Low confidence 200.291 196.449 1.01956
1971 creatine kinase, m chain (ec 2.7.3.2) (m-ck). [swissprot;acc:p06732] High confidence 198.258 196.346 1.00974
myb proto-oncogene protein (c-myb). [swissprot;acc:p10242] Low confidence 202.328 198.446 1.01956
1972 pef protein with a long n-terminal hydrophobic domain (peflin). [refseq;acc:nm_012392] 203.882 199.972 1.01955
regucalcin gene promotor region related protein; rgpr-p117. [refseq;acc:nm_033127] High confidence 219.777 217.659 1.00973
1973 homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774] Low confidence 214 209.896 1.01955
wiskott-aldrich syndrome protein family member 2 (wasp-family protein member 2) (verprolin homology domain-containing protein 2). [swissprot;acc:q9y6w5] High confidence 214.611 212.546 1.00972
1974 serine/threonine protein kinase 25 (ec 2.7.1.37) (sterile 20/oxidant stress-response kinase 1) (ste20/oxidant stress response kinase-1) (sok-1) (ste20-like kinase). [swissprot;acc:o00506] Low confidence 200.302 196.461 1.01955
wiskott-aldrich syndrome protein family member 3 (wasp-family protein member 3) (verprolin homology domain-containing protein 3). [swissprot;acc:q9upy6] High confidence 214.611 212.546 1.00972
1975 fyve finger-containing phosphoinositide kinase (ec 2.7.1.68) (1- phosphatidylinositol-4-phosphate 5-kinase) (pip5k) (ptdins(4)p-5- kinase) (p235) (fragment). [swissprot;acc:q9y2i7] Low confidence 194.796 191.061 1.01955
wiskott-aldrich syndrome protein family member 1 (wasp-family protein member 1) (verprolin homology domain-containing protein 1). [swissprot;acc:q92558] High confidence 214.611 212.546 1.00972
1976 hira protein (tup1 like enhancer of split protein 1). [swissprot;acc:p54198] Low confidence 196.815 193.041 1.01955
rest corepressor. [refseq;acc:nm_015156] High confidence 214.611 212.546 1.00972
1977 homolog of yeast maf1. [refseq;acc:nm_032272] 209.539 207.529 1.00969
tripartite motif protein 2. [swissprot;acc:q9c040] Low confidence 201.225 197.368 1.01954
1978 protocadherin 15 precursor. [swissprot;acc:q96qu1] 202.117 198.246 1.01953
tumor differentially expressed protein 2. [refseq;acc:nm_178865] High confidence 209.539 207.529 1.00969
1979 aspartyl aminopeptidase (ec 3.4.11.21). [swissprot;acc:q9ula0] Low confidence 194.278 190.557 1.01953

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/