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 description Network Comparison Type Value Type Interaction Map Filtered green red network_comparison
Results: HTML CSV LaTeX Showing element 3858 to 3907 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Network Comparison Type
green
red
network_comparison
1929 enigma protein; lim domain protein. [refseq;acc:nm_005451] Divided 217.574 219.753 1.01001
1930 blood group rh(ce) polypeptide (rhesus c/e antigens) (rh30a) (rhixb) (rh polypeptide 1) (rhpi). [swissprot;acc:p18577] 198.935 196.964
golgi membrane protein sb140; smooth muscle cell associated protein 5. [refseq;acc:nm_030799] Subtracted 213.703 211.633 2.07
1931 alpha/beta hydrolase domain containing protein 1 isoform 2; lung alpha/beta hydrolase protein 1. [refseq;acc:nm_152870]
eukaryotic translation initiation factor 3 subunit 7 (eif-3 zeta) (eif3 p66) (eif3d). [swissprot;acc:o15371] Divided 217.574 219.753 1.01001
1932 blood group rh(ce) polypeptide (rhesus c/e antigens) (rh30a) (rhixb) (rh polypeptide 1) (rhpi). [swissprot;acc:p18577] 198.936 196.965
methylmalonate-semialdehyde dehydrogenase [acylating], mitochondrial precursor (ec 1.2.1.27) (mmsdh). [swissprot;acc:q02252] Subtracted 213.702 211.632 2.07
1933 10 kda heat shock protein, mitochondrial (hsp10) (10 kda chaperonin) (cpn10). [swissprot;acc:q04984] 213.703 211.633
ornithine carbamoyltransferase, mitochondrial precursor (ec 2.1.3.3) (otcase) (ornithine transcarbamylase). [swissprot;acc:p00480] Divided 217.82 215.667 1.00998
1934 gamma adducin (adducin-like protein 70). [swissprot;acc:q9uey8] 222.055 224.264 1.00995
rab acceptor 1 (prenylated); prenylated rab acceptor 1. [refseq;acc:nm_006423] Subtracted 213.703 211.633 2.07
1935 abhydrolase domain containing protein 2 (protein phps1-2). [swissprot;acc:p08910] Divided 216.279 218.43 1.00995
oligoribonuclease, mitochondrial precursor (ec 3.1.-.-) (small fragment nuclease) (cgi-114). [swissprot;acc:q9y3b8] Subtracted 213.703 211.633 2.07
1936 choline o-acetyltransferase (ec 2.3.1.6) (choactase) (choline acetylase) (chat). [swissprot;acc:p28329] 213.702 211.632
creatine kinase, sarcomeric mitochondrial precursor (ec 2.7.3.2) (s- mtck) (mib-ck) (basic-type mitochondrial creatine kinase). [swissprot;acc:p17540] Divided 196.347 198.3 1.00995
1937 quaking isoform 6. [sptrembl;acc:q9p0x9] 216.279 218.43
voltage-gated potassium channel beta-2 subunit (k+ channel beta-2 subunit) (kv-beta-2) (hkvbeta2). [swissprot;acc:q13303] Subtracted 213.703 211.633 2.07
1938 aflatoxin b1 aldehyde reductase 1 (ec 1.-.-.-) (afb1-ar 1) (aldoketoreductase 7). [swissprot;acc:o43488]
creatine kinase, ubiquitous mitochondrial precursor (ec 2.7.3.2) (u- mtck) (mia-ck) (acidic-type mitochondrial creatine kinase). [swissprot;acc:p12532] Divided 196.341 198.293 1.00994
1939 e1a binding protein p400; p400 swi2/snf2-related protein; cagh32 protein; trinucleotide repeat containing 12. [refseq;acc:nm_015409] Subtracted 217.193 219.26 2.067
peptidyl prolyl isomerase h; cyclophilin h. [refseq;acc:nm_006347] Divided 196.319 198.258 1.00988
1940 creatine kinase, b chain (ec 2.7.3.2) (b-ck). [swissprot;acc:p12277] 196.252 198.19
mitochondrial ribosomal protein l24. [refseq;acc:nm_024540] Subtracted 217.193 219.26 2.067
1941 65 kda yes-associated protein (yap65). [swissprot;acc:p46937]
prp18 pre-mrna processing factor 18 homolog. [refseq;acc:nm_003675] Divided 196.319 198.258 1.00988
1942 9 kda protein. [swissprot;acc:p13994] Subtracted 217.193 219.26 2.067
j domain protein c21orf55. [swissprot;acc:q9nx36] Divided 196.319 198.257 1.00987
1943 collagen alpha 3(iv) chain precursor (goodpasture antigen). [swissprot;acc:q01955] Subtracted 217.195 219.261 2.066
megf11 protein. [refseq;acc:nm_032445] Divided 222.147 224.34 1.00987
1944 collagen alpha 5(iv) chain precursor. [swissprot;acc:p29400] Subtracted 217.194 219.26 2.066
megf10 protein. [refseq;acc:nm_032446] Divided 222.148 224.341 1.00987
1945 beta adducin (erythrocyte adducin beta subunit). [swissprot;acc:p35612] 222.151 224.343
transcriptional co-activator with pdz-binding motif (taz). [refseq;acc:nm_015472] Subtracted 217.194 219.26 2.066
1946 nuclear factor, interleukin 3 regulated. [refseq;acc:nm_005384] Divided 212.142 214.234 1.00986
wiskott-aldrich syndrome protein family member 2 (wasp-family protein member 2) (verprolin homology domain-containing protein 2). [swissprot;acc:q9y6w5] Subtracted 212.546 214.611 2.065
1947 protein phosphatase inhibitor 2 (ipp-2). [swissprot;acc:p41236] Divided 127.083 125.845 1.00984
wiskott-aldrich syndrome protein family member 3 (wasp-family protein member 3) (verprolin homology domain-containing protein 3). [swissprot;acc:q9upy6] Subtracted 212.546 214.611 2.065
1948 15 kda selenoprotein precursor. [swissprot;acc:o60613] Divided 212.432 214.522 1.00984
wiskott-aldrich syndrome protein family member 1 (wasp-family protein member 1) (verprolin homology domain-containing protein 1). [swissprot;acc:q92558] Subtracted 212.546 214.611 2.065
1949 rest corepressor. [refseq;acc:nm_015156]
rna-binding protein with multiple splicing (rbp-ms). [swissprot;acc:q93062] Divided 216.663 218.794 1.00984
1950 importin alpha-6 subunit (karyopherin alpha-5 subunit). [swissprot;acc:o15131] Subtracted 213.683 211.62 2.063
vacuolar protein sorting 18 (hvps18). [swissprot;acc:q9p253] Divided 213.747 215.847 1.00982
1951 trna isopentenylpyrophosphate transferase. [refseq;acc:nm_017646] 203.873 205.876
zasp protein (fragment). [sptrembl;acc:q9y4z3] Subtracted 217.207 219.267 2.06
1952 importin alpha-1 subunit (karyopherin alpha-1 subunit) (srp1-beta) (rag cohort protein 2) (nucleoprotein interactor 1) (npi-1). [swissprot;acc:p52294] Divided 213.724 211.647 1.00981
receptor protein-tyrosine kinase erbb-4 precursor (ec 2.7.1.112) (p180erbb4) (tyrosine kinase-type cell surface receptor her4). [swissprot;acc:q15303] Subtracted 222.969 225.019 2.05
1953 solute carrier family 4 (anion exchanger), member 1, adaptor protein; kidney anion exchanger adaptor protein; kanadaptin; lung cancer oncogene 3. [refseq;acc:nm_018158] 182.459 180.409
type 1 protein phosphatase inhibitor. [refseq;acc:nm_025210] Divided 127.146 125.912 1.0098
1954 2-hydroxyphytanoyl-coa lyase (ec 4.1.-.-) (2-hpcl) (hspc279). [swissprot;acc:q9uj83] Subtracted 222.969 225.019 2.05

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/