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