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 3877 to 3926 of 6456 in total
Value Type  : Ranked
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Network Comparison Type
red
green
network_comparison
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
voltage-gated potassium channel beta-3 subunit (k+ channel beta-3 subunit) (kv-beta-3). [swissprot;acc:o43448] Divided 211.632 213.703 1.00979
1955 cyclin-dependent kinases regulatory subunit 2 (cks-2). [swissprot;acc:p33552] Subtracted 180.409 182.459 2.05
yip1 interacting factor homolog; yip1p-interacting factor; putative rab5-interacting protein; putative transmembrane protein 54tmp. [refseq;acc:nm_020470] Divided 211.633 213.703 1.00978
1956 catenin (cadherin-associated protein), alpha-like 1; alpha-catulin. [refseq;acc:nm_003798] Subtracted 180.409 182.459 2.05
voltage-gated potassium channel beta-1 subunit (k+ channel beta-1 subunit) (kv-beta-1). [swissprot;acc:q14722] Divided 211.633 213.703 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 225.019 222.969 2.05
similar to putative transmembrane protein; homolog of yeast golgi membrane protein yif1p (yip1p-interacting factor). [refseq;acc:nm_033557] Divided 211.633 213.703 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 199.883 197.835 2.048
1959 alpha/beta hydrolase domain containing protein 3; lung alpha/beta hydrolase 3. [refseq;acc:nm_138340] Divided 211.633 213.703 1.00978
lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [refseq;acc:nm_003893] Subtracted 199.883 197.835 2.048
1960 epidermal growth factor receptor precursor (ec 2.7.1.112) (receptor protein-tyrosine kinase erbb-1). [swissprot;acc:p00533] 225.019 222.971
golgi membrane protein sb140; smooth muscle cell associated protein 5. [refseq;acc:nm_030799] Divided 211.633 213.703 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 225.019 222.971 2.048
1962 lim/homeobox protein lhx4. [swissprot;acc:q969g2] 199.881 197.833
methylmalonate-semialdehyde dehydrogenase [acylating], mitochondrial precursor (ec 1.2.1.27) (mmsdh). [swissprot;acc:q02252] Divided 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
lim/homeobox protein lhx3. [swissprot;acc:q9ubr4] Subtracted 199.884 197.837 2.047

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/