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 [...,...].
Rank Gene Value Type description Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 5541 to 5590 of 12912 in total
Network Comparison Type  : Divided
Interaction Map  : High confidence
Filtered  : 1
Rank
Value Type
description
red
green
network_comparison
1386 Measured calcium/calmodulin-dependent protein kinase type ii beta chain (ec 2.7.1.123) (cam-kinase ii beta chain) (cam kinase ii beta subunit) (camk-ii beta subunit). [swissprot;acc:q13554] 6079.46 6555.41 1.07829
Ranked rho-gtpase activating protein 10. [refseq;acc:nm_020824] 218.47 213.876 1.02148
Squared early endosome antigen 1, 162kd; early endosome-associated protein. [refseq;acc:nm_003566] 19367.8 21747.4 1.12286
Rooted putative dimethylaniline monooxygenase [n-oxide forming] 6 (ec 1.14.13.8) (flavin-containing monooxygenase 6) (fmo 6) (dimethylaniline oxidase 6). [swissprot;acc:o60774] 60.9624 63.4098 1.04015
1387 Measured mitogen-activated protein kinase kinase kinase 5 (ec 2.7.1.-) (mapk/erk kinase kinase 5) (mek kinase 5) (mekk 5) (apoptosis signal- regulating kinase 1) (ask-1). [swissprot;acc:q99683] 6079.46 6555.4 1.07829
Ranked sal-like protein 1 (zinc finger protein sall1) (spalt-like transcription factor 1) (hsal1). [swissprot;acc:q9nsc2] 218.47 213.875 1.02148
Squared c-1-tetrahydrofolate synthase, cytoplasmic (c1-thf synthase) [includes: methylenetetrahydrofolate dehydrogenase (ec 1.5.1.5); methenyltetrahydrofolate cyclohydrolase (ec 3.5.4.9); formyltetrahydrofolate synthetase (ec 6.3.4.3)]. [swissprot;acc:p11586] 19336.4 21711.3 1.12282
Rooted o-sialoglycoprotein endopeptidase. [refseq;acc:nm_017807] 60.3917 62.8083 1.04002
1388 Measured lin-7 homolog b; lin-7b protein; likely ortholog of mouse lin-7b; mammalian lin-7 protein 2; likely orholog of mouse lin 7 homolog b (c. elegans). [refseq;acc:nm_022165] 5743.39 6192.94 1.07827
Ranked sal-like protein 4 (zinc finger protein sall4). [swissprot;acc:q9ujq4] 218.471 213.876 1.02148
Squared guanine nucleotide-binding protein beta subunit-like protein 12.3 (p205) (receptor of activated protein kinase c 1) (rack1) (receptor for activated c kinase). [swissprot;acc:p25388] 18314.2 20563 1.12279
Rooted dimethylaniline monooxygenase [n-oxide forming] 3 (ec 1.14.13.8) (hepatic flavin-containing monooxygenase 3) (fmo 3) (dimethylaniline oxidase 3) (fmo form 2) (fmo ii). [swissprot;acc:p31513] 60.9652 63.4052 1.04002
1389 Measured mitogen-activated protein kinase 1 (ec 2.7.1.37) (extracellular signal-regulated kinase 2) (erk-2) (mitogen-activated protein kinase 2) (map kinase 2) (mapk 2) (p42-mapk) (ert1). [swissprot;acc:p28482] 6079.13 6554.85 1.07825
Ranked 2-oxoisovalerate dehydrogenase beta subunit, mitochondrial precursor (ec 1.2.4.4) (branched-chain alpha-keto acid dehydrogenase e1 component beta chain) (bckdh e1-beta). [swissprot;acc:p21953] 218.47 213.875 1.02148
Squared zuotin related factor-1 (m-phase phosphoprotein 11). [swissprot;acc:q99543] 18314.2 20563 1.12279
Rooted ba305p22.3 (breast carcinoma amplified sequence 4). [sptrembl;acc:q8ndy6] 93.3148 89.7311 1.03994
1390 Measured receptor protein-tyrosine kinase erbb-4 precursor (ec 2.7.1.112) (p180erbb4) (tyrosine kinase-type cell surface receptor her4). [swissprot;acc:q15303] 5743.36 6192.72 1.07824
Ranked ccr4-not transcription complex, subunit 4; not4 (negative regulator of transcription 4, yeast) homolog; ccr4-not transcription complex, subunit. [refseq;acc:nm_013316] 218.47 213.875 1.02148
Squared nf-kappab inhibitor epsilon (nf-kappa-bie) (i-kappa-b-epsilon) (ikappabepsilon) (ikb-epsilon) (ikbe). [swissprot;acc:o00221] 50724.5 45178.9 1.12275
Rooted dimethylaniline monooxygenase [n-oxide forming] 2 (ec 1.14.13.8) (pulmonary flavin-containing monooxygenase 2) (fmo 2) (dimethylaniline oxidase 2) (fmo 1b1). [swissprot;acc:q99518] 60.967 63.4023 1.03994
1391 Measured epidermal growth factor receptor precursor (ec 2.7.1.112) (receptor protein-tyrosine kinase erbb-1). [swissprot;acc:p00533] 5743.36 6192.7 1.07824
Ranked phosphatidylinositol-binding clathrin assembly protein (clathrin assembly lymphoid myeloid leukemia protein). [swissprot;acc:q13492] 218.47 213.875 1.02148
Squared estradiol 17 beta-dehydrogenase 4 (ec 1.1.1.62) (17-beta-hsd 4) (17-beta-hydroxysteroid dehydrogenase 4). [swissprot;acc:p51659] 26751.5 30026.4 1.12242
Rooted dimethylaniline monooxygenase [n-oxide forming] 1 (ec 1.14.13.8) (fetal hepatic flavin-containing monooxygenase 1) (fmo 1) (dimethylaniline oxidase 1). [swissprot;acc:q01740] 60.9674 63.4016 1.03993
1392 Measured 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] 5743.36 6192.7 1.07824
Ranked clathrin coat assembly protein ap180 (clathrin coat associated protein ap180) (91 kda synaptosomal-associated protein). [swissprot;acc:o60641] 218.471 213.876 1.02148
Squared brachyury protein (t protein). [swissprot;acc:o15178] 27044.4 30348.7 1.12218
Rooted basic helix-loop-helix domain containing, class b, 5; trinucleotide repeat containing 20. [refseq;acc:nm_152414] 93.2947 89.7137 1.03992
1393 Measured 2-hydroxyphytanoyl-coa lyase (ec 4.1.-.-) (2-hpcl) (hspc279). [swissprot;acc:q9uj83] 5743.36 6192.72 1.07824
Ranked membrane-associated nucleic acid binding protein. [refseq;acc:nm_018835] 218.47 213.875 1.02148
Squared t-box transcription factor tbx19 (t-box protein 19). [swissprot;acc:o60806] 27044.4 30348.7 1.12218
Rooted dimethylaniline monooxygenase [n-oxide forming] 4 (ec 1.14.13.8) (hepatic flavin-containing monooxygenase 4) (fmo 4) (dimethylaniline oxidase 4). [swissprot;acc:p31512] 60.968 63.4008 1.0399
1394 Measured receptor protein-tyrosine kinase erbb-3 precursor (ec 2.7.1.112) (c-erbb3) (tyrosine kinase-type cell surface receptor her3). [swissprot;acc:p21860] 5743.36 6192.72 1.07824
Ranked polypyrimidine tract-binding protein 1 (ptb) (heterogeneous nuclear ribonucleoprotein i) (hnrnp i) (57 kda rna-binding protein pptb-1). [swissprot;acc:p26599] 218.47 213.875 1.02148
Squared alpha-centractin (centractin) (centrosome-associated actin homolog) (actin-rpv) (arp1). [swissprot;acc:p42024] 23215.1 26051.5 1.12218
Rooted ubiquitin. [swissprot;acc:p02248] 68.9499 71.7002 1.03989
1395 Measured lin-7 homolog c; lin-7 protein 3. [refseq;acc:nm_018362] 5743.26 6191.96 1.07813
Ranked growth-arrest-specific protein 7 (gas-7). [swissprot;acc:o60861] 218.47 213.876 1.02148
Squared beta-centractin (actin-related protein 1b) (arp1b). [swissprot;acc:p42025] 23215.1 26051.5 1.12218
Rooted 26s proteasome non-atpase regulatory subunit 2 (26s proteasome regulatory subunit s2) (26s proteasome subunit p97) (tumor necrosis factor type 1 receptor associated protein 2) (55.11 protein). [swissprot;acc:q13200] 65.478 68.0886 1.03987
1396 Measured g-rich sequence factor-1 (grsf-1). [swissprot;acc:q12849] 5803.54 6256.54 1.07806
Ranked eyes absent homolog 1. [swissprot;acc:q99502] 218.463 213.872 1.02147
Squared 26s proteasome non-atpase regulatory subunit 6 (26s proteasome regulatory subunit s10) (p42a) (proteasome regulatory particle subunit p44s10). [swissprot;acc:q15008] 27408.7 30747.3 1.12181
Rooted arginyl-trna synthetase-like; arginine-trna ligase. [refseq;acc:nm_020320] 69.8799 72.6645 1.03985
1397 Measured heterogeneous nuclear ribonucleoprotein f (hnrnp f). [swissprot;acc:p52597] 5803.27 6256.23 1.07805
Ranked 40s ribosomal protein s8. [swissprot;acc:p09058] 218.64 214.049 1.02145
Squared b-cell lymphoma 3-encoded protein (bcl-3 protein). [swissprot;acc:p20749] 50598.8 45106.3 1.12177
Rooted histone h4. [swissprot;acc:p02304] 60.8298 63.2514 1.03981
1398 Measured heterogeneous nuclear ribonucleoprotein h (hnrnp h). [swissprot;acc:p31943] 5803.12 6256.05 1.07805
Ranked eyes absent homolog 4. [swissprot;acc:o95677] 218.449 213.864 1.02144

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/