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.


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 3232 to 3281 of 6456 in total
Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1
Rank
description
Network Comparison Type
red
green
network_comparison
1616 mitochondrial precursor proteins import receptor (translocase of outer membrane tom70). [swissprot;acc:o94826] Divided 6035.6 6464.5 1.07106
1617 lim homeobox transcription factor 1 beta (lim/homeobox protein lmx1b) (lim-homeobox protein 1.2) (lmx-1.2). [swissprot;acc:o60663]
microtubule-associated protein, rp/eb family, member 2; t-cell activation protein, eb1 family; apc-binding protein eb1. [refseq;acc:nm_014268] Subtracted 6298.76 6722.61 423.85
1618 microtubule-associated protein rp/eb family member 3 (protein eb3). [swissprot;acc:q9upy8] 6298.77 6722.62
proteasome subunit beta type 2 (ec 3.4.25.1) (proteasome component c7-i) (macropain subunit c7-i) (multicatalytic endopeptidase complex subunit c7-i). [swissprot;acc:p49721] Divided 6035.6 6464.5 1.07106
1619 adp-ribosylation factor-like protein 1. [swissprot;acc:p40616]
histidine-rich membrane protein ke4. [swissprot;acc:q92504] Subtracted 6298.81 6722.65 423.84
1620 acyl-coa dehydrogenase, short/branched chain specific, mitochondrial precursor (ec 1.3.99.-) (sbcad) (2-methyl branched chain acyl-coa dehydrogenase) (2-mebcad) (2-methylbutyryl-coenzyme a dehydrogenase) (2-methylbutyryl-coa dehydrogenase). [swissprot;acc:p45954] Divided 6296.52 6743.85 1.07104
microtubule-associated protein rp/eb family member 1 (apc-binding protein eb1). [swissprot;acc:q15691] Subtracted 6298.81 6722.65 423.84
1621 doublecortin (lissencephalin-x) (lis-x) (doublin). [swissprot;acc:o43602] 6301.03 6724.63 423.6
sterile alpha and tir motif containing 1; sterile alpha and heat/armadillo motif protein, ortholog of drosophila. [refseq;acc:nm_015077] Divided 5520.36 5911.98 1.07094
1622 26s protease regulatory subunit 7 (mss1 protein). [swissprot;acc:p35998] Subtracted 5783.97 6207.5 423.53
phospholipase d1 (ec 3.1.4.4) (pld 1) (choline phosphatase 1) (phosphatidylcholine-hydrolyzing phospholipase d1) (hpld1). [swissprot;acc:q13393] Divided 6153.79 6589.52 1.07081
1623 protein phosphatase 1, regulatory (inhibitor) subunit 12b isoform a; myosin phosphatase regulatory subunit; myosin phosphatase, target subunit 2. [refseq;acc:nm_002481] Subtracted 5846.67 6269.41 422.74
transitional endoplasmic reticulum atpase (ter atpase) (15s mg(2+)- atpase p97 subunit) (valosin containing protein) (vcp) [contains: valosin]. [swissprot;acc:p55072] Divided 6449.02 6905.56 1.07079
1624 protein phosphatase 1, regulatory (inhibitor) subunit 12a; myosin phosphatase, target subunit 1. [refseq;acc:nm_002480] Subtracted 5845.22 6267.34 422.12
similar to zinc finger protein 277. [sptrembl;acc:q8wwa6] Divided 4102.1 4392.15 1.07071
1625 26s proteasome non-atpase regulatory subunit 7 (26s proteasome regulatory subunit s12) (proteasome subunit p40) (mov34 protein homolog). [swissprot;acc:p51665] Subtracted 5851.64 6273.4 421.76
zinc finger protein 277. [swissprot;acc:q9nrm2] Divided 4102.1 4392.15 1.07071
1626 phospholipase d2 (ec 3.1.4.4) (pld 2) (choline phosphatase 2) (phosphatidylcholine-hydrolyzing phospholipase d2) (pld1c) (hpld2). [swissprot;acc:o14939] 6157.13 6591.53 1.07055
ribonuclease hi large subunit (ec 3.1.26.-) (rnase hi large subunit) (rnase h(35)) (ribonuclease h2) (rnase h2). [swissprot;acc:o75792] Subtracted 6075.19 6496.61 421.42
1627 6-phosphogluconolactonase (ec 3.1.1.31) (6pgl). [swissprot;acc:o95336] Divided 6038.46 6463.9 1.07046
probable ribosome biogenesis protein nep1 (c2f protein). [swissprot;acc:q92979] Subtracted 4076.72 4497.74 421.02
1628 26s protease regulatory subunit 6b (mip224) (mb67 interacting protein) (tat-binding protein-7) (tbp-7). [swissprot;acc:p43686] 5822.25 6242.94 420.69
glycine cleavage system h protein, mitochondrial precursor. [swissprot;acc:p23434] Divided 5920.55 6337.28 1.07039
1629 dimeric dihydrodiol dehydrogenase; 3-deoxyglucosone reductase. [refseq;acc:nm_014475] 6158.32 6590.99 1.07026
gc-rich sequence dna-binding factor homolog. [swissprot;acc:q9y5b6] Subtracted 6088.07 6508.45 420.38
1630 c-terminal binding protein 2 (ctbp2). [swissprot;acc:p56545] Divided 9903.22 9253.79 1.07018
toll-like receptor 2 precursor (toll/interleukin 1 receptor-like protein 4). [swissprot;acc:o60603] Subtracted 6088.07 6508.45 420.38
1631 brachyury protein (t protein). [swissprot;acc:o15178] Divided 6179.59 6613.15 1.07016
traf and tnf receptor-associated protein; ets1-associated protein 2. [refseq;acc:nm_016614] Subtracted 5819.37 6239.55 420.18
1632 26s proteasome non-atpase regulatory subunit 13 (26s proteasome regulatory subunit s11) (26s proteasome regulatory subunit p40.5). [swissprot;acc:q9unm6] 5858.48 6278.32 419.84
t-box transcription factor tbx19 (t-box protein 19). [swissprot;acc:o60806] Divided 6179.59 6613.15 1.07016
1633 26s proteasome non-atpase regulatory subunit 12 (26s proteasome regulatory subunit p55). [swissprot;acc:o00232] Subtracted 5842.44 6261.87 419.43
b-cell cll/lymphoma 6, member b (zinc finger protein); zinc finger protein 62. [refseq;acc:nm_181844] Divided 9899.79 9251.2 1.07011
1634 26s proteasome non-atpase regulatory subunit 11 (26s proteasome regulatory subunit s9) (26s proteasome regulatory subunit p44.5). [swissprot;acc:o00231] Subtracted 5853.1 6271.79 418.69
pas domain containing serine/threonine kinase; pas-serine/threonine kinase. [refseq;acc:nm_015148] Divided 9899.73 9251.16 1.07011
1635 b-cell lymphoma 6 protein (bcl-6) (zinc finger protein 51) (laz-3 protein) (bcl-5). [swissprot;acc:p41182]
endothelial-derived gene 1. [refseq;acc:nm_025205] Subtracted 6399.54 6818.17 418.63
1636 cop9 complex subunit 4; likely ortholog of mouse cop9 (constitutive photomorphogenic), subunit 4 (arabidopsis); cop9 (constitutive photomorphogenic, arabidopsis, homolog) subunit 4. [refseq;acc:nm_016129] 6988.29 7406.53 418.24
zinc finger protein slug (neural crest transcription factor slug) (snail homolog 2). [swissprot;acc:o43623] Divided 9899.73 9251.16 1.07011
1637 ketohexokinase (ec 2.7.1.3) (hepatic fructokinase). [swissprot;acc:p50053] Subtracted 5450.9 5869.07 418.17
proteasome subunit alpha type 6 (ec 3.4.25.1) (proteasome iota chain) (macropain iota chain) (multicatalytic endopeptidase complex iota chain) (27 kda prosomal protein) (pros-27) (p27k). [swissprot;acc:p34062] Divided 6112.4 6540.73 1.07008
1638 c-terminal binding protein 1 (ctbp1). [swissprot;acc:q13363] 9895.77 9248.18 1.07002
purine nucleoside phosphorylase (ec 2.4.2.1) (inosine phosphorylase) (pnp). [swissprot;acc:p00491] Subtracted 5450.9 5869.07 418.17
1639 nicotinamide nucleotide adenylyltransferase 3; pyridine nucleotide adenylyltransferase 3. [refseq;acc:nm_178177] 5573.64 5991.58 417.94
putative inorganic polyphosphate/atp-nad kinase (ec 2.7.1.23) (poly(p)/atp nad kinase). [swissprot;acc:o95544] Divided 5939.71 6354.79 1.06988
1640 adenylosuccinate lyase (ec 4.3.2.2) (adenylosuccinase) (asl) (asase). [swissprot;acc:p30566] 7444.28 7964 1.06981
delta 1-pyrroline-5-carboxylate synthetase (p5cs) [includes: glutamate 5-kinase (ec 2.7.2.11) (gamma-glutamyl kinase) (gk); gamma-glutamyl phosphate reductase (gpr) (ec 1.2.1.41) (glutamate-5-semialdehyde dehydrogenase) (glutamyl-gamma-semialdehyde dehydrogenase)]. [swissprot;acc:p54886] Subtracted 5573.64 5991.58 417.94
1641 ba271b5.1 (similar to ribosomal protein s7). [sptrembl;acc:q9h1s9] Divided 5782.92 6186.39 1.06977

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/