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 1751 to 1800 of 8289 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1
Rank
description
Interaction Map
red
green
network_comparison
876 5'-amp-activated protein kinase, catalytic alpha-1 chain (ec 2.7.1.-) (ampk alpha-1 chain). [swissprot;acc:q13131] High confidence 212.002 203.954 1.03946
gamma-butyrobetaine,2-oxoglutarate dioxygenase (ec 1.14.11.1) (gamma-butyrobetaine hydroxylase) (gamma-bbh). [swissprot;acc:o75936] Low confidence 203.744 198.658 1.0256
877 5'-amp-activated protein kinase, beta-2 subunit (ampk beta-2 chain). [swissprot;acc:o43741] High confidence 212.002 203.954 1.03946
probable atp-dependent helicase ddx35 (deah-box protein 35). [swissprot;acc:q9h5z1] Low confidence 205.571 200.44 1.0256
878 5'-amp-activated protein kinase, gamma-3 subunit (ampk gamma-3 chain) (ampk gamma3). [swissprot;acc:q9ugi9] High confidence 212.002 203.954 1.03946
potential phospholipid-transporting atpase ih (ec 3.6.3.1) (atpase class i type 11a) (atpase is). [swissprot;acc:p98196] Low confidence 203.744 198.658 1.0256
879 3-hydroxyisobutyryl-coenzyme a hydrolase. [refseq;acc:nm_014362] 203.354 198.284 1.02557
5'-amp-activated protein kinase, beta-1 subunit (ampk beta-1 chain) (ampkb). [swissprot;acc:q9y478] High confidence 212.002 203.954 1.03946
880 5'-amp-activated protein kinase, gamma-2 subunit (ampk gamma-2 chain) (ampk gamma2) (h91620p). [swissprot;acc:q9ugj0]
ribonucleoside-diphosphate reductase m2 chain (ec 1.17.4.1) (ribonucleotide reductase small chain). [swissprot;acc:p31350] Low confidence 201.49 196.469 1.02556
881 l-myc-1 proto-oncogene protein. [swissprot;acc:p12524] High confidence 227.604 219.001 1.03928
max protein. [swissprot;acc:p25912] Low confidence 204.973 199.865 1.02556
882 n-myc proto-oncogene protein. [swissprot;acc:p04198] High confidence 227.601 219.008 1.03924
syntaxin 1a (neuron-specific antigen hpc-1). [swissprot;acc:q16623] Low confidence 210.979 205.723 1.02555
883 ga binding protein alpha chain (gabp-alpha subunit) (transcription factor e4tf1-60) (nuclear respiratory factor-2 subunit alpha). [swissprot;acc:q06546] High confidence 227.596 219.017 1.03917
nadh-ubiquinone oxidoreductase mlrq subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-mlrq) (ci-mlrq). [swissprot;acc:o00483] Low confidence 202.572 197.533 1.02551
884 ga binding protein beta-2 chain (gabp-beta-2 subunit) (transcription factor e4tf1-47) (gapbp-2) (nuclear respiratory factor-2 subunit gamma). [swissprot;acc:q06545] High confidence 227.596 219.017 1.03917
nadh:ubiquinone oxidoreductase mlrq subunit homolog (nuoms). [swissprot;acc:q9nrx3] Low confidence 202.572 197.533 1.02551
885 cdc5-like; cdc5 (cell division cycle 5, s. pombe, homolog)-like; cell division cycle 5, s. pombe, homolog-like; cdc5-related protein. [refseq;acc:nm_001253]
nadh-ubiquinone oxidoreductase 23 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-23kd) (ci-23kd) (tyky subunit). [swissprot;acc:o00217] High confidence 227.596 219.017 1.03917
886 dna ligase iv (ec 6.5.1.1) (polydeoxyribonucleotide synthase [atp]). [swissprot;acc:p49917] Low confidence 202.568 197.535 1.02548
elongation of very long chain fatty acids protein 1 (cgi-88). [swissprot;acc:q9bw60] High confidence 227.596 219.018 1.03917
887 eukaryotic translation initiation factor 4e (eif-4e) (eif4e) (mrna cap-binding protein) (eif-4f 25 kda subunit). [swissprot;acc:p06730] Low confidence 202.277 197.255 1.02546
transducin beta-like 3; wd-repeat protein sazd. [refseq;acc:nm_006453] High confidence 244.155 234.96 1.03913
888 eukaryotic translation initiation factor 4e binding protein 2; eukaryotic translation initiation factor-4e binding protein-1. [refseq;acc:nm_004096] Low confidence 202.277 197.255 1.02546
nascent-polypeptide-associated complex alpha polypeptide. [refseq;acc:nm_005594] High confidence 212.027 204.05 1.03909
889 alpha-nac protein. [sptrembl;acc:q9h009] 212.028 204.053 1.03908
eukaryotic translation initiation factor 4e binding protein 3; eukaryotic initiation factor 4e-binding protein 3. [refseq;acc:nm_003732] Low confidence 202.277 197.255 1.02546
890 bai1-associated protein 3; bai-associated protein 3. [refseq;acc:nm_003933]
syntaxin 7. [swissprot;acc:o15400] High confidence 217.181 209.012 1.03908
891 eukaryotic peptide chain release factor subunit 1 (erf1) (eukaryotic release factor 1) (tb3-1) (c11 protein). [swissprot;acc:p46055] Low confidence 203.493 198.443 1.02545
small gtp-binding tumor suppressor 1. [refseq;acc:nm_145173] High confidence 212.028 204.055 1.03907
892 di-ras2. [refseq;acc:nm_017594]
hamartin (tuberous sclerosis 1 protein). [swissprot;acc:q92574] Low confidence 202.488 197.465 1.02544
893 myc proto-oncogene protein (c-myc). [swissprot;acc:p01106] High confidence 227.585 219.037 1.03903
ribonucleotide reductase m2 b (tp53 inducible); p53-inducible ribonucleotide reductase small subunit 2 homolog. [refseq;acc:nm_015713] Low confidence 201.434 196.441 1.02542
894 phenylalanyl-trna synthetase alpha chain (ec 6.1.1.20) (phenylalanine- -trna ligase alpha chain) (phers) (cml33). [swissprot;acc:q9y285] High confidence 217.491 209.323 1.03902
rab gdp dissociation inhibitor alpha (rab gdi alpha) (gdi-1) (xap-4) (oligophrenin 2). [swissprot;acc:p31150] Low confidence 204.25 199.19 1.0254
895 glutaredoxin 2; cgi-133 protein. [refseq;acc:nm_016066] 203.861 198.812
phenylalanine-trna synthetase. [refseq;acc:nm_006567] High confidence 217.491 209.323 1.03902
896 collagen alpha 2(vi) chain precursor. [swissprot;acc:p12110] Low confidence 205.315 200.235 1.02537
dna-directed rna polymerase ii 13.3 kda polypeptide (ec 2.7.7.6) (rpb11). [swissprot;acc:p52435] High confidence 230.811 239.785 1.03888
897 3-phosphoinositide dependent protein kinase-1 (ec 2.7.1.37) (hpdk1). [swissprot;acc:o15530] 272.878 283.472 1.03882
pescadillo homolog 1. [swissprot;acc:o00541] Low confidence 202.55 197.54 1.02536
898 60s acidic ribosomal protein p1. [swissprot;acc:p05386] High confidence 229.171 238.048 1.03874
wiskott-aldrich syndrome protein (wasp). [swissprot;acc:p42768] Low confidence 198.379 193.474 1.02535
899 kynureninase (ec 3.7.1.3) (l-kynurenine hydrolase). [swissprot;acc:q16719] 190.965 186.246 1.02534
thioredoxin domain-containing 2; sperm-specific thioredoxin; thioredoxin domain-containing 2 (spermatozoa). [refseq;acc:nm_032243] High confidence 229.171 238.048 1.03874
900 blood group rh(d) polypeptide (rhesus d antigen) (rhxiii) (rh polypeptide 2) (rhpii). [swissprot;acc:q02161] Low confidence 201.015 196.054 1.0253
thioredoxin (atl-derived factor) (adf) (surface associated sulphydryl protein) (sasp). [swissprot;acc:p10599] High confidence 229.171 238.048 1.03874

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/