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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Gene Rank description Value Type Network Comparison Type Filtered Interaction Map network_comparison green red
Results: HTML CSV LaTeX Showing element 3180 to 3229 of 9634 in total
Value Type  : Measured
Network Comparison Type  : Divided
Filtered  : 1
Rank
description
Interaction Map
network_comparison
green
red
918 nadp-dependent malic enzyme (ec 1.1.1.40) (nadp-me) (malic enzyme 1). [swissprot;acc:p48163] Low confidence 1.03924 8609.86 8284.79
scratch; scratch 1. [refseq;acc:nm_031309] High confidence 1.09888 8001.64 7281.6
919 limbic system-associated membrane protein precursor (lsamp). [swissprot;acc:q13449] 1.09878 5929.41 5396.36
proto-oncogene tyrosine-protein kinase fer (ec 2.7.1.112) (p94-fer) (c-fer). [swissprot;acc:p16591] Low confidence 1.03922 7652.4 7363.63
920 dj850e9.1 (novel c2h2 type zinc finger protein similar to drosophila scratch (scrt), slug and xenopus snail) (fragment). [sptrembl;acc:q9nq03] High confidence 1.0987 7991.72 7273.78
proto-oncogene tyrosine-protein kinase fes/fps (ec 2.7.1.112) (c-fes). [swissprot;acc:p07332] Low confidence 1.03921 7652.73 7363.99
921 60s ribosomal protein l29 (cell surface heparin binding protein hip). [swissprot;acc:p47914] 7652.55 7363.79
translation initiation factor if-2, mitochondrial precursor (if-2mt) (if-2(mt)). [swissprot;acc:p46199] High confidence 1.0987 6948.5 6324.31
922 tubulin-tyrosine ligase. [refseq;acc:nm_153712] 1.09862 6054.71 5511.2
xpa-binding protein 2 (hcnp protein) (pp3898). [swissprot;acc:q9hcs7] Low confidence 1.03918 8300.91 7987.95
923 eukaryotic translation initiation factor 3 subunit 8 (eif3 p110) (eif3c). [swissprot;acc:q99613] High confidence 1.09861 4457.66 4057.54
glycogenin-1 (ec 2.4.1.186). [swissprot;acc:p46976] Low confidence 1.03915 8506.98 8186.49
924 opioid binding protein/cell adhesion molecule precursor (obcam) (opioid-binding cell adhesion molecule) (opcml). [swissprot;acc:q14982] High confidence 1.09857 5939.42 5406.5
syndecan-3 (synd3). [swissprot;acc:o75056] Low confidence 1.03912 9404.18 9050.12
925 my016 protein. [sptrembl;acc:q9h3k6] 1.03909 8726.39 8398.07
[pyruvate dehydrogenase [lipoamide]] kinase isozyme 1, mitochondrial precursor (ec 2.7.1.99) (pyruvate dehydrogenase kinase isoform 1). [swissprot;acc:q15118] High confidence 1.09856 6193.07 5637.43
926 tyrosine-protein kinase frk (ec 2.7.1.112) (nuclear tyrosine protein kinase rak). [swissprot;acc:p42685] Low confidence 1.03905 8366.23 8051.79
[pyruvate dehydrogenase [lipoamide]] kinase isozyme 2, mitochondrial precursor (ec 2.7.1.99) (pyruvate dehydrogenase kinase isoform 2). [swissprot;acc:q15119] High confidence 1.09856 6193.08 5637.45
927 apurinic/apyrimidinic endonuclease 2; apurinic/apyrimidinic endonuclease-like 2; apex nuclease-like 2. [refseq;acc:nm_014481] Low confidence 1.03902 8318.27 8005.86
dipeptidylpeptidase 10; dipeptidyl peptidase iv-related protein 3. [refseq;acc:nm_020868] High confidence 1.09853 6194.22 5638.64
928 cytochrome c oxidase assembly protein cox11, mitochondrial precursor. [swissprot;acc:q9y6n1] 6194.04 5638.46
junctional adhesion molecule 1 precursor (jam) (platelet adhesion molecule 1) (pam-1) (platelet f11 receptor). [swissprot;acc:q9y624] Low confidence 1.03902 8610.75 8287.37
929 citrate synthase, mitochondrial precursor (ec 2.3.3.1). [swissprot;acc:o75390] 8385.43 8070.54
surfeit locus protein 1. [swissprot;acc:q15526] High confidence 1.09853 6194.04 5638.46
930 dipeptidyl aminopeptidase-like protein 6 (dipeptidylpeptidase vi) (dipeptidylpeptidase 6) (dipeptidyl peptidase iv like protein) (dipeptidyl aminopeptidase-related protein) (dppx). [swissprot;acc:p42658] 6194.23 5638.65
elongation factor ts, mitochondrial precursor (ef-ts) (ef-tsmt). [swissprot;acc:p43897] Low confidence 1.039 8237.48 7928.24
931 acidic leucine-rich nuclear phosphoprotein 32 family member c (tumorigenic protein pp32r1). [swissprot;acc:o43423] 1.03899 7935.35 7637.56
seprase (ec 3.4.21.-) (fibroblast activation protein alpha) (integral membrane serine protease) (170-kda melanoma membrane-bound gelatinase). [swissprot;acc:q12884] High confidence 1.09853 6194.17 5638.59
932 acidic leucine-rich nuclear phosphoprotein 32 family member a (potent heat-stable protein phosphatase 2a inhibitor i1pp2a) (hla-dr associated protein i) (phapi) (acidic nuclear phosphoprotein pp32) (cerebellar leucine rich acidic nuclear protein). [swissprot;acc:p39687] Low confidence 1.03899 7935.35 7637.56
cox15 homolog isoform 2 precursor; cytochrome c oxidase subunit 15; cytochrome c oxidase assembly protein. [refseq;acc:nm_004376] High confidence 1.09853 6194.04 5638.46
933 acidic leucine-rich nuclear phosphoprotein 32 family member d (tumorigenic protein pp32r2). [swissprot;acc:o95626] Low confidence 1.03899 7935.35 7637.56
protoheme ix farnesyltransferase, mitochondrial precursor (ec 2.5.1.-) (heme o synthase). [swissprot;acc:q12887] High confidence 1.09853 6194.04 5638.46
934 general vesicular transport factor p115 (transcytosis associated protein) (tap) (vesicle docking protein). [swissprot;acc:o60763] Low confidence 1.03899 7935.35 7637.56
[3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial precursor (ec 2.7.1.115) (branched-chain alpha-ketoacid dehydrogenase kinase) (bckdhkin) (bckd-kinase). [swissprot;acc:o14874] High confidence 1.0985 6195.52 5640
935 acidic leucine-rich nuclear phosphoprotein 32 family member b (phapi2 protein) (silver-stainable protein ssp29) (acidic protein rich in leucines). [swissprot;acc:q92688] Low confidence 1.03899 7935.35 7637.56
neurotrimin precursor (hnt). [swissprot;acc:q9p121] High confidence 1.09842 5946.46 5413.63
936 bromodomain containing 8; thyroid hormone receptor coactivating protein; skeletal muscle abundant protein. [refseq;acc:nm_006696] Low confidence 1.03899 7935.35 7637.56
nif3-like protein 1 (amyotrophic lateral sclerosis 2 chromosomal region candidate gene protein 1) (my018 protein) (mds015). [swissprot;acc:q9gzt8] High confidence 1.09811 6180.37 5628.21
937 nucleobindin 1 precursor (calnuc). [swissprot;acc:q02818] 1.09776 6432.03 5859.25
protein x 0001. [refseq;acc:nm_016302] Low confidence 1.03895 8534.22 8214.28
938 dna mismatch repair protein mlh1 (mutl protein homolog 1). [swissprot;acc:p40692] High confidence 1.09776 6432.03 5859.25
hiv tat specific factor 1; cofactor required for tat activation of hiv-1 transcription. [refseq;acc:nm_014500] Low confidence 1.03891 8053.37 7751.77
939 mannose-6-phosphate isomerase (ec 5.3.1.8) (phosphomannose isomerase) (pmi) (phosphohexomutase). [swissprot;acc:p34949] 1.0389 8783.33 8454.45
nucleobindin 2 precursor (dna-binding protein nefa). [swissprot;acc:p80303] High confidence 1.09776 6432.03 5859.25
940 adenosylhomocysteinase (ec 3.3.1.1) (s-adenosyl-l-homocysteine hydrolase) (adohcyase). [swissprot;acc:p23526] 1.09775 6113.35 5568.96
nocturnin (ccr4 protein homolog). [swissprot;acc:q9uk39] Low confidence 1.0389 7863.85 7569.42
941 caax prenyl protease 1 homolog (ec 3.4.24.-) (prenyl protein-specific endoprotease 1) (farnesylated-proteins converting enzyme 1) (face-1) (zinc metalloproteinase ste24 homolog). [swissprot;acc:o75844] High confidence 1.09761 5455.34 4970.21
transcription factor ap-2 alpha (ap2-alpha) (activating enhancer- binding protein 2 alpha) (ap-2 transcription factor) (activator protein-2) (ap-2). [swissprot;acc:p05549] Low confidence 1.0389 8332.09 8020.09
942 mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849] 8783.33 8454.45
phosphoglycerate kinase, testis specific (ec 2.7.2.3). [swissprot;acc:p07205] High confidence 1.09747 7240.64 6597.56

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/