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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description Rank Gene Filtered Network Comparison Type network_comparison green Interaction Map Value Type red
Results: HTML CSV LaTeX Showing element 501 to 550 of 9634 in total
Network Comparison Type  : Divided
Value Type  : Measured
description
Rank
Filtered
network_comparison
green
Interaction Map
red
actin-related protein 6 (harp6) (harpx) (cda12). [swissprot;acc:q9gzn1] 4236 1 1.01996 8388.41 Low confidence 8224.26
actin-related protein 8. [swissprot;acc:q9h981] 4140 1.02092 7441.89 7289.4
activated p21cdc42hs kinase. [refseq;acc:nm_005781] 1055 1.09279 5198.91 High confidence 4757.46
2089 1.03178 7935.53 Low confidence 7691.09
activated rna polymerase ii transcriptional coactivator p15 (pc4) (p14). [swissprot;acc:p53999] 2793 1.02916 8265.89 8031.65
activator 1 140 kda subunit (replication factor c large subunit) (a1 140 kda subunit) (rf-c 140 kda subunit) (activator 1 large subunit) (dna-binding protein po-ga). [swissprot;acc:p35251] 2758 1.02926 8311.1 8074.81
activator of basal transcription 1; tata-binding protein-binding protein; basal transcriptional activator. [refseq;acc:nm_013375] 1146 1.08858 6837.61 High confidence 6281.21
3141 1.02749 8196.72 Low confidence 7977.41
activator of camp-responsive element modulator (crem) in testis; lim protein act. [refseq;acc:nm_020482] 2435 1.03501 3797.78 High confidence 3669.33
4485 1.01888 7812.25 Low confidence 7667.47
activin a receptor, type ic; activin receptor-like kinase 7. [refseq;acc:nm_145259] 2141 1.03165 8139.78 7890.09
2160 1.05218 5660.25 High confidence 5379.55
activin receptor type i precursor (ec 2.7.1.37) (actr-i) (serine/threonine-protein kinase receptor r1) (skr1) (activin receptor-like kinase 2) (alk-2) (tgf-b superfamily receptor type i) (tsr-i). [swissprot;acc:q04771] 2173 1.03153 8157.25 Low confidence 7907.92
3050 1 0.00001 High confidence 0.00001
acyl carrier protein, mitochondrial precursor (acp) (nadh-ubiquinone oxidoreductase 9.6 kda subunit) (ci-sdap). [swissprot;acc:o14561] 1917 1.06246 7287.27 6858.84
3446 1.0263 8454.36 Low confidence 8237.69
acyl-coa dehydrogenase, medium-chain specific, mitochondrial precursor (ec 1.3.99.3) (mcad). [swissprot;acc:p11310] 1865 1.03266 8206.59 7947.06
2612 1.01498 6476.19 High confidence 6380.61
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] 44 0 2.16837 98.5074 45.4292
87 1.5886 81.6539 Low confidence 129.715
1620 1 1.07104 6743.85 High confidence 6296.52
2125 1.0317 8171.2 Low confidence 7920.13
acyl-coa dehydrogenase, very-long-chain specific, mitochondrial precursor (ec 1.3.99.-) (vlcad). [swissprot;acc:p49748] 380 1.16461 15138.2 High confidence 12998.5
482 1.04947 8763.72 Low confidence 8350.58
acyl-coa desaturase (ec 1.14.19.1) (stearoyl-coa desaturase) (fatty acid desaturase) (delta(9)-desaturase). [swissprot;acc:o00767] 4214 1.0202 8124.86 7963.96
acyl-coa-binding protein (acbp) (diazepam binding inhibitor) (dbi) (endozepine) (ep). [swissprot;acc:p07108] 2985 1.0281 8214.14 7989.61
acyl-coenzyme a oxidase 1, peroxisomal (ec 1.3.3.6) (palmitoyl-coa oxidase) (aox). [swissprot;acc:q15067] 2035 1.05706 7315.59 High confidence 6920.71
2984 1.0281 8214.14 Low confidence 7989.61
acyl-coenzyme a oxidase 2, peroxisomal (ec 1.3.3.6) (branched-chain acyl-coa oxidase) (brcacox) (trihydroxycoprostanoyl-coa oxidase) (thccox) (thca-coa oxidase). [swissprot;acc:q99424] 2154 1.05268 7247.36 High confidence 6884.69
2842 1.02885 8445.14 Low confidence 8208.35
acyl-coenzyme a oxidase 3, peroxisomal (ec 1.3.3.6) (pristanoyl-coa oxidase). [swissprot;acc:o15254] 3985 1.02246 8307.41 8124.9
ad-003 protein. [refseq;acc:nm_014064] 3343 1.02664 8118.72 7908.04
ad023 protein. [refseq;acc:nm_020679] 3093 1.02772 8223.41 8001.62
ad037 protein isoform a. [refseq;acc:nm_032023] 2727 1.02942 8131.4 7899.01
ad24 protein. [refseq;acc:nm_022451] 445 1.14978 4315.95 High confidence 3753.71
3097 1.02768 8174.68 Low confidence 7954.48
adam-ts related protein 1 isoform 1; adam-ts related protein 1; thrombospondin; punctin. [refseq;acc:nm_139238] 2288 1.03114 8176.98 7930.03
adam-tsl3 precursor (fragment). [sptrembl;acc:p82987] 2298 1.03111 8176.24 7929.54
adamts-9 precursor (ec 3.4.24.-) (a disintegrin and metalloproteinase with thrombospondin motifs 9) (adam-ts 9) (adam-ts9). [swissprot;acc:q9p2n4] 1530 1.07344 6350.53 High confidence 5916.05
2177 1.0315 8180.02 Low confidence 7930.22
adapter-related protein complex 1 beta 1 subunit (beta-adaptin 1) (adaptor protein complex ap-1 beta-1 subunit) (golgi adaptor ha1/ap1 adaptin beta subunit) (clathrin assembly protein complex 1 beta large chain). [swissprot;acc:q10567] 1048 1.03771 8016.23 7724.96
2064 1.05632 5861.31 High confidence 5548.79
adapter-related protein complex 1 gamma 1 subunit (gamma-adaptin) (adaptor protein complex ap-1 gamma-1 subunit) (golgi adaptor ha1/ap1 adaptin gamma-1 subunit) (clathrin assembly protein complex 1 gamma-1 large chain). [swissprot;acc:o43747] 1158 1.0367 7977.35 Low confidence 7694.94
2059 1.0564 5865.84 High confidence 5552.69
adapter-related protein complex 1 gamma 2 subunit (gamma2-adaptin) (adaptor protein complex ap-1 gamma-2 subunit) (g2ad). [swissprot;acc:o75843] 1125 1.03697 7972.75 Low confidence 7688.48
2062 1.0564 5865.85 High confidence 5552.7
adapter-related protein complex 1 sigma 1a subunit (sigma-adaptin 1a) (adaptor protein complex ap-1 sigma-1a subunit) (golgi adaptor ha1/ap1 adaptin sigma-1a subunit) (clathrin assembly protein complex 1 sigma- 1a small chain) (clathrin coat assembly protein ap19) (ha1 19 kda subunit) (sigma 1a subunit of ap-1 clathrin). [swissprot;acc:q00382] 1564 1.03379 8092.26 Low confidence 7827.75
2061 1.0564 5865.84 High confidence 5552.69
adapter-related protein complex 1 sigma 1b subunit (sigma-adaptin 1b) (adaptor protein complex ap-1 sigma-1b subunit) (golgi adaptor ha1/ap1 adaptin sigma-1b subunit) (clathrin assembly protein complex 1 sigma- 1b small chain) (sigma 1b subunit of ap-1 clathrin) (dc22). [swissprot;acc:p56377] 60 0 1.8441 87.5499 47.4756
534 1.05495 740.494 Low confidence 781.187

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/