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

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.


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description Rank Gene Network Comparison Type Filtered green network_comparison 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
green
network_comparison
Interaction Map
red
actin-related protein 6 (harp6) (harpx) (cda12). [swissprot;acc:q9gzn1] 4236 1 8388.41 1.01996 Low confidence 8224.26
actin-related protein 8. [swissprot;acc:q9h981] 4140 7441.89 1.02092 7289.4
activated p21cdc42hs kinase. [refseq;acc:nm_005781] 1055 5198.91 1.09279 High confidence 4757.46
2089 7935.53 1.03178 Low confidence 7691.09
activated rna polymerase ii transcriptional coactivator p15 (pc4) (p14). [swissprot;acc:p53999] 2793 8265.89 1.02916 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 8311.1 1.02926 8074.81
activator of basal transcription 1; tata-binding protein-binding protein; basal transcriptional activator. [refseq;acc:nm_013375] 1146 6837.61 1.08858 High confidence 6281.21
3141 8196.72 1.02749 Low confidence 7977.41
activator of camp-responsive element modulator (crem) in testis; lim protein act. [refseq;acc:nm_020482] 2435 3797.78 1.03501 High confidence 3669.33
4485 7812.25 1.01888 Low confidence 7667.47
activin a receptor, type ic; activin receptor-like kinase 7. [refseq;acc:nm_145259] 2141 8139.78 1.03165 7890.09
2160 5660.25 1.05218 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 8157.25 1.03153 Low confidence 7907.92
3050 0.00001 1 High confidence 0.00001
acyl carrier protein, mitochondrial precursor (acp) (nadh-ubiquinone oxidoreductase 9.6 kda subunit) (ci-sdap). [swissprot;acc:o14561] 1917 7287.27 1.06246 6858.84
3446 8454.36 1.0263 Low confidence 8237.69
acyl-coa dehydrogenase, medium-chain specific, mitochondrial precursor (ec 1.3.99.3) (mcad). [swissprot;acc:p11310] 1865 8206.59 1.03266 7947.06
2612 6476.19 1.01498 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 98.5074 2.16837 45.4292
87 81.6539 1.5886 Low confidence 129.715
1620 1 6743.85 1.07104 High confidence 6296.52
2125 8171.2 1.0317 Low confidence 7920.13
acyl-coa dehydrogenase, very-long-chain specific, mitochondrial precursor (ec 1.3.99.-) (vlcad). [swissprot;acc:p49748] 380 15138.2 1.16461 High confidence 12998.5
482 8763.72 1.04947 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 8124.86 1.0202 7963.96
acyl-coa-binding protein (acbp) (diazepam binding inhibitor) (dbi) (endozepine) (ep). [swissprot;acc:p07108] 2985 8214.14 1.0281 7989.61
acyl-coenzyme a oxidase 1, peroxisomal (ec 1.3.3.6) (palmitoyl-coa oxidase) (aox). [swissprot;acc:q15067] 2035 7315.59 1.05706 High confidence 6920.71
2984 8214.14 1.0281 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 7247.36 1.05268 High confidence 6884.69
2842 8445.14 1.02885 Low confidence 8208.35
acyl-coenzyme a oxidase 3, peroxisomal (ec 1.3.3.6) (pristanoyl-coa oxidase). [swissprot;acc:o15254] 3985 8307.41 1.02246 8124.9
ad-003 protein. [refseq;acc:nm_014064] 3343 8118.72 1.02664 7908.04
ad023 protein. [refseq;acc:nm_020679] 3093 8223.41 1.02772 8001.62
ad037 protein isoform a. [refseq;acc:nm_032023] 2727 8131.4 1.02942 7899.01
ad24 protein. [refseq;acc:nm_022451] 445 4315.95 1.14978 High confidence 3753.71
3097 8174.68 1.02768 Low confidence 7954.48
adam-ts related protein 1 isoform 1; adam-ts related protein 1; thrombospondin; punctin. [refseq;acc:nm_139238] 2288 8176.98 1.03114 7930.03
adam-tsl3 precursor (fragment). [sptrembl;acc:p82987] 2298 8176.24 1.03111 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 6350.53 1.07344 High confidence 5916.05
2177 8180.02 1.0315 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 8016.23 1.03771 7724.96
2064 5861.31 1.05632 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 7977.35 1.0367 Low confidence 7694.94
2059 5865.84 1.0564 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 7972.75 1.03697 Low confidence 7688.48
2062 5865.85 1.0564 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 8092.26 1.03379 Low confidence 7827.75
2061 5865.84 1.0564 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 87.5499 1.8441 47.4756
534 740.494 1.05495 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/