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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Value Type Network Comparison Type Gene description Rank Filtered Interaction Map red green network_comparison
Results: HTML CSV LaTeX Showing element 1768 to 1817 of 3228 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1
Interaction Map  : High confidence
description
Rank
red
green
network_comparison
myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7] 21 185.678 245.247 1.32082
myotubularin-related protein 1 (ec 3.1.3.-). [swissprot;acc:q13613] 3190 0.00001 0.00001 1
myotubularin-related protein 2 (ec 3.1.3.-). [swissprot;acc:q13614] 3166
n-acetylgalactosamine kinase (ec 2.7.1.-) (galnac kinase) (galactokinase 2). [swissprot;acc:q01415] 1336 215.162 210.412 1.02257
n-acetylglucosamine kinase (ec 2.7.1.59) (glcnac kinase). [swissprot;acc:q9uj70] 3022 0.00001 0.00001 1
n-acetylglutamate synthase. [refseq;acc:nm_153006] 1616 223.179 226.611 1.01538
n-acetyllactosaminide beta-1,3-n-acetylglucosaminyltransferase (ec 2.4.1.149) (poly-n-acetyllactosamine extension enzyme) (i-beta- 1,3-n-acetylglucosaminyltransferase) (ignt) (udp-glcnac:betagal beta- 1,3-n-acetylglucosaminyltransferase 6). [swissprot;acc:o43505] 728 208.874 219.708 1.05187
n-acetyltransferase 5 (ec 2.3.1.-). [swissprot;acc:q9y6d2] 2394 221.662 220.826 1.00379
n-deacetylase/n-sulfotransferase (heparan glucosaminyl) 3. [refseq;acc:nm_004784] 1354 228.409 223.475 1.02208
n-deacetylase/n-sulfotransferase 4. [refseq;acc:nm_022569] 1355
n-myc proto-oncogene protein. [swissprot;acc:p04198] 882 227.601 219.008 1.03924
n-terminal acetyltransferase complex ard1 subunit homolog (ec 2.3.1.-). [swissprot;acc:p41227] 438 233.723 216.674 1.07869
nadh-cytochrome b5 reductase (ec 1.6.2.2) (b5r). [swissprot;acc:p00387] 1863 210.856 213.147 1.01087
nadh-ubiquinone oxidoreductase 13 kda-a subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-13kd-a) (ci-13kd-a). [swissprot;acc:o75380] 1762 233.45 230.595 1.01238
nadh-ubiquinone oxidoreductase 13 kda-b subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-13kd-b) (ci-13kd-b) (complex i subunit b13). [swissprot;acc:q16718] 3005 0.00001 0.00001 1
nadh-ubiquinone oxidoreductase 18 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-18 kda) (ci-18 kda) (complex i- aqdq) (ci-aqdq). [swissprot;acc:o43181] 119 318.982 259.004 1.23157
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] 885 227.596 219.017 1.03917
nadh-ubiquinone oxidoreductase 24 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3). [swissprot;acc:p19404] 2795 0.00001 0.00001 1
nadh-ubiquinone oxidoreductase 30 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-30kd) (ci-30kd). [swissprot;acc:o75489] 3081
nadh-ubiquinone oxidoreductase 39 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-39kd) (ci-39kd). [swissprot;acc:q16795] 2954
nadh-ubiquinone oxidoreductase 49 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3) (complex i-49kd) (ci-49kd). [swissprot;acc:o75306] 2878
nadh-ubiquinone oxidoreductase b14 subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b14) (ci-b14). [swissprot;acc:p56556] 630 214.256 202.141 1.05993
nadh-ubiquinone oxidoreductase b22 subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b22) (ci-b22). [swissprot;acc:q9y6m9] 1096 212.345 206.339 1.02911
nadh-ubiquinone oxidoreductase pdsw subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-pdsw) (ci-pdsw). [swissprot;acc:o96000] 2386 213.82 212.983 1.00393
nadh-ubiquinone oxidoreductase subunit b17.2 (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b17.2) (ci-b17.2) (cib17.2) (13 kda differentiation-associated protein). [swissprot;acc:q9ui09] 118 284.753 228.934 1.24382
nadph-cytochrome p450 reductase (ec 1.6.2.4) (cpr) (p450r). [swissprot;acc:p16435] 274 241.373 267.352 1.10763
nadph:adrenodoxin oxidoreductase, mitochondrial precursor (ec 1.18.1.2) (adrenodoxin reductase) (ar) (ferredoxin-nadp(+) reductase). [swissprot;acc:p22570] 2228 211.81 213.153 1.00634
nag14 protein. [refseq;acc:nm_022143] 2240 222.959 224.337 1.00618
nanos (fragment). [sptrembl;acc:q8wy41] 2803 0.00001 0.00001 1
nardilysin precursor (ec 3.4.24.61) (n-arginine dibasic convertase) (nrd convertase) (nrd-c). [swissprot;acc:o43847] 2633 224.891 225.195 1.00135
nascent-polypeptide-associated complex alpha polypeptide. [refseq;acc:nm_005594] 888 212.027 204.05 1.03909
necdin. [swissprot;acc:q99608] 90 88.2482 110.265 1.24949
nefa-interacting nuclear protein nip30. [refseq;acc:nm_024946] 2608 215.497 215.799 1.0014
neighbor of cox4. [swissprot;acc:o43402] 1818 220.462 217.926 1.01164
nemo-like kinase; likely ortholog of mouse nemo like kinase. [refseq;acc:nm_016231] 1060 218.162 211.648 1.03078
neural cell adhesion molecule l1 precursor (n-cam l1) (cd171 antigen). [swissprot;acc:p32004] 2740 198.278 198.321 1.00022
neural wiskott-aldrich syndrome protein (n-wasp). [swissprot;acc:o00401] 559 207.309 194.452 1.06612
neuralized-like. [refseq;acc:nm_004210] 117 332.326 266.948 1.24491
neurocalcin delta. [swissprot;acc:p29554] 1182 225.104 230.931 1.02589
neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079] 129 94 114 1.21277
neuroepithelial cell transforming gene 1; guanine nucleotide regulatory protein (oncogene); rho guanine nucleotide exchange factor (gef) 8. [refseq;acc:nm_005863] 785 244.447 233.508 1.04685
neurogenic differentiation factor 1 (neurod1) (neurod). [swissprot;acc:q13562] 333 312 284 1.09859
neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784] 329
neurogenic differentiation factor 4 (neurod4). [swissprot;acc:q9hd90] 334
neurogenic differentiation factor 6 (neurod6) (my051 protein). [swissprot;acc:q96nk8] 332
neuromedin u receptor 2. [refseq;acc:nm_020167] 2991 0.00001 0.00001 1
neuron navigator 1; neuron navigator-1; pore membrane and/or filament interacting like protein 3. [refseq;acc:nm_020443] 444 223.801 207.549 1.0783
neuron navigator 2 isoform l; retinoic acid inducible in neuroblastoma; pore membrane and/or filament interacting like protein 2; helicase helad1. [refseq;acc:nm_145117] 443 223.79 207.539
neuron navigator 3; pore membrane and/or filament interacting like protein 1; steerin 3. [refseq;acc:nm_014903] 445 223.801 207.549
neuron specific calcium-binding protein hippocalcin (p23k) (calcium- binding protein bdr-2). [swissprot;acc:p32076] 1183 225.103 230.928 1.02588

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/