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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Value Type Network Comparison Type Gene description Rank Filtered Interaction Map red network_comparison green
Results: HTML CSV LaTeX Showing element 1775 to 1824 of 3228 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1
Interaction Map  : High confidence
description
Rank
red
network_comparison
green
n-acetyltransferase 5 (ec 2.3.1.-). [swissprot;acc:q9y6d2] 2394 221.662 1.00379 220.826
n-deacetylase/n-sulfotransferase (heparan glucosaminyl) 3. [refseq;acc:nm_004784] 1354 228.409 1.02208 223.475
n-deacetylase/n-sulfotransferase 4. [refseq;acc:nm_022569] 1355
n-myc proto-oncogene protein. [swissprot;acc:p04198] 882 227.601 1.03924 219.008
n-terminal acetyltransferase complex ard1 subunit homolog (ec 2.3.1.-). [swissprot;acc:p41227] 438 233.723 1.07869 216.674
nadh-cytochrome b5 reductase (ec 1.6.2.2) (b5r). [swissprot;acc:p00387] 1863 210.856 1.01087 213.147
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 1.01238 230.595
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 1 0.00001
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 1.23157 259.004
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 1.03917 219.017
nadh-ubiquinone oxidoreductase 24 kda subunit, mitochondrial precursor (ec 1.6.5.3) (ec 1.6.99.3). [swissprot;acc:p19404] 2795 0.00001 1 0.00001
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 1.05993 202.141
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 1.02911 206.339
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 1.00393 212.983
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 1.24382 228.934
nadph-cytochrome p450 reductase (ec 1.6.2.4) (cpr) (p450r). [swissprot;acc:p16435] 274 241.373 1.10763 267.352
nadph:adrenodoxin oxidoreductase, mitochondrial precursor (ec 1.18.1.2) (adrenodoxin reductase) (ar) (ferredoxin-nadp(+) reductase). [swissprot;acc:p22570] 2228 211.81 1.00634 213.153
nag14 protein. [refseq;acc:nm_022143] 2240 222.959 1.00618 224.337
nanos (fragment). [sptrembl;acc:q8wy41] 2803 0.00001 1 0.00001
nardilysin precursor (ec 3.4.24.61) (n-arginine dibasic convertase) (nrd convertase) (nrd-c). [swissprot;acc:o43847] 2633 224.891 1.00135 225.195
nascent-polypeptide-associated complex alpha polypeptide. [refseq;acc:nm_005594] 888 212.027 1.03909 204.05
necdin. [swissprot;acc:q99608] 90 88.2482 1.24949 110.265
nefa-interacting nuclear protein nip30. [refseq;acc:nm_024946] 2608 215.497 1.0014 215.799
neighbor of cox4. [swissprot;acc:o43402] 1818 220.462 1.01164 217.926
nemo-like kinase; likely ortholog of mouse nemo like kinase. [refseq;acc:nm_016231] 1060 218.162 1.03078 211.648
neural cell adhesion molecule l1 precursor (n-cam l1) (cd171 antigen). [swissprot;acc:p32004] 2740 198.278 1.00022 198.321
neural wiskott-aldrich syndrome protein (n-wasp). [swissprot;acc:o00401] 559 207.309 1.06612 194.452
neuralized-like. [refseq;acc:nm_004210] 117 332.326 1.24491 266.948
neurocalcin delta. [swissprot;acc:p29554] 1182 225.104 1.02589 230.931
neuroendocrine differentiation factor; comparative gene identification transcript 149. [refseq;acc:nm_016079] 129 94 1.21277 114
neuroepithelial cell transforming gene 1; guanine nucleotide regulatory protein (oncogene); rho guanine nucleotide exchange factor (gef) 8. [refseq;acc:nm_005863] 785 244.447 1.04685 233.508
neurogenic differentiation factor 1 (neurod1) (neurod). [swissprot;acc:q13562] 333 312 1.09859 284
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 1 0.00001
neuron navigator 1; neuron navigator-1; pore membrane and/or filament interacting like protein 3. [refseq;acc:nm_020443] 444 223.801 1.0783 207.549
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 1.02588 230.928
neuronal acetylcholine receptor protein, alpha-2 chain precursor. [swissprot;acc:q15822] 1272 171.231 1.02425 167.177
neuronal acetylcholine receptor protein, alpha-3 chain precursor. [swissprot;acc:p32297] 1276
neuronal acetylcholine receptor protein, alpha-4 chain precursor. [swissprot;acc:p43681] 1275
neuronal acetylcholine receptor protein, alpha-6 chain precursor. [swissprot;acc:q15825] 1268
neuronal acetylcholine receptor protein, alpha-7 chain precursor. [swissprot;acc:p36544] 465 248.152 1.07686 267.226
neuronal calcium sensor 1 (ncs-1) (frequenin homolog) (frequenin-like protein) (frequenin-like ubiquitous protein). [swissprot;acc:p36610] 1367 223.887 1.02194 228.799
neuronal kinesin heavy chain (nkhc) (kinesin heavy chain isoform 5a) (kinesin heavy chain neuron-specific 1). [swissprot;acc:q12840] 2484 218.093 1.00287 218.72

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/