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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Filtered green Value Type Gene description network_comparison Interaction Map red Rank Network Comparison Type
Results: HTML CSV LaTeX Showing element 501 to 550 of 38536 in total
Filtered  : 0
Network Comparison Type  : Divided
green
Value Type
description
network_comparison
Interaction Map
red
Rank
12.7411 Rooted synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296] 1.73139 Low confidence 7.3589 31
12.753 selenoprotein t. [swissprot;acc:q9nzj3] 1.24434 10.2488 120
12.7728 mitochondrial carrier protein mgc4399. [refseq;acc:nm_032315] 1.04784 12.1897 540
12.8712 cln3 protein (battenin) (batten disease protein). [swissprot;acc:q13286] 1.02033 13.1329 697
12.8903 60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914] 1.03648 High confidence 13.3606 384
12.9333 transcription factor dp-1 (e2f dimerization partner 1) (drtf1- polypeptide-1) (drtf1). [swissprot;acc:q14186] 1.12923 Low confidence 14.6047 205
12.9538 alpha 2 globin. [refseq;acc:nm_000517] 1.41698 18.3553 67
12.9627 hemoglobin gamma-a and gamma-g chains. [swissprot;acc:p02096] 1.41651 18.3618 68
12.9659 myoglobin. [swissprot;acc:p02144] 1.41635 18.3642 69
13.034 f-actin capping protein alpha-2 subunit (capz alpha-2). [swissprot;acc:p47755] 1.22258 High confidence 10.6611 124
13.1421 Squared alpha-nac protein. [sptrembl;acc:q9h009] 1.08499 12.1126 390
13.1443 nascent-polypeptide-associated complex alpha polypeptide. [refseq;acc:nm_005594] 1.08826 12.0783 387
13.1909 Rooted cab2. [refseq;acc:nm_033419] 1319090 0.00001 93
13.3054 cg4853 gene product. [refseq;acc:nm_145313] 1.17432 Low confidence 15.6248 147
13.373 rab gdp dissociation inhibitor alpha (rab gdi alpha) (gdi-1) (xap-4) (oligophrenin 2). [swissprot;acc:p31150] 1.02724 High confidence 13.7373 433
13.4012 cyclin h (mo15-associated protein) (p37) (p34). [swissprot;acc:p51946] 1.01149 Low confidence 13.5552 760
13.448 Squared mitochondrial 28s ribosomal protein s6 (mrp-s6). [swissprot;acc:p82932] 2.55866 34.4089 83
13.4716 Rooted piwi-like 2; miwi like. [refseq;acc:nm_018068] 1.15887 15.6118 164
13.5207 cartilage oligomeric matrix protein precursor (comp). [swissprot;acc:p49747] 1.38596 High confidence 18.7392 69
13.5494 protein transport protein sec24c (sec24-related protein c). [swissprot;acc:p53992] 1.11829 Low confidence 15.1522 224
13.5647 cell division protein kinase 8 (ec 2.7.1.-) (protein kinase k35). [swissprot;acc:p49336] 1.80277 High confidence 24.454 40
13.6105 testis-specific protein tpx-1 precursor (cysteine-rich secretory protein-2) (crisp-2). [swissprot;acc:p16562] 1.35766 10.025 76
13.6518 espin. [refseq;acc:nm_031475] 1.11204 Low confidence 15.1813 344
13.7156 poly(rc)-binding protein 2 (alpha-cp2) (hnrnp-e2). [swissprot;acc:q15366] 1.08451 12.6468 405
13.7907 estrogen-related receptor gamma (estrogen receptor related protein 3) (err gamma-2). [swissprot;acc:o75454] 1.10039 15.1752 358
13.8207 Squared testis-specific protein tpx-1 precursor (cysteine-rich secretory protein-2) (crisp-2). [swissprot;acc:p16562] 1.38377 High confidence 19.1247 218
13.8963 Rooted tbp-associated factor 9l; neuronal cell death-related protein; taf9-like rna polymerase ii, tata box binding protein (tbp)-associated factor, 31 kd; neuronal cell death-related gene in neuron-7; transcription associated factor tafii31l; transcription initiation factor iid, 31kd subunit. [refseq;acc:nm_015975] 1.03439 13.4343 394
13.9084 importin 4. [refseq;acc:nm_024658] 1.17928 16.4019 143
13.9284 gaba-a receptor-associated protein. [sptrembl;acc:q9by60] 1.12149 15.6205 232
14.0846 myosin vi. [swissprot;acc:q9um54] 1.2322 17.3551 121
Low confidence 123
14.1963 transcription factor mafk (erythroid transcription factor nf-e2 p18 subunit). [swissprot;acc:o60675] 1.09552 High confidence 12.9585 267
14.2577 transcription factor mafg (v-maf musculoaponeurotic fibrosarcoma oncogene homolog g) (hmaf). [swissprot;acc:o15525] 1.09465 13.0249 268
14.3004 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] 1.13534 Low confidence 16.2358 195
14.3151 maguk p55 subfamily member 2 (mpp2 protein) (discs, large homolog 2). [swissprot;acc:q14168] 1.11026 High confidence 12.8935 246
14.3181 dynactin 1 (150 kda dynein-associated polypeptide) (dp-150) (dap-150) (p150-glued) (p135). [swissprot;acc:q14203] 1.02893 Low confidence 14.7323 637
14.3236 stromal membrane-associated protein; stromal membrane-associated protein smap1a. [refseq;acc:nm_021940] 1.12835 16.162 208
14.3333 Measured 4-aminobutyrate aminotransferase, mitochondrial precursor (ec 2.6.1.19) (gamma-amino-n-butyrate transaminase) (gaba transaminase) (gaba aminotransferase) (gaba-at) (gaba-t). [swissprot;acc:p80404] 1.3721 High confidence 19.6667 121
14.4058 Rooted potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281] 1.82337 7.90063 39
Low confidence 25
14.4887 dynamin-like 120 kda protein, mitochondrial precursor (optic atrophy 1 gene protein). [swissprot;acc:o60313] 1.35259 19.5973 84
14.4914 helicase/primase complex protein. [refseq;acc:nm_138336] 1.16292 16.8523 159
14.5086 basic proline-rich peptide p-e (ib-9). [swissprot;acc:p02811] 1.05434 High confidence 15.297 332
14.5738 estrogen-related receptor gamma (estrogen receptor related protein 3) (err gamma-2). [swissprot;acc:o75454] 1.26912 18.4959 115
14.6565 glycerol kinase (ec 2.7.1.30) (atp:glycerol 3-phosphotransferase) (glycerokinase) (gk). [swissprot;acc:p32189] 1.08063 Low confidence 15.8382 408
14.6595 glycerol kinase, testis specific 1 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [swissprot;acc:q14409] 1.07978 15.829 410
14.6672 glycerol kinase, testis specific 2 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [swissprot;acc:q14410] 1.07735 15.8017 419
14.6994 f-actin capping protein alpha-2 subunit (capz alpha-2). [swissprot;acc:p47755] 1.16915 17.1858 152
14.7003 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8] 1.05005 High confidence 15.4361 349
14.7392 elongation factor ts, mitochondrial precursor (ef-ts) (ef-tsmt). [swissprot;acc:p43897] 1.67654 8.79142 45

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/