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 Value Type Gene network_comparison green Rank description Interaction Map red Network Comparison Type
Results: HTML CSV LaTeX Showing element 501 to 550 of 29840 in total
Filtered  : 0
Value Type  : Measured
Interaction Map  : High confidence
network_comparison
green
Rank
description
red
Network Comparison Type
3.04255 47 34 glucosamine-6-phosphate isomerase (ec 3.5.99.6) (glucosamine-6- phosphate deaminase) (gnpda) (glcn6p deaminase) (oscillin). [swissprot;acc:p46926] 143 Divided
3.072 796.85 466 sprouty homolog 4 (spry-4). [swissprot;acc:q9c004] 793.778 Subtracted
3.15402 39.8063 33 lim domain binding 1; carboxy terminal lim domain protein 2; lim domain-binding factor-1. [refseq;acc:nm_003893] 12.6208 Divided
3.25 184 32 cell division protein kinase 8 (ec 2.7.1.-) (protein kinase k35). [swissprot;acc:p49336] 598
3.82335 111.739 30 dystrophin. [swissprot;acc:p11532] 427.217
3.901 151.122 465 alpha-nac protein. [sptrembl;acc:q9h009] 147.221 Subtracted
3.90833 434.911 29 potassium voltage-gated channel, shal-related subfamily, member 2; voltage-sensitive potassium channel; voltage-gated potassium channel kv4.2. [refseq;acc:nm_012281] 111.278 Divided
4 19 464 adp-ribosylation factor-like protein 7 (adp-ribosylation factor-like protein lak). [swissprot;acc:p56559] 23 Subtracted
4.087 150.709 463 nascent-polypeptide-associated complex alpha polypeptide. [refseq;acc:nm_005594] 146.622
4.10072 139 27 phenylethanolamine n-methyltransferase (ec 2.1.1.28) (pnmtase) (noradrenaline n-methyltransferase). [swissprot;acc:p11086] 570 Divided
28 beta-carotene dioxygenase 2; putative b,b-carotene-9',10'-dioxygenase. [refseq;acc:nm_031938]
4.3268 662 26 fatty acid desaturase 1; linoleoyl-coa desaturase (delta-6-desaturase)-like 1; delta-5 desaturase; delta-5 fatty acid desaturase. [refseq;acc:nm_013402] 153
4.687 701.071 462 survival motor neuron protein (component of gems 1) (gemin1). [swissprot;acc:q16637] 705.758 Subtracted
5.015 604.911 461 transcription initiation factor tfiid 20/15 kda subunits (tafii- 20/tafii-15) (tafii20/tafii15). [swissprot;acc:q16514] 599.896
5.22297 773 25 potential phospholipid-transporting atpase iia (ec 3.6.1.-). [swissprot;acc:o75110] 148 Divided
5.26667 158 24 ptd016 protein. [refseq;acc:nm_016125] 30
5.3334 14.3333 460 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] 19.6667 Subtracted
5.5 206.5 459 testis-specific protein tpx-1 precursor (cysteine-rich secretory protein-2) (crisp-2). [swissprot;acc:p16562] 201
6.73106 17.6611 21 syntaxin 10 (syn10). [swissprot;acc:o60499] 118.878 Divided
7.7 1310.67 458 adenylosuccinate synthase-like 1. [refseq;acc:nm_152328] 1318.37 Subtracted
8 5046.33 457 3 beta-hydroxysteroid dehydrogenase (fragments). [sptrembl;acc:q9udk8] 5038.33
8.1 226.81 456 glycerol kinase, testis specific 2 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [swissprot;acc:q14410] 218.71
8.112 227.143 455 glycerol kinase, testis specific 1 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [swissprot;acc:q14409] 219.031
8.118 227.308 454 glycerol kinase (ec 2.7.1.30) (atp:glycerol 3-phosphotransferase) (glycerokinase) (gk). [swissprot;acc:p32189] 219.19
8.821 533.236 453 protein disulfide isomerase precursor (pdi) (ec 5.3.4.1) (prolyl 4- hydroxylase beta subunit) (cellular thyroid hormone binding protein) (p55). [swissprot;acc:p07237] 524.415
9.32 219.891 452 60s ribosomal protein l14 (cag-isl 7). [swissprot;acc:p50914] 229.211
9.76 1372.31 451 dead/h (asp-glu-ala-asp/his) box polypeptide 11; dead/h box-11 (chl1-related helicase gene-1); yeast chl1 homolog. [refseq;acc:nm_030655] 1362.55
11.6763 26.1599 18 60s ribosomal protein l37a. [swissprot;acc:p12751] 305.45 Divided
19 25-hydroxyvitamin d-1 alpha hydroxylase, mitochondrial precursor (ec 1.14.-.-) (25-ohd-1 alpha-hydroxylase) (25-hydroxyvitamin d3 1- alpha-hydroxylase) (vd3 1a hydroxylase) (p450c1 alpha) (p450vd1- alpha). [swissprot;acc:o15528]
12 43 450 methyltransferase like 2. [refseq;acc:nm_018396] 31 Subtracted
13.333 546 449 protein c20orf45 (cgi-107). [swissprot;acc:q9y3b1] 532.667
13.498 156.3 448 syntaxin 1a (neuron-specific antigen hpc-1). [swissprot;acc:q16623] 142.802
13.501 485.852 447 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] 472.351
13.8767 37.4843 446 suppressor of actin 1. [refseq;acc:nm_014016] 23.6076
14 15 443 protein transport protein sec24c (sec24-related protein c). [swissprot;acc:p53992] 1
56 442 maspin precursor (protease inhibitor 5). [swissprot;acc:p36952] 42
444 serpin b11. [swissprot;acc:q96p15]
445 cytoplasmic antiproteinase 2 (cap2) (cap-2) (protease inhibitor 8) (serpin b8). [swissprot;acc:p50452]
14.077 149.371 440 forkhead box protein g1c (forkhead-related protein fkhl3) (hfk3) (fragment). [swissprot;acc:q14488] 135.294
441 interleukin-1 receptor-associated kinase 4; interleukin-1 receptor associated kinase 4. [refseq;acc:nm_016123]
14.51 1248.14 439 dihydrofolate reductase (ec 1.5.1.3). [swissprot;acc:p00374] 1262.65
14.553 161.091 438 dead (asp-glu-ala-asp) box polypeptide 47; hqp0256 protein. [refseq;acc:nm_016355] 175.644
14.8103 58 17 mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849] 859 Divided
15 15 16 protein transport protein sec24c (sec24-related protein c). [swissprot;acc:p53992] 1
15.287 476.639 437 importin 4. [refseq;acc:nm_024658] 491.926 Subtracted
15.6 156 15 succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial precursor (cybs) (succinate-ubiquinone reductase membrane anchor subunit) (qps2) (cii-4) (succinate dehydrogenase complex subunit d) (succinate-ubiquinone oxidoreductase cytochrome b small subunit). [swissprot;acc:o14521] 10 Divided
15.88 1483.62 436 ischemia/reperfusion inducible protein. [refseq;acc:nm_024640] 1467.74 Subtracted
16.74 2335.98 435 alpha-1-acid glycoprotein 2 precursor (agp 2) (orosomucoid 2) (omd 2). [swissprot;acc:p19652] 2319.24
17.27 2263.85 434 26s proteasome non-atpase regulatory subunit 12 (26s proteasome regulatory subunit p55). [swissprot;acc:o00232] 2281.12
17.465 359.98 433 guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8] 377.445

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/