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Items: 1 to 20 of 21

1.

Analysis of temporal transcription expression profiles reveal links between protein function and developmental stages of Drosophila melanogaster.

Wan C, Lees JG, Minneci F, Orengo CA, Jones DT.

PLoS Comput Biol. 2017 Oct 18;13(10):e1005791. doi: 10.1371/journal.pcbi.1005791. eCollection 2017 Oct.

2.

Effects of Gene Dose, Chromatin, and Network Topology on Expression in Drosophila melanogaster.

Lee H, Cho DY, Whitworth C, Eisman R, Phelps M, Roote J, Kaufman T, Cook K, Russell S, Przytycka T, Oliver B.

PLoS Genet. 2016 Sep 6;12(9):e1006295. doi: 10.1371/journal.pgen.1006295. eCollection 2016 Sep.

3.

Putative synaptic genes defined from a Drosophila whole body developmental transcriptome by a machine learning approach.

Pazos Obregón F, Papalardo C, Castro S, Guerberoff G, Cantera R.

BMC Genomics. 2015 Sep 15;16:694. doi: 10.1186/s12864-015-1888-3.

4.

SIFTER search: a web server for accurate phylogeny-based protein function prediction.

Sahraeian SM, Luo KR, Brenner SE.

Nucleic Acids Res. 2015 Jul 1;43(W1):W141-7. doi: 10.1093/nar/gkv461. Epub 2015 May 15.

5.

Biochemical functional predictions for protein structures of unknown or uncertain function.

Mills CL, Beuning PJ, Ondrechen MJ.

Comput Struct Biotechnol J. 2015 Feb 18;13:182-91. doi: 10.1016/j.csbj.2015.02.003. eCollection 2015. Review.

6.

Inference of the oxidative stress network in Anopheles stephensi upon Plasmodium infection.

Shrinet J, Nandal UK, Adak T, Bhatnagar RK, Sunil S.

PLoS One. 2014 Dec 4;9(12):e114461. doi: 10.1371/journal.pone.0114461. eCollection 2014.

7.

Wnt pathway activation increases hypoxia tolerance during development.

Gersten M, Zhou D, Azad P, Haddad GG, Subramaniam S.

PLoS One. 2014 Aug 5;9(8):e103292. doi: 10.1371/journal.pone.0103292. eCollection 2014.

8.

In Vivo RNAi-Based Screens: Studies in Model Organisms.

Yamamoto-Hino M, Goto S.

Genes (Basel). 2013 Nov 25;4(4):646-65. doi: 10.3390/genes4040646.

9.

Prediction of Drosophila melanogaster gene function using Support Vector Machines.

Mitsakakis N, Razak Z, Escobar M, Westwood JT.

BioData Min. 2013 Apr 2;6(1):8. doi: 10.1186/1756-0381-6-8.

10.

A large-scale evaluation of computational protein function prediction.

Radivojac P, Clark WT, Oron TR, Schnoes AM, Wittkop T, Sokolov A, Graim K, Funk C, Verspoor K, Ben-Hur A, Pandey G, Yunes JM, Talwalkar AS, Repo S, Souza ML, Piovesan D, Casadio R, Wang Z, Cheng J, Fang H, Gough J, Koskinen P, Törönen P, Nokso-Koivisto J, Holm L, Cozzetto D, Buchan DW, Bryson K, Jones DT, Limaye B, Inamdar H, Datta A, Manjari SK, Joshi R, Chitale M, Kihara D, Lisewski AM, Erdin S, Venner E, Lichtarge O, Rentzsch R, Yang H, Romero AE, Bhat P, Paccanaro A, Hamp T, Kaßner R, Seemayer S, Vicedo E, Schaefer C, Achten D, Auer F, Boehm A, Braun T, Hecht M, Heron M, Hönigschmid P, Hopf TA, Kaufmann S, Kiening M, Krompass D, Landerer C, Mahlich Y, Roos M, Björne J, Salakoski T, Wong A, Shatkay H, Gatzmann F, Sommer I, Wass MN, Sternberg MJ, Škunca N, Supek F, Bošnjak M, Panov P, Džeroski S, Šmuc T, Kourmpetis YA, van Dijk AD, ter Braak CJ, Zhou Y, Gong Q, Dong X, Tian W, Falda M, Fontana P, Lavezzo E, Di Camillo B, Toppo S, Lan L, Djuric N, Guo Y, Vucetic S, Bairoch A, Linial M, Babbitt PC, Brenner SE, Orengo C, Rost B, Mooney SD, Friedberg I.

Nat Methods. 2013 Mar;10(3):221-7. doi: 10.1038/nmeth.2340. Epub 2013 Jan 27.

11.

Chapter 5: Network biology approach to complex diseases.

Cho DY, Kim YA, Przytycka TM.

PLoS Comput Biol. 2012;8(12):e1002820. doi: 10.1371/journal.pcbi.1002820. Epub 2012 Dec 27.

12.

Large-scale screen for modifiers of ataxin-3-derived polyglutamine-induced toxicity in Drosophila.

VoSSfeldt H, Butzlaff M, PrüSSing K, Ní Chárthaigh RA, Karsten P, Lankes A, Hamm S, Simons M, Adryan B, Schulz JB, Voigt A.

PLoS One. 2012;7(11):e47452. doi: 10.1371/journal.pone.0047452. Epub 2012 Nov 5.

13.

Mediation of Drosophila autosomal dosage effects and compensation by network interactions.

Malone JH, Cho DY, Mattiuzzo NR, Artieri CG, Jiang L, Dale RK, Smith HE, McDaniel J, Munro S, Salit M, Andrews J, Przytycka TM, Oliver B.

Genome Biol. 2012 Apr 24;13(4):r28. doi: 10.1186/gb-2012-13-4-r28.

14.

Predictive regulatory models in Drosophila melanogaster by integrative inference of transcriptional networks.

Marbach D, Roy S, Ay F, Meyer PE, Candeias R, Kahveci T, Bristow CA, Kellis M.

Genome Res. 2012 Jul;22(7):1334-49. doi: 10.1101/gr.127191.111. Epub 2012 Mar 28.

15.

Functional genome annotation of Drosophila seminal fluid proteins using transcriptional genetic networks.

Ayroles JF, Laflamme BA, Stone EA, Wolfner MF, Mackay TF.

Genet Res (Camb). 2011 Dec;93(6):387-95. doi: 10.1017/S0016672311000346.

16.

Signalogs: orthology-based identification of novel signaling pathway components in three metazoans.

Korcsmáros T, Szalay MS, Rovó P, Palotai R, Fazekas D, Lenti K, Farkas IJ, Csermely P, Vellai T.

PLoS One. 2011 May 3;6(5):e19240. doi: 10.1371/journal.pone.0019240.

17.

Genome-wide analysis of the binding of the Hox protein Ultrabithorax and the Hox cofactor Homothorax in Drosophila.

Choo SW, White R, Russell S.

PLoS One. 2011 Apr 5;6(4):e14778. doi: 10.1371/journal.pone.0014778.

18.

A scalable approach for discovering conserved active subnetworks across species.

Deshpande R, Sharma S, Verfaillie CM, Hu WS, Myers CL.

PLoS Comput Biol. 2010 Dec 9;6(12):e1001028. doi: 10.1371/journal.pcbi.1001028.

19.

Analyses of nuclearly encoded mitochondrial genes suggest gene duplication as a mechanism for resolving intralocus sexually antagonistic conflict in Drosophila.

Gallach M, Chandrasekaran C, Betrán E.

Genome Biol Evol. 2010;2:835-50. doi: 10.1093/gbe/evq069. Epub 2010 Oct 29.

20.

A genome-wide gene function prediction resource for Drosophila melanogaster.

Yan H, Venkatesan K, Beaver JE, Klitgord N, Yildirim MA, Hao T, Hill DE, Cusick ME, Perrimon N, Roth FP, Vidal M.

PLoS One. 2010 Aug 12;5(8):e12139. doi: 10.1371/journal.pone.0012139.

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