FlyNet: A versatile network prioritization server for the Drosophila community

Junha Shin, Sunmo Yang, Eiru Kim, Chan Yeong Kim, Hongseok Shim, Ara Cho, Hyojin Kim, Sohyun Hwang, Jung Eun Shim, Insuk Lee

Research output: Contribution to journalArticle

8 Citations (Scopus)

Abstract

Drosophila melanogaster (fruit fly) has been a popular model organism in animal genetics due to the high accessibility of reverse-genetics tools. In addition, the close relationship between the Drosophila and human genomes rationalizes the use of Drosophila as an invertebrate model for human neurobiology and disease research. A platform technology for predicting candidate genes or functions would further enhance the usefulness of this long-established model organism for gene-to-phenotypemapping. Recently, the power of network prioritization for gene-to-phenotype mapping has been demonstrated in many organisms. Here we present a network prioritization server dedicated to Drosophila that covers ∼95% of the coding genome. This server, dubbed Fly-Net, has several distinctive features, including (i) prioritization for both genes and functions; (ii) two complementary network algorithms: direct neighborhood and network diffusion; (iii) spatiotemporal-specific networks as an additional prioritization strategy for traits associated with a specific developmental stage or tissue and (iv) prioritization for human disease genes. FlyNet is expected to serve as a versatile hypothesis-generation platform for genes and functions in the study of basic animal genetics, developmental biology and human disease. FlyNet is available for free at http://www.inetbio.org/flynet.

Original languageEnglish
Pages (from-to)W91-W97
JournalNucleic acids research
Volume43
Issue numberW1
DOIs
Publication statusPublished - 2015 Jan 1

Fingerprint

Drosophila
Genes
Reverse Genetics
Developmental Biology
Neurobiology
Gene Regulatory Networks
Human Genome
Invertebrates
Drosophila melanogaster
Diptera
Genome
Technology
Phenotype
Research

All Science Journal Classification (ASJC) codes

  • Genetics

Cite this

Shin, Junha ; Yang, Sunmo ; Kim, Eiru ; Kim, Chan Yeong ; Shim, Hongseok ; Cho, Ara ; Kim, Hyojin ; Hwang, Sohyun ; Shim, Jung Eun ; Lee, Insuk. / FlyNet : A versatile network prioritization server for the Drosophila community. In: Nucleic acids research. 2015 ; Vol. 43, No. W1. pp. W91-W97.
@article{7e17ecddba96450497c807bdbb047695,
title = "FlyNet: A versatile network prioritization server for the Drosophila community",
abstract = "Drosophila melanogaster (fruit fly) has been a popular model organism in animal genetics due to the high accessibility of reverse-genetics tools. In addition, the close relationship between the Drosophila and human genomes rationalizes the use of Drosophila as an invertebrate model for human neurobiology and disease research. A platform technology for predicting candidate genes or functions would further enhance the usefulness of this long-established model organism for gene-to-phenotypemapping. Recently, the power of network prioritization for gene-to-phenotype mapping has been demonstrated in many organisms. Here we present a network prioritization server dedicated to Drosophila that covers ∼95{\%} of the coding genome. This server, dubbed Fly-Net, has several distinctive features, including (i) prioritization for both genes and functions; (ii) two complementary network algorithms: direct neighborhood and network diffusion; (iii) spatiotemporal-specific networks as an additional prioritization strategy for traits associated with a specific developmental stage or tissue and (iv) prioritization for human disease genes. FlyNet is expected to serve as a versatile hypothesis-generation platform for genes and functions in the study of basic animal genetics, developmental biology and human disease. FlyNet is available for free at http://www.inetbio.org/flynet.",
author = "Junha Shin and Sunmo Yang and Eiru Kim and Kim, {Chan Yeong} and Hongseok Shim and Ara Cho and Hyojin Kim and Sohyun Hwang and Shim, {Jung Eun} and Insuk Lee",
year = "2015",
month = "1",
day = "1",
doi = "10.1093/nar/gkv453",
language = "English",
volume = "43",
pages = "W91--W97",
journal = "Nucleic Acids Research",
issn = "0305-1048",
publisher = "Oxford University Press",
number = "W1",

}

Shin, J, Yang, S, Kim, E, Kim, CY, Shim, H, Cho, A, Kim, H, Hwang, S, Shim, JE & Lee, I 2015, 'FlyNet: A versatile network prioritization server for the Drosophila community', Nucleic acids research, vol. 43, no. W1, pp. W91-W97. https://doi.org/10.1093/nar/gkv453

FlyNet : A versatile network prioritization server for the Drosophila community. / Shin, Junha; Yang, Sunmo; Kim, Eiru; Kim, Chan Yeong; Shim, Hongseok; Cho, Ara; Kim, Hyojin; Hwang, Sohyun; Shim, Jung Eun; Lee, Insuk.

In: Nucleic acids research, Vol. 43, No. W1, 01.01.2015, p. W91-W97.

Research output: Contribution to journalArticle

TY - JOUR

T1 - FlyNet

T2 - A versatile network prioritization server for the Drosophila community

AU - Shin, Junha

AU - Yang, Sunmo

AU - Kim, Eiru

AU - Kim, Chan Yeong

AU - Shim, Hongseok

AU - Cho, Ara

AU - Kim, Hyojin

AU - Hwang, Sohyun

AU - Shim, Jung Eun

AU - Lee, Insuk

PY - 2015/1/1

Y1 - 2015/1/1

N2 - Drosophila melanogaster (fruit fly) has been a popular model organism in animal genetics due to the high accessibility of reverse-genetics tools. In addition, the close relationship between the Drosophila and human genomes rationalizes the use of Drosophila as an invertebrate model for human neurobiology and disease research. A platform technology for predicting candidate genes or functions would further enhance the usefulness of this long-established model organism for gene-to-phenotypemapping. Recently, the power of network prioritization for gene-to-phenotype mapping has been demonstrated in many organisms. Here we present a network prioritization server dedicated to Drosophila that covers ∼95% of the coding genome. This server, dubbed Fly-Net, has several distinctive features, including (i) prioritization for both genes and functions; (ii) two complementary network algorithms: direct neighborhood and network diffusion; (iii) spatiotemporal-specific networks as an additional prioritization strategy for traits associated with a specific developmental stage or tissue and (iv) prioritization for human disease genes. FlyNet is expected to serve as a versatile hypothesis-generation platform for genes and functions in the study of basic animal genetics, developmental biology and human disease. FlyNet is available for free at http://www.inetbio.org/flynet.

AB - Drosophila melanogaster (fruit fly) has been a popular model organism in animal genetics due to the high accessibility of reverse-genetics tools. In addition, the close relationship between the Drosophila and human genomes rationalizes the use of Drosophila as an invertebrate model for human neurobiology and disease research. A platform technology for predicting candidate genes or functions would further enhance the usefulness of this long-established model organism for gene-to-phenotypemapping. Recently, the power of network prioritization for gene-to-phenotype mapping has been demonstrated in many organisms. Here we present a network prioritization server dedicated to Drosophila that covers ∼95% of the coding genome. This server, dubbed Fly-Net, has several distinctive features, including (i) prioritization for both genes and functions; (ii) two complementary network algorithms: direct neighborhood and network diffusion; (iii) spatiotemporal-specific networks as an additional prioritization strategy for traits associated with a specific developmental stage or tissue and (iv) prioritization for human disease genes. FlyNet is expected to serve as a versatile hypothesis-generation platform for genes and functions in the study of basic animal genetics, developmental biology and human disease. FlyNet is available for free at http://www.inetbio.org/flynet.

UR - http://www.scopus.com/inward/record.url?scp=84979850686&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84979850686&partnerID=8YFLogxK

U2 - 10.1093/nar/gkv453

DO - 10.1093/nar/gkv453

M3 - Article

C2 - 25943544

AN - SCOPUS:84979850686

VL - 43

SP - W91-W97

JO - Nucleic Acids Research

JF - Nucleic Acids Research

SN - 0305-1048

IS - W1

ER -