Useful Links

Here is a collection of online databases and information that we find useful and relevant to our research. Whether we are looking for genomic tools to make transgenic flies or checking the latest publications on RNAi, these are some of the sites we visit regularly.

Test tubes

General Scientific Information

NCBI: National Center for Biotechnology Information database (PubMed, GenBank, BLAST…)

Gene Ontology: gene and gene product classification by function

KEGG: Kyoto Encyclopedia of Genes and Genomes

ExPASy: Bioinformatics resource portal of Swiss Institute of Bioinformatics

SRS@EBI: Sequence Retrieval System at European Bioinformatics Institute

flies in vials

Fly-Related Information

FlyBase: the Drosophila genes and genomes database

BestGene: the Drosophila embryo injection and transgenic service

Bloomington Drosophila Stock Center (flystocks) at Indiana University

Deletion Hunter: a tool to identify FRT site compatible for at will genomic deletion

Drosophila Genomics Resource Center (DGRC) at Indiana University

Drosophila Image Award by the Genetics Society of America

Drosophila Species Stock Center (DSSC) at University of California San Diego

Drosophila RNAi Screening Center (DRSC & TRiP) at Harvard Medical School

Exelixis Collection at Harvard Medical School

FlyAtlas: the Drosophila gene expression atlas (see the brand new search page FlyAtlas2)

FlyC31: the PhiC31 integrase system for Drosophila transgenics

FlyCRISPR: the powerful RNA-guided gene editing method applied to Drosophila

FlyMine: an integrated genomics database for Drosophila

FlyMove: an internet resource to study the development of the fruit fly

FlyORF: the UAS-ORF lines project at Zurich University

Fly RMCE: a resource to use the PhiC31-mediated Recombinase Mediated Cassette Exchange (RMCE)

Flyshop services at Duke University

Fly vectors #1: common cloning vectors and constructs used at Flybase

Fly vectors #2: common cloning vectors and constructs used at Utha University

Gateway Drosophila Vector Collection: a list of fly-compatible Gateway vectors at Paris 6 University

Gene Disruption Project (GDP): a database of non-targeted transposon mutagenized flies

The Interactive Fly: a cyberspace guide to Drosophila genes and their role in development (see the atlas)

Vienna Drosophila RNAi Center (VDRC): the Drosophila transgenic RNAi library

VectorBase: a genomic resource for the arthropod vector community

hand holding plastic vial

Molecular Biology

Primer3: online PCR primer design software (see also Primer3Plus interface)

OligoCalc: oligonucleotide properties calculator

OligoWalk: online server calculating thermodynamic features of siRNAs

Codon Usage: codon usage database from Kazusa DNA Research Institute

4Peaks: Mac OS X application for viewing and editing sequence trace files

ClustalW (KUBiC): multiple sequence alignment software at Kyoto University Bioinformatics Center

ClustalW (SIB): multiple sequence alignment software at Swiss Institute of Bioinformatics

ProteinMW: protein molecular weight calculator

Genscan: gene structure prediction

T-test: online t-test helper

Translate: online translation tool

mfold: RNA secondary structure prediction

E.coli Wiki: Escherichia coli genotypes

insects under microsope

RNA Interference

Non-coding RNA: a set of recent Nature Reviews

RNA Interfercence Video and Slideshow: an animation available here (see the slideshow on Nature‘s website)

Other Insights