Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

Cole Trapnell, Brian A. Williams, Geo Pertea, +6

Nature Biotechnology

Developmental BiologyFunctional GenomicsRna BiologyRna-seq RevealsTranscriptomics Technology +8

Mfold web server for nucleic acid folding and hybridization prediction

Michael Zuker

Nucleic Acids Research

Web ServerDna SequencingEngineeringBiological DatabaseStructural Bioinformatics +12

Alternative isoform regulation in human tissue transcriptomes

Eric T. Wang, Rickard Sandberg, Shujun Luo, +6

Nature

Gene RegulationSystems BiologyMedicineFunctional GenomicsGene Expression +2

Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project

Pamela J. Thomas

Nature

Functional GenomicsGene Sequence AnnotationGenome StudyGeneticsComputational Genomics +11

Mutations affecting segment number and polarity in Drosophila

Christiane Nüsslein‐Volhard, Eric Wieschaus

Nature

Population GeneticsDevelopmental GeneticsGeneticsMedicineMorphogenesis +4

Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing

Qun Pan, Ofer Shai, Leo J. Lee, +2

Nature Genetics

Long-read SequencingFunctional GenomicsDeep SurveyingGeneticsHigh-throughput Sequencing +13

A gene complex controlling segmentation in Drosophila

E. B. Lewis

Nature

ChromatinPattern FormationGeneticsMorphogenesisMolecular Genetics +2

Evolution of genes and genomes on the Drosophila phylogeny

Timothy B. Sackton

Nature

PhylogeneticsMedicineGeneticsEvolutionary BiologyEvolutionary Genetics +6

Comparative Genomics of the Eukaryotes

Gerald M. Rubin, Mark Yandell, Jennifer R. Wortman, +53

Science

Identification of Functional Elements and Regulatory Circuits by <i>Drosophila</i> modENCODE

Sushmita Roy, Jason Ernst, Peter V. Kharchenko, +168

Science