4.8 Article

Sex-specific splicing occurs genome-wide during early Drosophila embryogenesis

相关参考文献

注意:仅列出部分参考文献,下载原文获取全部文献信息。
Article Multidisciplinary Sciences

Splicing-associated chromatin signatures: a combinatorial and position-dependent role for histone marks in splicing definition

E. Agirre et al.

Summary: Through machine learning analysis, eleven chromatin modifications that differentially mark alternatively spliced exons have been identified. These marks act in a combinatorial and position-dependent way, forming characteristic splicing-associated chromatin signatures. The dynamic nature of chromatin modifications is proposed as a mechanism to rapidly fine-tune alternative splicing when necessary.

NATURE COMMUNICATIONS (2021)

Article Biology

CLAMP and Zelda function together to promote Drosophila zygotic genome activation

Jingyue Duan et al.

Summary: The study demonstrates that maternal CLAMP in Drosophila embryonic development plays an essential role in activating zygotic transcription, increasing chromatin accessibility at specific gene promoters, and enhancing ZLD occupancy at key embryonic promoters.
Article Multidisciplinary Sciences

clusterProfiler 4.0: A universal enrichment tool for interpreting omics data

Tianzhi Wu et al.

Summary: The updated version of clusterProfiler 4.0 is a powerful tool for functional enrichment analysis in a wide range of organisms, offering tidy interfaces for data operation and visualization, as well as new features like gene set enrichment analysis and comparison of results from multiple gene lists.

INNOVATION (2021)

Article Multidisciplinary Sciences

Purification of cross-linked RNA-protein complexes by phenol-toluol extraction

Erika C. Urdaneta et al.

NATURE COMMUNICATIONS (2019)

Review Genetics & Heredity

Mechanisms regulating zygotic genome activation

Katharine N. Schulz et al.

NATURE REVIEWS GENETICS (2019)

Article Genetics & Heredity

Evolution of maternal and zygotic mRNA complements in the early Drosophila embryo

Joel Atallah et al.

PLOS GENETICS (2018)

Article Biotechnology & Applied Microbiology

SUPPA2: fast, accurate, and uncertainty-aware differential splicing analysis across multiple conditions

Juan L. Trincado et al.

GENOME BIOLOGY (2018)

Article Biochemistry & Molecular Biology

The essential Drosophila CLAMP protein differentially regulates non-coding roX RNAs in male and females

Jennifer A. Urban et al.

CHROMOSOME RESEARCH (2017)

Article Cell Biology

Histone locus regulation by the Drosophila dosage compensation adaptor protein CLAMP

Leila E. Rieder et al.

GENES & DEVELOPMENT (2017)

Article Biochemical Research Methods

Salmon provides fast and bias-aware quantification of transcript expression

Rob Patro et al.

NATURE METHODS (2017)

Article Multidisciplinary Sciences

The Drosophila CLAMP protein associates with diverse proteins on chromatin

Jennifer A. Urban et al.

PLOS ONE (2017)

Article Cell Biology

Rapid evolutionary turnover underlies conserved lncRNA-genome interactions

Jeffrey J. Quinn et al.

GENES & DEVELOPMENT (2016)

Article Multidisciplinary Sciences

m6A potentiates Sxl alternative pre-mRNA splicing for robust Drosophila sex determination

Irmgard U. Haussmann et al.

NATURE (2016)

Article Genetics & Heredity

Large Scale Gene Expression Meta-Analysis Reveals Tissue-Specific, Sex-Biased Gene Expression in Humans

Benjamin T. Mayne et al.

FRONTIERS IN GENETICS (2016)

Article Biochemical Research Methods

ChIPseeker: an R/Bioconductor package for ChIP peak annotation, comparison and visualization

Guangchuang Yu et al.

BIOINFORMATICS (2015)

Article Biochemistry & Molecular Biology

Regulation of alternative splicing in Drosophila by 56 RNA binding proteins

Angela N. Brooks et al.

GENOME RESEARCH (2015)

Article Biochemistry & Molecular Biology

The MEME Suite

Timothy L. Bailey et al.

NUCLEIC ACIDS RESEARCH (2015)

Article Biochemistry & Molecular Biology

Transcript Length Mediates Developmental Timing of Gene Expression Across Drosophila

Carlo G. Artieri et al.

MOLECULAR BIOLOGY AND EVOLUTION (2014)

Article Biochemical Research Methods

Cell lines

Lucy Cherbas et al.

METHODS (2014)

Article Biochemistry & Molecular Biology

deepTools: a flexible platform for exploring deep-sequencing data

Fidel Ramirez et al.

NUCLEIC ACIDS RESEARCH (2014)

Article Genetics & Heredity

Sex-Specific Embryonic Gene Expression in Species with Newly Evolved Sex Chromosomes

Susan E. Lott et al.

PLOS GENETICS (2014)

Article Biotechnology & Applied Microbiology

Differential transcript isoform usage pre- and post-zygotic genome activation in zebrafish

Havard Aanes et al.

BMC GENOMICS (2013)

Article Biochemistry & Molecular Biology

Different chromatin interfaces of the Drosophila dosage compensation complex revealed by high-shear ChIP-seq

Tobias Straub et al.

GENOME RESEARCH (2013)

Article Biochemical Research Methods

NIH Image to ImageJ: 25 years of image analysis

Caroline A. Schneider et al.

NATURE METHODS (2012)

Article Biochemistry & Molecular Biology

Translational Control via Protein-Regulated Upstream Open Reading Frames

Jan Medenbach et al.

Article Genetics & Heredity

A framework for variation discovery and genotyping using next-generation DNA sequencing data

Mark A. DePristo et al.

NATURE GENETICS (2011)

Article Biotechnology & Applied Microbiology

Alternative splicing is frequent during early embryonic development in mouse

Timothee Revil et al.

BMC GENOMICS (2010)

Review Biochemistry & Molecular Biology

Sex determination in Drosophila The view from the top

Helen K. Salz et al.

Article Biochemistry & Molecular Biology

A sequence motif within chromatin entry sites directs MSL establishment on the Drosophila X chromosome

Artyom A. Alekseyenko et al.

Article Biochemical Research Methods

Analyzing real-time PCR data by the comparative C-T method

Thomas D. Schmittgen et al.

NATURE PROTOCOLS (2008)

Review Genetics & Heredity

Sex-specific genetic architecture of human disease

Carole Ober et al.

NATURE REVIEWS GENETICS (2008)

Article Multidisciplinary Sciences

Constraint and turnover in sex-biased gene expression in the genus Drosophila

Yu Zhang et al.

NATURE (2007)

Review Genetics & Heredity

Splicing in disease: disruption of the splicing code and the decoding machinery

Guey-Shin Wang et al.

NATURE REVIEWS GENETICS (2007)

Article Biochemistry & Molecular Biology

Unmasking activation of the zygotic genome using chromosomal deletions in the Drosophila embryo

Stefano De Renzis et al.

PLOS BIOLOGY (2007)

Article Developmental Biology

A genomic analysis of Drosophila somatic sexual differentiation and its regulation

MN Arbeitman et al.

DEVELOPMENT (2004)

Article Multidisciplinary Sciences

Sex-dependent gene expression and evolution of the Drosophila transcriptome

JM Ranz et al.

SCIENCE (2003)

Review Biochemistry & Molecular Biology

Regulation of mRNA translation by 5′- and 3′-UTR-binding factors

GS Wilkie et al.

TRENDS IN BIOCHEMICAL SCIENCES (2003)

Review Cell Biology

Pre-mRNA splicing and human disease

NA Faustino et al.

GENES & DEVELOPMENT (2003)