metaseq: a Python package for integrative genome-wide analysis reveals relationships between chromatin insulators and associated nuclear mRNA
Published 2014 View Full Article
- Home
- Publications
- Publication Search
- Publication Details
Title
metaseq: a Python package for integrative genome-wide analysis reveals relationships between chromatin insulators and associated nuclear mRNA
Authors
Keywords
-
Journal
NUCLEIC ACIDS RESEARCH
Volume 42, Issue 14, Pages 9158-9170
Publisher
Oxford University Press (OUP)
Online
2014-07-26
DOI
10.1093/nar/gku644
References
Ask authors/readers for more resources
Related references
Note: Only part of the references are listed.- ngs.plot: Quick mining and visualization of next-generation sequencing data by integrating genomic databases
- (2014) Li Shen et al. BMC GENOMICS
- The RNA-binding protein Rumpelstiltskin antagonizes gypsy chromatin insulator function in a tissue-specific manner
- (2014) M. R. King et al. JOURNAL OF CELL SCIENCE
- deepTools: a flexible platform for exploring deep-sequencing data
- (2014) Fidel Ramírez et al. NUCLEIC ACIDS RESEARCH
- Surviving an identity crisis: A revised view of chromatin insulators in the genomics era
- (2013) Leah H. Matzat et al. Biochimica et Biophysica Acta-Gene Regulatory Mechanisms
- CruzDB: software for annotation of genomic intervals with UCSC genome-browser database
- (2013) Brent S. Pedersen et al. BIOINFORMATICS
- Messenger RNA is a functional component of a chromatin insulator complex
- (2013) Leah H Matzat et al. EMBO REPORTS
- Dynein-Dependent Transport of nanos RNA in Drosophila Sensory Neurons Requires Rumpelstiltskin and the Germ Plasm Organizer Oskar
- (2013) X. Xu et al. JOURNAL OF NEUROSCIENCE
- High-throughput sequencing for biology and medicine
- (2013) W. W. Soon et al. Molecular Systems Biology
- A compendium of RNA-binding motifs for decoding gene regulation
- (2013) Debashish Ray et al. NATURE
- TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions
- (2013) Daehwan Kim et al. GENOME BIOLOGY
- Genome Regulation by Long Noncoding RNAs
- (2012) John L. Rinn et al. Annual Review of Biochemistry
- The UCSC genome browser and associated tools
- (2012) R. M. Kuhn et al. BRIEFINGS IN BIOINFORMATICS
- Nature and function of insulator protein binding sites in the Drosophila genome
- (2012) Y. B. Schwartz et al. GENOME RESEARCH
- Df31 Protein and snoRNAs Maintain Accessible Higher-Order Structures of Chromatin
- (2012) Thomas Schubert et al. MOLECULAR CELL
- Tissue-Specific Regulation of Chromatin Insulator Function
- (2012) Leah H. Matzat et al. PLoS Genetics
- Pybedtools: a flexible Python library for manipulating genomic datasets and annotations
- (2011) Ryan K. Dale et al. BIOINFORMATICS
- The variant call format and VCFtools
- (2011) P. Danecek et al. BIOINFORMATICS
- A late phase of germ plasm accumulation during Drosophila oogenesis requires Lost and Rumpelstiltskin
- (2011) Kristina S. Sinsimer et al. DEVELOPMENT
- The Genomedata format for storing large-scale functional genomics data
- (2010) M. M. Hoffman et al. BIOINFORMATICS
- BigWig and BigBed: enabling browsing of large distributed datasets
- (2010) W. J. Kent et al. BIOINFORMATICS
- BEDTools: a flexible suite of utilities for comparing genomic features
- (2010) Aaron R. Quinlan et al. BIOINFORMATICS
- Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities
- (2010) Sven Heinz et al. MOLECULAR CELL
- Single base–resolution methylome of the silkworm reveals a sparse epigenomic map
- (2010) Hui Xiang et al. NATURE BIOTECHNOLOGY
- Identification of Functional Elements and Regulatory Circuits by Drosophila modENCODE
- (2010) et al. SCIENCE
- ChIA-PET tool for comprehensive chromatin interaction analysis with paired-end tag sequencing
- (2010) Guoliang Li et al. GENOME BIOLOGY
- Differential expression analysis for sequence count data
- (2010) Simon Anders et al. GENOME BIOLOGY
- The Sequence Alignment/Map format and SAMtools
- (2009) H. Li et al. BIOINFORMATICS
- Three subclasses of a Drosophila insulator show distinct and cell type-specific genomic distributions
- (2009) A. M. Bushey et al. GENES & DEVELOPMENT
- Unlocking the secrets of the genome
- (2009) Susan E. Celniker et al. NATURE
- The Sanger FASTQ file format for sequences with quality scores, and the Solexa/Illumina FASTQ variants
- (2009) Peter J. A. Cock et al. NUCLEIC ACIDS RESEARCH
- Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome
- (2009) E. Lieberman-Aiden et al. SCIENCE
- Design and analysis of ChIP-seq experiments for DNA-binding proteins
- (2008) Peter V Kharchenko et al. NATURE BIOTECHNOLOGY
Find Funding. Review Successful Grants.
Explore over 25,000 new funding opportunities and over 6,000,000 successful grants.
ExploreAsk a Question. Answer a Question.
Quickly pose questions to the entire community. Debate answers and get clarity on the most important issues facing researchers.
Get Started