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。Heterochromatin-Enriched Assemblies Reveal the Sequence and Organization of the Drosophila melanogaster Y Chromosome
Ching-Ho Chang et al.
GENETICS (2019)
Transposable elements: genome innovation, chromosome diversity, and centromere conflict
Savannah J. Klein et al.
CHROMOSOME RESEARCH (2018)
Centromeric retrotransposons and centromere function
Gernot G. Presting
CURRENT OPINION IN GENETICS & DEVELOPMENT (2018)
Birth, evolution, and transmission of satellite-free mammalian centromeric domains
Solomon G. Nergadze et al.
GENOME RESEARCH (2018)
Centromere transcription allows CENP-A to transit from chromatin association to stable incorporation
Georg O. M. Bobkov et al.
JOURNAL OF CELL BIOLOGY (2018)
Non-B-Form DNA Is Enriched at Centromeres
Sivakanthan Kasinathan et al.
MOLECULAR BIOLOGY AND EVOLUTION (2018)
Variable Rates of Simple Satellite Gains across the Drosophila Phylogeny
Kevin H-C Wei et al.
MOLECULAR BIOLOGY AND EVOLUTION (2018)
Polycomb-Dependent Chromatin Looping Contributes to Gene Silencing during Drosophila Development
Yuki Ogiyama et al.
MOLECULAR CELL (2018)
Linear assembly of a human centromere on the Y chromosome
Miten Jain et al.
NATURE BIOTECHNOLOGY (2018)
Adaptation and conservation insights from the koala genome
Rebecca N. Johnson et al.
NATURE GENETICS (2018)
RNAi is a critical determinant of centromere evolution in closely related fungi
Vikas Yadav et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2018)
OligoMiner provides a rapid, flexible environment for the design of genome-scale oligonucleotide in situ hybridization probes
Brian J. Beliveau et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2018)
Genome-wide analysis of gene regulation mechanisms during Drosophila spermatogenesis
Petr P. Laktionov et al.
EPIGENETICS & CHROMATIN (2018)
Rapid Low-Cost Assembly of the Drosophila melanogaster Reference Genome Using Low-Coverage, Long-Read Sequencing
Edwin A. Solares et al.
G3-GENES GENOMES GENETICS (2018)
Comparative Analysis of Satellite DNA in the Drosophila melanogaster Species Complex
Madhav Jagannathan et al.
G3-GENES GENOMES GENETICS (2017)
Single-molecule sequencing resolves the detailed structure of complex satellite DNA loci in Drosophila melanogaster
Daniel E. Khost et al.
GENOME RESEARCH (2017)
Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation
Sergey Koren et al.
GENOME RESEARCH (2017)
TimeTree: A Resource for Timelines, Timetrees, and Divergence Times
Sudhir Kumar et al.
MOLECULAR BIOLOGY AND EVOLUTION (2017)
Centromeric enrichment of LINE-1 retrotransposons and its significance for the chromosome evolution of Phyllostomid bats
Cibele Gomes de Sotero-Caio et al.
CHROMOSOME RESEARCH (2017)
Human Centromeres Produce Chromosome-Specific and Array-Specific Alpha Satellite Transcripts that Are Complexed with CENP-A and CENP-C
Shannon M. McNulty et al.
DEVELOPMENTAL CELL (2017)
Stable centromere positioning in diverse sequence contexts of complex and satellite centromeres of maize and wild relatives
Jonathan I. Gent et al.
GENOME BIOLOGY (2017)
The molecular basis for centromere identity and function
Kara L. McKinley et al.
NATURE REVIEWS MOLECULAR CELL BIOLOGY (2016)
Co-evolving CENP-A and CAL1 Domains Mediate Centromeric CENP-A Deposition across Drosophila Species
Leah Rosin et al.
DEVELOPMENTAL CELL (2016)
Inbreeding drives maize centromere evolution
Kevin L. Schneider et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2016)
High Quality Maize Centromere 10 Sequence Reveals Evidence of Frequent Recombination Events
Thomas K. Wolfgruber et al.
FRONTIERS IN PLANT SCIENCE (2016)
Centromeric Alpha-Satellite DNA Adopts Dimeric i-Motif Structures Capped by AT Hoogsteen Base Pairs
Miguel Garavis et al.
CHEMISTRY-A EUROPEAN JOURNAL (2015)
Establishment of Centromeric Chromatin by the CENP-A Assembly Factor CAL1 Requires FACT-Mediated Transcription
Chin-Chi Chen et al.
DEVELOPMENTAL CELL (2015)
HISAT: a fast spliced aligner with low memory requirements
Daehwan Kim et al.
NATURE METHODS (2015)
Active promoters give rise to false positive 'Phantom Peaks' in ChIP-seq experiments
Dhawal Jain et al.
NUCLEIC ACIDS RESEARCH (2015)
The structure of an endogenous Drosophila centromere reveals the prevalence of tandemly repeated sequences able to form i-motifs
Miguel Garavis et al.
SCIENTIFIC REPORTS (2015)
Dynamics of Wolbachia pipientis Gene Expression Across the Drosophila melanogaster Life Cycle
Florence Gutzwiller et al.
G3-GENES GENOMES GENETICS (2015)
Sequence Features and Transcriptional Stalling within Centromere DNA Promote Establishment of CENP-A Chromatin
Sandra Catania et al.
PLOS GENETICS (2015)
Repbase Update, a database of repetitive elements in eukaryotic genomes
Weidong Bao et al.
MOBILE DNA (2015)
HiC-Pro: an optimized and flexible pipeline for Hi-C data processing
Nicolas Servant et al.
GENOME BIOLOGY (2015)
De novo ChIP-seq analysis
Xin He et al.
GENOME BIOLOGY (2015)
CrossMap: a versatile tool for coordinate conversion between genome assemblies
Hao Zhao et al.
BIOINFORMATICS (2014)
RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies
Alexandros Stamatakis
BIOINFORMATICS (2014)
Incomplete replication generates somatic DNA alterations within Drosophila polytene salivary gland cells
Will Yarosh et al.
GENES & DEVELOPMENT (2014)
Centromere reference models for human chromosomes X and Y satellite arrays
Karen H. Miga et al.
GENOME RESEARCH (2014)
Comparative analysis of the transcriptome across distant species
Mark B. Gerstein et al.
NATURE (2014)
Boom-Bust Turnovers of Megabase-Sized Centromeric DNA in Solanum Species: Rapid Evolution of DNA Sequences Associated with Centromeres
Haiqin Zhang et al.
PLANT CELL (2014)
Illumina TruSeq Synthetic Long-Reads Empower De Novo Assembly and Resolve Complex, Highly-Repetitive Transposable Elements
Rajiv C. McCoy et al.
PLOS ONE (2014)
Pilon: An Integrated Tool for Comprehensive Microbial Variant Detection and Genome Assembly Improvement
Bruce J. Walker et al.
PLOS ONE (2014)
Correlated variation and population differentiation in satellite DNA abundance among lines of Drosophila melanogaster
Kevin H. -C. Wei et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2014)
DNA copy number evolution in Drosophila cell lines
Hangnoh Lee et al.
GENOME BIOLOGY (2014)
Tandem repeats derived from centromeric retrotransposons
Anupma Sharma et al.
BMC GENOMICS (2013)
Hypermorphic expression of centromeric retroelement-encoded small RNAs impairs CENP-A loading
Dawn M. Carone et al.
CHROMOSOME RESEARCH (2013)
Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data
Matthew Kearse et al.
BIOINFORMATICS (2012)
Three-Dimensional Folding and Functional Organization Principles of the Drosophila Genome
Tom Sexton et al.
CELL (2012)
Breaking the HAC Barrier: Histone H3K9 acetyl/methyl balance regulates CENP-A assembly
Jun-ichirou Ohzeki et al.
EMBO JOURNAL (2012)
Centromere Remodeling in Hoolock leuconedys (Hylobatidae) by a New Transposable Element Unique to the Gibbons
Lucia Carbone et al.
GENOME BIOLOGY AND EVOLUTION (2012)
Genome sequencing reveals complex speciation in the Drosophila simulans clade
Daniel Garrigan et al.
GENOME RESEARCH (2012)
ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia
Stephen G. Landt et al.
GENOME RESEARCH (2012)
Tissue-specific analysis of chromatin state identifies temporal signatures of enhancer activity during embryonic development
Stefan Bonn et al.
NATURE GENETICS (2012)
Fast gapped-read alignment with Bowtie 2
Ben Langmead et al.
NATURE METHODS (2012)
Cell type-specific chromatin immunoprecipitation from multicellular complex samples using BiTS-ChIP
Stefan Bonn et al.
NATURE PROTOCOLS (2012)
The Cotton Centromere Contains a Ty3-gypsy-like LTR Retroelement
Song Luo et al.
PLOS ONE (2012)
Active transcription and essential role of RNA polymerase II at the centromere during mitosis
F. Lyn Chan et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2012)
Versatile design and synthesis platform for visualizing genomes with Oligopaint FISH probes
Brian J. Beliveau et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2012)
Enrichment of HP1a on Drosophila Chromosome 4 Genes Creates an Alternate Chromatin Structure Critical for Regulation in this Heterochromatic Domain
Nicole C. Riddle et al.
PLOS GENETICS (2012)
Sequencing of Pooled DNA Samples (Pool-Seq) Uncovers Complex Dynamics of Transposable Element Insertions in Drosophila melanogaster
Robert Kofler et al.
PLOS GENETICS (2012)
Factors That Promote H3 Chromatin Integrity during Transcription Prevent Promiscuous Deposition of CENP-ACnp1 in Fission Yeast
Eun Shik Choi et al.
PLOS GENETICS (2012)
MEASURING REPRODUCIBILITY OF HIGH-THROUGHPUT EXPERIMENTS
Qunhua Li et al.
ANNALS OF APPLIED STATISTICS (2011)
A fast, lock-free approach for efficient parallel counting of occurrences of k-mers
Guillaume Marcais et al.
BIOINFORMATICS (2011)
Plasticity in patterns of histone modifications and chromosomal proteins in Drosophila heterochromatin
Nicole C. Riddle et al.
GENOME RESEARCH (2011)
Identification of Noncoding Transcripts from within CENP-A Chromatin at Fission Yeast Centromeres
Eun Shik Choi et al.
JOURNAL OF BIOLOGICAL CHEMISTRY (2011)
Recent Amplification of the Kangaroo Endogenous Retrovirus, KERV, Limited to the Centromere
Gianni C. Ferreri et al.
JOURNAL OF VIROLOGY (2011)
Drosophila CENH3 Is Sufficient for Centromere Formation
Maria Jose Mendiburo et al.
SCIENCE (2011)
Genome sequence of an Australian kangaroo, Macropus eugenii, provides insight into the evolution of mammalian reproduction and development
Marilyn B. Renfree et al.
GENOME BIOLOGY (2011)
Fast and accurate long-read alignment with Burrows-Wheeler transform
Heng Li et al.
BIOINFORMATICS (2010)
BEDTools: a flexible suite of utilities for comparing genomic features
Aaron R. Quinlan et al.
BIOINFORMATICS (2010)
The Sequence Alignment/Map format and SAMtools
Heng Li et al.
BIOINFORMATICS (2009)
Distinct retroelement classes define evolutionary breakpoints demarcating sites of evolutionary novelty
Mark S. Longo et al.
BMC GENOMICS (2009)
Evolution of ribosomal DNA-derived satellite repeat in tomato genome
Sung-Hwan Jo et al.
BMC PLANT BIOLOGY (2009)
LINE Retrotransposon RNA Is an Essential Structural and Functional Epigenetic Component of a Core Neocentromeric Chromatin
Anderly C. Chueh et al.
PLOS GENETICS (2009)
Structure and dynamics of retrotransposons at wheat centromeres and pericentromeres
Zhao Liu et al.
CHROMOSOMA (2008)
Genome-wide analysis reveals a cell cycle-dependent mechanism controlling centromere propagation
Sylvia Erhardt et al.
JOURNAL OF CELL BIOLOGY (2008)
Design and analysis of ChIP-seq experiments for DNA-binding proteins
Peter V. Kharchenko et al.
NATURE BIOTECHNOLOGY (2008)
Analyzing real-time PCR data by the comparative C-T method
Thomas D. Schmittgen et al.
NATURE PROTOCOLS (2008)
Epigenetic regulation of centromeric chromatin: old dogs, new tricks?
Robin C. Allshire et al.
NATURE REVIEWS GENETICS (2008)
Model-based Analysis of ChIP-Seq (MACS)
Yong Zhang et al.
GENOME BIOLOGY (2008)
High-resolution analysis of Drosophila heterochromatin organization using SuUR Su(var)3-9 double mutants
Eugenia N. Andreyeva et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2007)
ChIP-on-chip protocol for genome-wide analysis of transcription factor binding in Drosophila melanogaster embryos
Thomas Sandmann et al.
NATURE PROTOCOLS (2006)
Structure, divergence, and distribution of the CRR centromeric retrotransposon family in rice
K Nagaki et al.
MOLECULAR BIOLOGY AND EVOLUTION (2005)
Variable and hierarchical size distribution of L1-retroelement-enriched CENP-A clusters within a functional human neocentromere
AC Chueh et al.
HUMAN MOLECULAR GENETICS (2005)
Dynamic changes in the distribution of a satellite homologous to intergenic 26-18S rDNA spacer in the evolution of Nicotiana
KY Lim et al.
GENETICS (2004)
Sequencing of a rice centromere uncovers active genes
K Nagaki et al.
NATURE GENETICS (2004)
APE: Analyses of Phylogenetics and Evolution in R language
E Paradis et al.
BIOINFORMATICS (2004)
Kinetochore and heterochromatin domains of the fission yeast centromere
AL Pidoux et al.
CHROMOSOME RESEARCH (2004)
A partition function algorithm for nucleic acid secondary structure including pseudoknots
RM Dirks et al.
JOURNAL OF COMPUTATIONAL CHEMISTRY (2003)
Sequence analysis of a functional Drosophila centromere
XP Sun et al.
GENOME RESEARCH (2003)
Functional rice centromeres are marked by a satellite repeat and a centromere-specific retrotransposon
ZK Cheng et al.
PLANT CELL (2002)
BLAT - The BLAST-like alignment tool
WJ Kent
GENOME RESEARCH (2002)
Conserved organization of centromeric chromatin in flies and humans
MD Blower et al.
DEVELOPMENTAL CELL (2002)
The role of Drosophila CID in kinetochore formation, cell-cycle progression and heterochromatin interactions
MD Blower et al.
NATURE CELL BIOLOGY (2001)
Prod is a novel DNA-binding protein that binds to the 1.686 g/cm3 10 bp satellite repeat of Drosophila melanogaster
T Török et al.
NUCLEIC ACIDS RESEARCH (2000)
分享论文
