Cargando…

ABLE: blockwise site frequency spectra for inferring complex population histories and recombination

We introduce ABLE (Approximate Blockwise Likelihood Estimation), a novel simulation-based composite likelihood method that uses the blockwise site frequency spectrum to jointly infer past demography and recombination. ABLE is explicitly designed for a wide variety of data from unphased diploid genom...

Descripción completa

Detalles Bibliográficos
Autores principales:	Beeravolu, Champak R., Hickerson, Michael J., Frantz, Laurent A. F., Lohse, Konrad
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	BioMed Central 2018
Materias:	Method
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6156964/ https://www.ncbi.nlm.nih.gov/pubmed/30253810 http://dx.doi.org/10.1186/s13059-018-1517-y

Ejemplares similares

Stairway Plot 2: demographic history inference with folded SNP frequency spectra
por: Liu, Xiaoming, et al.
Publicado: (2020)

Efficient Strategies for Calculating Blockwise Likelihoods Under the Coalescent
por: Lohse, Konrad, et al.
Publicado: (2016)

Efficient Blockwise Permutation Tests Preserving Exchangeability
por: Zhou, Chunxiao, et al.
Publicado: (2014)

BAR: Blockwise Adaptive Recoding for Batched Network Coding †
por: Yin, Hoover H. F., et al.
Publicado: (2023)

The Impact of Purifying and Background Selection on the Inference of Population History: Problems and Prospects
por: Johri, Parul, et al.
Publicado: (2021)

Efficient Inference of Recombination Hot Regions in Bacterial Genomes
por: Yahara, Koji, et al.
Publicado: (2014)

Variational inference using approximate likelihood under the coalescent with recombination
por: Liu, Xinhao, et al.
Publicado: (2021)

Inferring causative variants in microRNA target sites
por: Thomas, Laurent F., et al.
Publicado: (2011)

Performance of a blockwise approach in variable selection using linkage disequilibrium information
por: Dehman, Alia, et al.
Publicado: (2015)

Integrative Analysis of Multi-Omics Data Based on Blockwise Sparse Principal Components
por: Park, Mira, et al.
Publicado: (2020)

Do Spatially-Implicit Estimates of Neutral Migration Comply with Seed Dispersal Data in Tropical Forests?
por: Munoz, François, et al.
Publicado: (2013)

Bayesian Inference of Evolutionary Histories under Time-Dependent Substitution Rates
por: Membrebe, Jade Vincent, et al.
Publicado: (2019)

Inferring Bottlenecks from Genome-Wide Samples of Short Sequence Blocks
por: Bunnefeld, Lynsey, et al.
Publicado: (2015)

A Deep-Learning Approach for Inference of Selective Sweeps from the Ancestral Recombination Graph
por: Hejase, Hussein A, et al.
Publicado: (2021)

Author Correction: Stairway Plot 2: demographic history inference with folded SNP frequency spectra
por: Liu, Xiaoming, et al.
Publicado: (2020)

Blockwise PPG Enhancement Based on Time-Variant Zero-Phase Harmonic Notch Filtering
por: Park, Chanki, et al.
Publicado: (2017)

Efficient inference of population size histories and locus-specific mutation rates from large-sample genomic variation data
por: Bhaskar, Anand, et al.
Publicado: (2015)

Identifying chromosomal subpopulations based on their recombination histories advances the study of the genetic basis of phenotypic traits
por: Ruiz-Arenas, Carlos, et al.
Publicado: (2020)

SiFit: inferring tumor trees from single-cell sequencing data under finite-sites models
por: Zafar, Hamim, et al.
Publicado: (2017)

Detection of DNA fusion junctions for BCR-ABL translocations by Anchored ChromPET
por: Shibata, Yoshiyuki, et al.
Publicado: (2010)

Accurate sequencing of DNA motifs able to form alternative (non-B) structures
por: Weissensteiner, Matthias H., et al.
Publicado: (2023)

Increasing the reliability of data analysis of functional magnetic resonance imaging by applying a new blockwise permutation method
por: Adolf, Daniela, et al.
Publicado: (2014)

Inferring Human Immunodeficiency Virus 1 Proviral Integration Dates With Bayesian Inference
por: Jones, Bradley R, et al.
Publicado: (2023)

Detecting Concerted Demographic Response across Community Assemblages Using Hierarchical Approximate Bayesian Computation
por: Chan, Yvonne L., et al.
Publicado: (2014)

Thermal difference spectra: a specific signature for nucleic acid structures
por: Mergny, Jean-Louis, et al.
Publicado: (2005)

Increasing frequencies of site-specific mutagenesis and gene targeting in Arabidopsis by manipulating DNA repair pathways
por: Qi, Yiping, et al.
Publicado: (2013)

Sampling strategies for frequency spectrum-based population genomic inference
por: Robinson, John D, et al.
Publicado: (2014)

Inferring chromatin-bound protein complexes from genome-wide binding assays
por: Giannopoulou, Eugenia G., et al.
Publicado: (2013)

The Theory and Applications of Measuring Broad-Range and Chromosome-Wide Recombination Rate from Allele Frequency Decay around a Selected Locus
por: Wei, Kevin H -C, et al.
Publicado: (2020)

Rapid haplotype inference for nuclear families
por: Williams, Amy L, et al.
Publicado: (2010)

Tree inference for single-cell data
por: Jahn, Katharina, et al.
Publicado: (2016)

The Effect of Nonreversibility on Inferring Rooted Phylogenies
por: Cherlin, Svetlana, et al.
Publicado: (2018)

Phylodynamic Inference across Epidemic Scales
por: Volz, Erik M., et al.
Publicado: (2017)

Inferring the mode and strength of ongoing selection
por: Barroso, Gustavo V., et al.
Publicado: (2023)

Improved Algorithmic Complexity for the 3SEQ Recombination Detection Algorithm
por: Lam, Ha Minh, et al.
Publicado: (2018)

Accurate proteome-wide protein quantification from high-resolution (15)N mass spectra
por: Khan, Zia, et al.
Publicado: (2011)

CAD-ALZ: A Blockwise Fine-Tuning Strategy on Convolutional Model and Random Forest Classifier for Recognition of Multistage Alzheimer’s Disease
por: Abbas, Qaisar, et al.
Publicado: (2023)

Using Genotype Abundance to Improve Phylogenetic Inference
por: DeWitt, William S, et al.
Publicado: (2018)

The Trend-in-trend Research Design for Causal Inference
por: Ji, Xinyao, et al.
Publicado: (2017)

SHOOT: phylogenetic gene search and ortholog inference
por: Emms, David Mark, et al.
Publicado: (2022)

Cannot write session to /tmp/vufind_sessions/sess_ijl2gk1oth2o6gqfrqds5252mv