Simulated bacterial genomes for evaluating SNP calling pipelines

Simulated bacterial genomes for evaluating SNP calling pipelines

This archive is provided as an online supplementary dataset for the Bush, et al. manuscript "Genomic diversity affects the accuracy of bacterial SNP calling pipelines". It contains a set of 254 SNP-containing genomes, VCFs containing nucmer and Parsnp strain-to-representative genome SNP ca...

Πλήρης περιγραφή

Λεπτομέρειες βιβλιογραφικής εγγραφής
Κύριος συγγραφέας:	Bush, S
Μορφή:	Dataset
Γλώσσα:	English
Έκδοση:	University of Oxford 2019

Παρόμοια τεκμήρια

Real sequencing datasets for evaluating bacterial SNP calling pipelines
ανά: Bush, S
Έκδοση: (2019)

Genomic diversity affects the accuracy of bacterial SNP calling pipelines
ανά: Bush, S, κ.ά.
Έκδοση: (2020)

LD-based SNP and genotype calling from next-generation sequencing reads.
ανά: Menelaou, A
Έκδοση: (2012)

Evaluating the effects of imputation on the power, coverage, and cost efficiency of genome-wide SNP platforms.
ανά: Anderson, C, κ.ά.
Έκδοση: (2008)

Genome-wide joint meta-analysis of SNP and SNP-by-smoking interaction identifies novel loci for pulmonary function
ανά: Hancock, D, κ.ά.
Έκδοση: (2012)

CALL in use : use of CALL : evaluating CALL software /
ανά: 374203 Legenhausen, Lienhard, κ.ά.

Evaluation of phylogenetic reconstruction methods using bacterial whole genomes: a simulation based study
ανά: Lees, JA, κ.ά.
Έκδοση: (2018)

Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples
Έκδοση: (2021)

Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples
Έκδοση: (2022)

Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples
ανά: Bailey, MH, κ.ά.
Έκδοση: (2020)

Cluster effect for SNP–SNP interaction pairs for predicting complex traits
ανά: Lin, H, κ.ά.
Έκδοση: (2024)

A SNP map of the rat genome generated from cDNA sequences.
ανά: Zimdahl, H, κ.ά.
Έκδοση: (2004)

Bayesian methods for estimating human ancestry using whole genome SNP data
ανά: Churchhouse, C
Έκδοση: (2012)

SNP-o-matic.
ανά: Manske, H, κ.ά.
Έκδοση: (2009)

SimBac: simulation of whole bacterial genomes with homologous recombination
ανά: Didelot, X, κ.ά.
Έκδοση: (2015)

Genome-wide study of hair colour in UK Biobank explains most of the SNP heritability
ανά: Morgan, MD, κ.ά.
Έκδοση: (2018)

An evaluation of HapMap sample size and tagging SNP performance in large-scale empirical and simulated data sets.
ανά: Zeggini, E, κ.ά.
Έκδοση: (2005)

High-throughput bacterial SNP typing identifies distinct clusters of SalmonellaTyphi causing typhoid in Nepalese children
ανά: Holt, K, κ.ά.
Έκδοση: (2010)

A call for an international network of genomic observatories (GOs)
ανά: Davies, N, κ.ά.
Έκδοση: (2012)

From genomic databases to translation: A call to action
ανά: Knoppers, B, κ.ά.
Έκδοση: (2011)

From genomic databases to translation: a call to action.
ανά: Knoppers, B, κ.ά.
Έκδοση: (2011)

Contribution of genomics to bacterial pathogenesis.
ανά: Field, D, κ.ά.
Έκδοση: (1999)

ReliableGenome : annotation of genomic regions with high/low variant calling concordance
ανά: Popitsch, N, κ.ά.
Έκδοση: (2016)

Genome-wide snp microarray analysis among Malay sub-ethnic groups in peninsular Malaysia
ανά: Ab Rajab, Nur Shafawati
Έκδοση: (2013)

Genome-wide SNP genotyping highlights the role of natural selection in Plasmodium falciparum population divergence
ανά: Neafsey, Daniel E., κ.ά.
Έκδοση: (2010)

Identifying relationships among genomic disease regions: predicting= pathogenic SNP associations and rare deletions
ανά: Raychaudhuri, Soumya, κ.ά.
Έκδοση: (2010)

Assessing population structure and its effects on association studies in a genome wide SNP dataset.
ανά: Marchini, J, κ.ά.
Έκδοση: (2002)

Discovery and replication of SNP-SNP interactions for quantitative lipid traits in over 60,000 individuals.
ανά: Holzinger, ER, κ.ά.
Έκδοση: (2017)

Whole genome sequencing and the application of a SNP panel reveal primary evolutionary lineages and genomic variation in the lion (Panthera leo)
ανά: Bertola, LD, κ.ά.
Έκδοση: (2022)

Evaluating the performance of tools used to call minority variants from whole genome short-read data.
ανά: Said Mohammed, K, κ.ά.
Έκδοση: (2018)

The design and cross-population application of a genome-wide SNP chip for the great tit Parus major
ανά: Van Bers, N, κ.ά.
Έκδοση: (2012)

The design and cross-population application of a genome-wide SNP chip for the great tit Parus major.
ανά: Van Bers, N, κ.ά.
Έκδοση: (2012)

Identifying Relationships among Genomic Disease Regions: Predicting Genes at Pathogenic SNP Associations and Rare Deletions
ανά: Daly, Mark J., κ.ά.
Έκδοση: (2010)

Bacterial genes and genome dynamics in the environment
ανά: Timberlake, Sonia C
Έκδοση: (2013)

Mining bacterial genomes for novel antimicrobials
ανά: Sharp, C
Έκδοση: (2017)

Simulation of cellular networks with finite queueing of new incoming calls and reserved channel for handoff calls /
ανά: 432728 Thevandran, Sundaraj
Έκδοση: (2001)

Comparative analysis of core genome MLST and SNP typing within a European Salmonella serovar Enteritidis outbreak
ανά: Pearce, M, κ.ά.
Έκδοση: (2018)

Genome-wide SNP analysis of Southern African populations provides new insights into the dispersal of Bantu-speaking groups
ανά: González-Santos, M, κ.ά.
Έκδοση: (2015)

GenoSNP: a variational Bayes within-sample SNP genotyping algorithm that does not require a reference population.
ανά: Giannoulatou, E, κ.ά.
Έκδοση: (2008)

SNP and haplotype mapping for genetic analysis in the rat.
ανά: Saar, K, κ.ά.
Έκδοση: (2008)