Results 1 to 10 of about 87,709 (195)
UPS-indel: a Universal Positioning System for Indels [PDF]
Scientific Reports, 2017 Abstract Storing biologically equivalent indels as distinct entries in databases causes data redundancy, and misleads downstream analysis. It is thus desirable to have a unified system for identifying and representing equivalent indels.
Hasan, Mohammad Shabbir +4 more
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Evolutionary Inference via the Poisson Indel Process [PDF]
, 2013 We address the problem of the joint statistical inference of phylogenetic trees and multiple sequence alignments from unaligned molecular sequences. This problem is generally formulated in terms of string-valued evolutionary processes along the branches ...
Alexandre Bouchard-Côté +13 more
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Indels, structural variation, and recombination drive genomic diversity inPlasmodium falciparum [PDF]
, 2016 The malaria parasite Plasmodium falciparum has a great capacity for evolutionary adaptation to evade host immunity and develop drug resistance. Current understanding of parasite evolution is impeded by the fact that a large fraction of the genome is ...
Campino, Susana +21 more
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Indel Reliability in Indel-Based Phylogenetic Inference [PDF]
Genome Biology and Evolution, 2014 It is often assumed that it is unlikely that the same insertion or deletion (indel) event occurred at the same position in two independent evolutionary lineages, and thus, indel-based inference of phylogeny should be less subject to homoplasy compared with standard inference which is based on substitution events.
Ashkenazy, Haim +3 more
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Pair HMM based gap statistics for re-evaluation of indels in alignments with affine gap penalties: Extended Version [PDF]
, 2010 Although computationally aligning sequence is a crucial step in the vast majority of comparative genomics studies our understanding of alignment biases still needs to be improved.
Sahinalp, S. Cenk +2 more
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Emotion, Space and Society, 2014 Many years ago I grew away from the evangelical Christian faith that had grounded my life (before and beyond death) since my early teens. Or so I thought: the stories my body now tell confront me with the sense that I have – secretly, ambivalently – held on to elements of that faith.
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Distribution of indel lengths [PDF]
Proteins: Structure, Function, and Bioinformatics, 2001 AbstractProtein sequence alignment has become a widely used method in the study of newly sequenced proteins. Most sequence alignment methods use an affine gap penalty to assign scores to insertions and deletions. Although affine gap penalties represent the relative ease of extending a gap compared with initializing a gap, it is still an obvious ...
Qian, Bin, Goldstein, Richard A.
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BATCH-GE : batch analysis of next-generation sequencing data for genome editing assessment [PDF]
, 2016 Targeted mutagenesis by the CRISPR/Cas9 system is currently revolutionizing genetics. The ease of this technique has enabled genome engineering in-vitro and in a range of model organisms and has pushed experimental dimensions to unprecedented proportions.
Boel, Annekatrien +7 more
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Experimental harvesting of fish populations drives genetically based shifts in body size and maturation [PDF]
, 2013 Size-selective harvesting in commercial fisheries can induce rapid changes in biological traits. While experimental and wild harvested populations often exhibit clear shifts in body size and maturation associated with fishing pressure, the relative ...
Christine Dreyer +9 more
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VarDict: a novel and versatile variant caller for next-generation sequencing in cancer research [PDF]
, 2016 Accurate variant calling in next generation sequencing (NGS) is critical to understand cancer genomes better. Here we present VarDict, a novel and versatile variant caller for both DNA- and RNA-sequencing data.
Ahdesmaki, Miika +9 more
core +2 more sources