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Published in 2022 at "Ecology and Evolution"
DOI: 10.1002/ece3.9549
Abstract: Abstract Monitoring community composition of Foraminifera (single‐celled marine protists) provides valuable insights into environmental conditions in marine ecosystems. Despite the efficiency of environmental DNA (eDNA) and bulk‐sample DNA (bulk‐DNA) metabarcoding to assess the presence of…
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Keywords:
dna;
large benthic;
bulk dna;
foraminifera ... See more keywords
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Published in 2019 at "Tumor Biology"
DOI: 10.1158/1538-7445.am2019-4689
Abstract: Several approaches are now available for subclonal reconstruction of heterogeneous tumor biopsies from somatic variant allele frequencies measured in bulk DNA sequencing datasets, including our own SubcloneSeeker program. However, to understand how chemoresistance, relapse, or…
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Keywords:
bulk dna;
tumor;
cell;
subclone specific ... See more keywords
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Published in 2021 at "Genome Biology"
DOI: 10.1186/s13059-021-02330-1
Abstract: Haplotype phase represents the collective genetic variation between homologous chromosomes and is an essential feature of non-haploid genomes. Here we describe a computational strategy to reliably determine complete whole-chromosome haplotypes using a combination of bulk…
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Keywords:
complete chromosomal;
dna sequencing;
determination complete;
chromosomal haplotypes ... See more keywords
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Published in 2022 at "Genome Biology"
DOI: 10.1186/s13059-022-02600-6
Abstract: Clonal analysis of tumour sequencing data enables the evaluation of the relationship of histologically distinct synchronous lesions, such as co-existing benign areas, and temporally distinct tumours, such as primary-recurrence comparisons. In this review, we summarise…
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Keywords:
statistical approaches;
evaluating statistical;
bulk dna;
define clonal ... See more keywords