Next-generation data filtering in the genomics era
Genomic data are ubiquitous across disciplines, from agriculture to biodiversity, ecology,
evolution and human health. However, these datasets often contain noise or errors and are …
evolution and human health. However, these datasets often contain noise or errors and are …
Genome-resolved metagenomics using environmental and clinical samples
Recent advances in high-throughput sequencing technologies and computational methods
have added a new dimension to metagenomic data analysis ie genome-resolved …
have added a new dimension to metagenomic data analysis ie genome-resolved …
Trimming and validation of Illumina short reads using trimmomatic, trinity assembly, and assessment of RNA-seq data
SO Sewe, G Silva, P Sicat, SE Seal… - … : Methods and protocols, 2022 - Springer
Next-generation sequencing (NGS) technologies can generate billions of reads in a single
sequencing run. However, with such high-throughput comes quality issues which have to be …
sequencing run. However, with such high-throughput comes quality issues which have to be …
[HTML][HTML] Weak gene–gene interaction facilitates the evolution of gene expression plasticity
HC Kuo, CT Yao, BY Liao, MP Weng, F Dong, YC Hsu… - BMC biology, 2023 - Springer
Background Individual organisms may exhibit phenotypic plasticity when they acclimate to
different conditions. Such plastic responses may facilitate or constrain the adaptation of their …
different conditions. Such plastic responses may facilitate or constrain the adaptation of their …
[HTML][HTML] seqQscorer: automated quality control of next-generation sequencing data using machine learning
Controlling quality of next-generation sequencing (NGS) data files is a necessary but
complex task. To address this problem, we statistically characterize common NGS quality …
complex task. To address this problem, we statistically characterize common NGS quality …
Read trimming has minimal effect on bacterial SNP-calling accuracy
SJ Bush - Microbial genomics, 2020 - microbiologyresearch.org
Read alignment is the central step of many analytic pipelines that perform variant calling. To
reduce error, it is common practice to pre-process raw sequencing reads to remove low …
reduce error, it is common practice to pre-process raw sequencing reads to remove low …
Genomic architecture underlying morphological and physiological adaptation to high elevation in a songbird
CW Lu, ST Huang, SJ Cheng, CT Lin, YC Hsu… - Molecular …, 2023 - Wiley Online Library
Organisms often acquire physiological and morphological modifications to conquer
ecological challenges when colonizing new environments which lead to their adaptive …
ecological challenges when colonizing new environments which lead to their adaptive …
The interplay of colour and bioacoustic traits in the differentiation of a Southeast Asian songbird complex
Morphological traits have served generations of biologists as a taxonomic indicator, and
have been the main basis for defining and classifying species diversity for centuries. A …
have been the main basis for defining and classifying species diversity for centuries. A …
Elevational plumage divergence in the Rufous‐capped Babbler (Cyanoderma ruficeps) on a mountainous island
YT Fang, CT Yao, YC Hsu, CM Hung - Ibis, 2022 - Wiley Online Library
Environment plays an important role in the evolution of plumage coloration in birds and may
also lead to sexual dichromatism if males and females face different selection pressures …
also lead to sexual dichromatism if males and females face different selection pressures …
Analisis filogenetik Hyposidra talaca nucleopolyhedrovirus (HytaNPV) yang diisolasi dari perkebunan teh Gunung Mas, Bogor, Jawa Barat dan virulensinya terhadap …
RYM Kusumah, F Kurniawati, ED Kristanto… - Jurnal Entomologi …, 2023 - pei-pusat.org
Hyposidra talaca (Walker) is an important pest of tea plant. H. talaca can cause losses of
between 40–100% in the dry season if proper control is not carried out. H. talaca has natural …
between 40–100% in the dry season if proper control is not carried out. H. talaca has natural …