WASTER: Practical de novo Phylogenomics from Low-coverage Short Reads. [PDF]
Mol Biol EvolZhang C, Nielsen R.
europepmc +1 more source
Hamming-shifting graph of genomic short reads: Efficient construction and its application for compression. [PDF]
PLoS Comput Biol, 2021 Liu Y, Li J.
europepmc +1 more source
Cell surface CD11c as a neutrophil aging marker molecule
FEBS Open Bio, EarlyView.Cell surface CD11chi neutrophils were more aged and had better phagocytic function than CD11c−/lo neutrophils. Transcriptomic analysis of CD11chi neutrophils and CD11c−/lo neutrophils in pediatric population showed that the most difference was seen in infants.
Sophia Koutsogiannaki +5 more
wiley +1 more source
Estimating the size of long tandem repeat expansions from short reads with ScatTR. [PDF]
Genome ResAl-Abri R, Gürsoy G.
europepmc +1 more source
Correction to: 'Accurate profiling of full-length Fv in highly homologous antibody libraries using UMI tagged short reads'. [PDF]
Nucleic Acids Res, 2023 europepmc +1 more source
BCG vaccination potentiates oxidative phosphorylation in neonatal myeloid‐derived suppressor cells
FEBS Open Bio, EarlyView.BCG vaccination enhances oxidative phosphorylation in neonatal MDSCs, impairing their immunosuppressive function. It upregulates electron transport chain genes and mitochondrial activity, increasing ATP and oxygen consumption. Pharmacological OXPHOS inhibition partially restores suppressive capacity, confirming causality.
Yingying Chen, Hui Li
wiley +1 more source
SVhet: towards accurate detection of germline heterozygous deletions using short reads. [PDF]
BMC BioinformaticsShe CH, Chan SH, Yang W.
europepmc +1 more source
Demonstrating the utility of flexible sequence queries against indexed short reads with FlexTyper. [PDF]
PLoS Comput Biol, 2021 Richmond PA +4 more
europepmc +1 more source
FEBS Open Bio, EarlyView.The neurokinin 1 receptor exists as full‐length (NK1L) and C‐terminally truncated (NK1S) splice variants. We show that NK1S heterodimerizes with NK1L, impairing Gαq coupling and Ca2+ mobilization while enhancing β‐arrestin1 recruitment. NK1S suppresses substance P‐driven gene expression and cell migration, revealing NK1S as an endogenous biased ...
Lan Phuong Nguyen +8 more
wiley +1 more source
OrthoGarden: a pipeline for propagating phylogenetic trees for nonmodel organisms from short reads and de novo genome assemblies. [PDF]
Mol Biol EvolTurner JH +3 more
europepmc +1 more source