...—for further information please contact [email protected]. Abstract Background Clonal hematopoiesis (CH) may be inferred from clinical next-generation sequencing (NGS) of tumor tissue. The clinical significance of inferred CH when detected as part of routine tumor sequencing is not well...

...-based sequencing for detecting genomic alterations in solid tumors. However, the clinical utility of liquid biopsy in patients with solid tumors for whom tissue-based next-generation sequencing (NGS) is infeasible has not been well-characterized, particularly in previously untreated individuals...

... intervention. circRNA/lncRNA-miRNA-mRNA RNA sequencing RNA networks transcriptome competitive endogenous RNAs Australian Government Research Training Program Scholarship Transcriptome analyses have revealed that up to 90% of transcripts do not encode proteins and are termed non-coding RNAs (ncRNAs) [ 1...

... and sampling them in the wild. Although noninvasive approaches have proven effective for large mammals, such an approach has rarely been applied to rodents. Here, we describe a novel noninvasive approach for sampling rodent hairs in tropical forest and caves in Gabon, and present cytochrome b sequence...

... artemisinin partial resistance (ART-R) due to mutations in the gene encoding Kelch13 (Pfk13) protein in eastern Africa is of urgent concern, and mutations, such as Pfk13 P441L, continue to emerge. We used an amplicon deep-sequencing panel to estimate the prevalence of validated and candidate...

... reflex algorithm in BCR::ABL1–negative myeloproliferative neoplasms (MPNs). However, next-generation sequencing (NGS) has revealed that these variants may coexist, exposing limitations in current testing practices. Methods This pilot study analyzed 3 JAK2 p.V617F–positive MPN cases...

... show a modest decrease in performance in the estimation of the age of mutations. allele age whole exome sequencing exome WES personalized genomics 1 Allele age estimators designed for whole genome datasets show only a moderate 2 reduction in performance when applied to whole exome datasets 3 4...

... these responses. Together, our findings describe key events in the pulmonary anti-IAV response of pigs that open new avenues to develop IAV vaccines and therapies. They should also enable the better use of pigs as a model for human IAV infection and immunity. pig single cell RNA sequencing influenza A virus...

... due to insufficient taxon sampling. Although next-generation sequencing technology allows us to obtain complete genomes for phylogenetic analyses, generating complete genomes of fungal species can be challenging, especially when fungi occur in symbiotic relationships or when the DNA of rare herbarium...

... of streamertail speciation. islands speciation hybrid zone hummingbird genotyping-by-sequencing LSUMNS, a Buck Fellowship (Smithsonian Institution) Chapman Grant (American Museum of Natural History) James Bond Fund and Alexander Wetmore Fund of the Smithsonian Institution NSF DEB...

... in age-at-maturity, these results provided evidence for genetic heritability and candidate genes associated with this trait that will assist in monitoring genetic variation to maintain life history variation in Chinook Salmon. genome wide association analyses low-coverage whole genome sequencing...

... Enteritidis, Escherichia coli O157:H7, and Listeria monocytogenes) and Nanopore cDNA sequencing data (S. enterica). The median length of the assembled transcripts is 929 nt (A), where 1253 of these transcripts harbour two or more annotated ORFs (B). Figure 2 Ribosome profiling...

... each genome against all others (see in house script 2_fastani2matrix.py). This resulted in n × n square matrices of 1-similarity values, which were then used as input for the machine learning algorithm in serovar prediction. The downloaded core genomic sequences were used...

... them for investigation. food-borne diseases infectious diseases SARS-CoV-2 Salmonella surveillance whole-genome sequencing US Centers for Disease Control and Prevention NU90TP922035-05 NU50CK000517-01–09 NU50CK000517-05–00 Key Messages Current practices for the detection...

...Haicheng Li; Junhua Niu; Yalan Sheng; Yifan Liu; Shan Gao Several methodologies have been developed to detect 6mA, including dot blot, liquid chromatography–mass spectrometry (LC–MS), and 6mA immunoprecipitation sequencing (6mA-IP-seq) [ 13–15 ]. While these techniques have provided valuable...

...). Preoperative and postoperative symptoms were determined based on recorded neurosurgical clinical assessment prior to and following surgery. Figure 2. Single-cell RNA sequencing of glioependymal and arachnoid cyst samples shows unique cell types and proportions. (A) Glioependymal cyst sample UMAP includes...

... SMRTbell library was prepared using the SMRTbell Express Template Prep Kit 2.0. These libraries were then sequenced using 4 PacBio Sequel II SMRTcells. PacBio HiFi reads were assembled into contigs using Hifiasm v. 0.16.1-r375 ( Cheng et al. 2021 , 2022 , 2024 ). The consensus primary contigs...

... sequencing was conducted in 71 children with SLDP, most of whom presented with short stature. Rare coding variants were prioritized through comprehensive bioinformatics analyses and classified as high-impact or moderate-impact based on predicted functional effects. Candidate genes were selected based...

... for breast cancer using whole-genome sequencing. Among the multimodal cfFrag profiles, the fragment size ratio (FSR), fragment size distribution (FSD), and copy number variation (CNV) show more distinguishing ability than Griffin, motif breakpoint (MBP), and neomer. The cfFrag model using the optimal three...

... sequencing revealed that the GA strain possessed 235 virulence genes and two drug resistance-related genes: cyclic AMP receptor protein (CRP) and regulator of secondary metabolites A (rsmA). Testing via PCR further confirmed the presence of 10 common virulence genes. Results Antibiotic...