Results 61 to 70 of about 7,947,893 (291)

Design and analysis strategies for robust microbiome ageing research

FEBS Letters, EarlyView.
The gut microbiome changes with age and associates with age‐related morbidity and mortality, establishing it as a potential biomarker and intervention target for ageing. Realising this potential requires methodological rigour, yet distinguishing biological signals from methodological artefacts remains challenging across cohorts. This review provides an
Mark Olenik, İsmail Güderer, Yi Wang, Tayyaba Alvi, Prasoon Pandey, Handan Melike Dönertaş   +5 more
wiley   +1 more source

Short read Illumina data for the de novo assembly of a non-model snail species transcriptome (Radix balthica, Basommatophora, Pulmonata), and a comparison of assembler performance [PDF]

, 2011
Background: Until recently, read lengths on the Solexa/Illumina system were too short to reliably assemble transcriptomes without a reference sequence, especially for non-model organisms.
Wheat, Christopher W., Markus Pfenninger, Rotter, Björn, Pfenninger, Markus, Björn Rotter, Christopher W Wheat, Nicolas Krezdorn, Feldmeyer, Barbara, Krezdorn, Nicolas, Rotter, Bjoern, Barbara Feldmeyer   +10 more
core   +2 more sources

Transcriptomics in the era of long-read sequencing

Nature Reviews Genetics
Transcriptome sequencing revolutionized the analysis of gene expression, providing an unbiased approach to gene detection and quantification that enabled the discovery of novel isoforms, alternative splicing events and fusion transcripts. However, although short-read sequencing technologies have surpassed the limited dynamic range of previous ...
Carolina Monzó, Tianyuan Liu, Ana Conesa   +2 more
openaire   +3 more sources

Investigating transcription factor dynamics in health and disease using FRAP

FEBS Letters, EarlyView.
FRAP analysis of GFP‐tagged transcription factors reveals how molecular mobility and target engagement change in response to drug treatment. By combining live‐cell imaging, quantitative model fitting, and statistical analysis, this approach uncovers transcription factor dynamics linked to disease mechanisms, providing a powerful framework for ...
Kannan Govindaraj, Carolina Vazquez Garzon, Jose Joaquin Velasco, Janine N. Post   +3 more
wiley   +1 more source

Long-read sequencing report with Oxford Nanopore Technologies of different soil samples using different DNA extraction methods.

, 2023
Long-read sequencing report with Oxford Nanopore Technologies of different soil samples using different DNA extraction ...
Andrey Zamyatnin (16857811), Olga Samuilova (16857733), Ulykbek Kairov (16857807), Konstantin I. Ivanov (16857730), Ruslan Kalendar (16857663)   +4 more
core   +1 more source

Revealing co-infections in pneumonia: A case report on advancing diagnosis with metagenomic sequencing technologies

Journal of Infection and Public Health
Pneumonia, a frequent and serious complication in kidney transplant recipients, is significantly increased by long-term immunosuppressive medication. This case report details a patient with lung cavitation, in which conventional microbiological methods ...
Suzan Alzeer, Reem S. Almaghrabi, Amna Magrashi, Turki Alzahrani, Razan Bakheet, Abdulmohsen Alqasabi, Hamsa Tayeb   +6 more
doaj   +1 more source

Merging short and stranded long reads improves transcript assembly.

PLoS Computational Biology, 2023
Long-read RNA sequencing has arisen as a counterpart to short-read sequencing, with the potential to capture full-length isoforms, albeit at the cost of lower depth.
Amoldeep S Kainth, Gabriela A Haddad, Johnathon M Hall, Alexander J Ruthenburg   +3 more
doaj   +1 more source

An epithelial GPR35 isoform supports tumor‐associated transcriptional and metabolic phenotypes

FEBS Letters, EarlyView.
GPR35 generates two functionally distinct isoforms with previously unresolved roles. GPR35‐short mediates immune‐cell chemotaxis, while GPR35‐long is enriched in colorectal cancer epithelium, where it supports increased metabolism, proliferation, and tumor‐associated transcriptional programs.
Jørgen D. Rønneberg, Martine Hjeltnes, Josephine Krieger, Joshua E. Elias, Maria Stensland, Kristian Holm, Xiaojun Jiang, Chuki Khangsar, Tuula A. Nyman, Arthur Kaser, Johannes R. Hov, Tom H. Karlsen, Nicole C. Kaneider, Frode L. Jahnsen, Georg Schneditz   +14 more
wiley   +1 more source

Epigenetic reprogramming of lineage switching in cancer

FEBS Letters, EarlyView.
Cancer cells rarely commit to a single identity. Epigenetic mechanisms and tumor microenvironment cues push epithelial cells toward flexible, hybrid states that can shift into mesenchymal, neuroendocrine, or stem‐like fates, driving metastasis, drug resistance, and tumor heterogeneity. Targeting the epigenetic regulators behind these transitions, using
Ezgi Boyvatlı, Burcu Akman, Ezgi Bağırsakçı, Nese Atabey, Serap Erkek‐Ozhan   +4 more
wiley   +1 more source

SMURF-seq: efficient copy number profiling on long-read sequencers

Genome Biology, 2019
We present SMURF-seq, a protocol to efficiently sequence short DNA molecules on a long-read sequencer by randomly ligating them to form long molecules. Applying SMURF-seq using the Oxford Nanopore MinION yields up to 30 fragments per read, providing an ...
Rishvanth K. Prabakar, Liya Xu, James Hicks, Andrew D. Smith   +3 more
doaj   +1 more source