[HTML][HTML] The use of single-cell RNA-Seq to understand virus–host interactions

S Cristinelli, A Ciuffi - Current opinion in virology, 2018 - Elsevier
Highlights•Single cell analyses reveal cell heterogeneity, often masked at population
level.•ScRNA-Seq identifies transcriptomic signatures hallmarking distinct cell …

Atypical acute myeloid leukemia-specific transcripts generate shared and immunogenic MHC class-I-associated epitopes

G Ehx, JD Larouche, C Durette, JP Laverdure… - Immunity, 2021 - cell.com
Acute myeloid leukemia (AML) has not benefited from innovative immunotherapies, mainly
because of the lack of actionable immune targets. Using an original proteogenomic …

Kmtricks: efficient and flexible construction of bloom filters for large sequencing data collections

T Lemane, P Medvedev, R Chikhi… - Bioinformatics …, 2022 - academic.oup.com
When indexing large collections of short-read sequencing data, a common operation that
has now been implemented in several tools (Sequence Bloom Trees and variants, BIGSI) is …

Bridging the gap between reference and real transcriptomes

A Morillon, D Gautheret - Genome biology, 2019 - Springer
Genetic, transcriptional, and post-transcriptional variations shape the transcriptome of
individual cells, rendering establishing an exhaustive set of reference RNAs a complicated …

Improved Reference Genome Uncovers Novel Sex-Linked Regions in the Guppy (Poecilia reticulata)

BA Fraser, JR Whiting, JR Paris… - Genome Biology and …, 2020 - academic.oup.com
Abstract Theory predicts that the sexes can achieve greater fitness if loci with sexually
antagonistic polymorphisms become linked to the sex determining loci, and this can favor …

MINTIE: identifying novel structural and splice variants in transcriptomes using RNA-seq data

M Cmero, B Schmidt, IJ Majewski, PG Ekert, A Oshlack… - Genome Biology, 2021 - Springer
Calling fusion genes from RNA-seq data is well established, but other transcriptional
variants are difficult to detect using existing approaches. To identify all types of variants in …

[HTML][HTML] LINC00922 accelerates the proliferation, migration and invasion of lung cancer via the miRNA-204/CXCR4 axis

T Liang, B Wang, J Li, Y Liu - Medical science monitor …, 2019 - ncbi.nlm.nih.gov
LINC00922 Accelerates the Proliferation, Migration and Invasion of Lung Cancer Via the
miRNA-204/CXCR4 Axis - PMC Back to Top Skip to main content NIH NLM Logo Access keys …

Genetic variations associated with long noncoding RNAs

J Luo, R Chen - Essays in Biochemistry, 2020 - portlandpress.com
Genetic variations, including single nucleotide polymorphisms (SNPs) and structural
variations, are widely distributed in the genome, including the long noncoding RNA …

iMOKA: k-mer based software to analyze large collections of sequencing data

C Lorenzi, S Barriere, JP Villemin, L Dejardin Bretones… - Genome biology, 2020 - Springer
Abstract iMOKA (interactive multi-objective k-mer analysis) is a software that enables
comprehensive analysis of sequencing data from large cohorts to generate robust …

Reference-free transcriptome exploration reveals novel RNAs for prostate cancer diagnosis

M Pinskaya, Z Saci, M Gallopin, M Gabriel… - Life science …, 2019 - life-science-alliance.org
The use of RNA-sequencing technologies held a promise of improved diagnostic tools
based on comprehensive transcript sets. However, mining human transcriptome data for …