Publications by authors named "Luis Ferrandez-Peral"
Article Synopsis
- * They generated over 427 million long-read sequences and found that longer, more accurate sequences yield better transcript detection, while increased read depth enhances quantification.
- * The study suggests that using reference-based tools works best for well-annotated genomes and recommends incorporating extra data to better identify rare transcripts, providing a benchmark for improving transcriptome analysis techniques in the future.
SLC22A10 is an orphan transporter with unknown substrates and function. The goal of this study is to elucidate its substrate specificity and functional characteristics. In contrast to orthologs from great apes, human SLC22A10, tagged with green fluorescent protein, is not expressed on the plasma membrane.
View Article and Find Full Text PDFSLC22A10 is classified as an orphan transporter with unknown substrates and function. Here we describe the discovery of the substrate specificity and functional characteristics of SLC22A10. The human SLC22A10 tagged with green fluorescent protein was found to be absent from the plasma membrane, in contrast to the SLC22A10 orthologs found in great apes.
View Article and Find Full Text PDFSLC22A10 is classified as an orphan transporter with unknown substrates and function. Here we describe the discovery of the substrate specificity and functional characteristics of SLC22A10. The human SLC22A10 tagged with green fluorescent protein was found to be absent from the plasma membrane, in contrast to the SLC22A10 orthologs found in great apes.
View Article and Find Full Text PDFArticle Synopsis
- The Long-read RNA-Seq Genome Annotation Assessment Project (LRGASP) Consortium aimed to evaluate long-read sequencing for analyzing transcripts by generating over 427 million sequences from various species.
- The findings highlighted that longer, accurate sequences yield better transcript identification, while increased read depth enhances quantification accuracy, particularly in well-annotated genomes.
- The study serves as a benchmark for transcriptome analysis strategies and suggests using additional data for detecting rare transcripts or employing reference-free methods.
Recent advances in long-read sequencing technologies have allowed the generation and curation of more complete genome assemblies, enabling the analysis of traditionally neglected chromosomes, such as the human Y chromosome (chrY). Native DNA was sequenced on a MinION Oxford Nanopore Technologies sequencing device to generate genome assemblies for seven major chrY human haplogroups. We analyzed and compared the chrY enrichment of sequencing data obtained using two different selective sequencing approaches: adaptive sampling and flow cytometry chromosome sorting.
View Article and Find Full Text PDFTranscriptomic diversity greatly contributes to the fundamentals of disease, lineage-specific biology, and environmental adaptation. However, much of the actual isoform repertoire contributing to shaping primate evolution remains unknown. Here, we combined deep long- and short-read sequencing complemented with mass spectrometry proteomics in a panel of lymphoblastoid cell lines (LCLs) from human, three other great apes, and rhesus macaque, producing the largest full-length isoform catalog in primates to date.
View Article and Find Full Text PDFHuman nervous system development is an intricate and protracted process that requires precise spatiotemporal transcriptional regulation. We generated tissue-level and single-cell transcriptomic data from up to 16 brain regions covering prenatal and postnatal rhesus macaque development. Integrative analysis with complementary human data revealed that global intraspecies (ontogenetic) and interspecies (phylogenetic) regional transcriptomic differences exhibit concerted cup-shaped patterns, with a late fetal-to-infancy (perinatal) convergence.
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