15 papers · ranked by Valyu relevance
Ian Jhemes Oliveira Sousa, Kerolayne de Melo Nogueira, Ester Miranda Pereira
1## Introduction: from morphology to functional precision in oncology Modern oncology has witnessed a paradigm shift, moving from therapeutic approaches based on histopathological and anatomical characteristics to personalized strategies defined as Precision Medicine (1). This evolution is driven by the increasing…
Xinlong Qiao, Bijiao Jian, Jiatong Qiu, Jagmohan Singh + 9 more
The solanaceae family includes several economically important crops. Tomato (Solanum lycopersicum), potato (S. tuberosum), eggplant (S. melongena), and pepper (Capsicum annuum) are among the most consumed vegetables worldwide. Over the past few decades, consumers have often expressed dissatisfaction with declining…
Apostolos Malatras, Ioannis Michalopoulos
Transcriptomics refers to the study of all transcripts of a cell or a tissue, as well as transcript expression quantification. Transcriptomics technologies include microarrays and RNA-Seq. The accumulation of transcriptomics samples freely available in public repositories has enabled the massive re-analysis of those…
Izabela Mamede, Lucio R Queiroz, Carlos Mata-Machado, Júlia Teixeira Rodrigues + 5 more
Transcriptome analysis is one of the bases of modern biology, yet it is typically performed at the gene level, ignoring the complexity of alternative splicing and differential transcription initiation/termination events. Over 95% of mammalian genes produce multiple transcripts, yet most RNA-seq analyses rely on…
Kayleigh Casmey, Maria Zimmermann, Yuxin Xie, Sierra A. Codeluppi-Arrowsmith + 2 more
Single-cell omics technology has advanced rapidly since its inception, offering increasing precision, resolution, and technical diversity to explore cell-specific molecular features in the human brain and neuropsychiatric disorders. While traditional bulk genomic analyses have provided valuable insights into the…
Haoran Lu, Luyang Fang, Orlando Zeng, Ping Ma + 2 more
Spatial transcriptomics analysis is a powerful approach for dissecting the structure of tissue microenvironment and uncovering the mechanism of cell-cell communications. However, existing technologies are limited by either spatial resolution or gene coverage. Most single-cell resolution technologies target only a few…
Daria Chudakova, Olga Astakhova, Matthew Shkap, Ekaterina Levichkina + 4 more
Traumatic spinal cord injury (SCI) is a severe medical condition, often resulting in permanent disability, with significant impacts on patients’ quality of life and burden on healthcare systems. Current therapeutic approaches for SCI are insufficient, advocating for the development of more effective treatments. As…
Tanweer Beckett, Uljana Hesse, Alexandra S. Dubrovina
Rooibos (Aspalathus linearis) is one of the few endemic South African plants that has achieved economic importance and international acclaim, mostly as a herbal tea. Plant production, limited to a small mountainous region in South Africa, is at risk as commercial rooibos longevity is in decline, mostly due to low…
Jeremy W. Prokop, Stephanie M. Bilinovich, Ember Tokarski, Sangeetha Vishweswaraiah + 27 more
All three of the above studies showed heterogeneous individuals, where we realized the power of studying heterogeneous biology within RNA sequencing. As the heatmap of [F0007] shows, within many of our cohorts, there are unique patients with strong red bands in nearly every category of data mapping, suggesting that…
Yanni Cao, Kangcheng Xu, Xiaohui Li, Junyuan Zhang + 3 more
Title: Simple Summary While traditional gene sequencing technologies can identify cell types and gene activity, they cannot tell us where these cells live or how they are organized within tumor tissue. Spatial transcriptomics, an emerging technology, can simultaneously record gene expression information at each…
Kalin Nonchev, Sonali Andani, Joanna Ficek-Pascual, Marta Nowak + 4 more
In multicellular organisms, cells are organized into tissues, groups of cells exhibiting common characteristics related to the biological function (, ). Recent advances in spatial transcriptomics enable in-depth molecular characterization of samples, capturing their morphology and RNA composition while retaining the…
Christina Huan Shi, Juan C. Piña-Crespo, Kevin Y. Yip, Timothy Y. Huang
Alzheimer’s disease (AD) is a complex neurodegenerative disorder that is associated with cognitive decline in the elderly. While β-amyloid (Aβ) plaques and neurofibrillary tau tangles have been used to define and stage AD onset in human brain, how these pathologies can affect various cell types nearby remains a subject…
Nico Valerio Giger, Esther Wehrle
Purpose of Review Spatial transcriptomics enables to capture the whole transcriptome within the local microenvironment in bone. Within this review, we provide an overview of recent spatial transcriptomics applications and indicate its potential for advancing basic and translational research in skeletal development and…
Adam Koch, Kotaro Tomuro, Taisei Wakigawa, Tatsuya Morisaki + 2 more
The translation of mRNA is a tightly regulated, energy-intensive process that drives cellular diversity. Understanding its control requires tools that can capture behavior across scales. Over the past two decades, two complementary techniques have emerged that have transformed our understanding of mRNA translation…
Mojtaba Bagherian, Georgina Harris, Pratosh Sathishkumar, James P. B. Lloyd + 1 more
Backgrounds: Accurate annotation of open reading frames (ORFs) is fundamental for understanding gene function and post-transcriptional regulation. A critical but often overlooked aspect of transcriptome annotation is the selection of authentic translation start sites. Many genome annotation pipelines identify the…