Clonal replacement of tumor-specific T cells following PD-1 blockade

KE Yost, AT Satpathy, DK Wells, Y Qi, C Wang… - Nature medicine, 2019 - nature.com
Immunotherapies that block inhibitory checkpoint receptors on T cells have transformed the
clinical care of patients with cancer. However, whether the T cell response to checkpoint …

Obtaining reliable RT-qPCR results in molecular diagnostics—MIQE goals and pitfalls for transcriptional biomarker discovery

C Grätz, MLU Bui, G Thaqi, B Kirchner, RP Loewe… - Life, 2022 - mdpi.com
In this review, we discuss the development pipeline for transcriptional biomarkers in
molecular diagnostics and stress the importance of a reliable gene transcript quantification …

Xyloglucan processing machinery in Xanthomonas pathogens and its role in the transcriptional activation of virulence factors

PS Vieira, IM Bonfim, EA Araujo, RR Melo… - Nature …, 2021 - nature.com
Xyloglucans are highly substituted and recalcitrant polysaccharides found in the primary cell
walls of vascular plants, acting as a barrier against pathogens. Here, we reveal that the …

Modeling transcriptomic age using knowledge-primed artificial neural networks

N Holzscheck, C Falckenhayn, J Söhle… - npj Aging and …, 2021 - nature.com
The development of 'age clocks', machine learning models predicting age from biological
data, has been a major milestone in the search for reliable markers of biological age and …

Systematic analysis of 1298 RNA‐Seq samples and construction of a comprehensive soybean (Glycine max) expression atlas

FB Machado, KC Moharana, F Almeida‐Silva… - The Plant …, 2020 - Wiley Online Library
SUMMARY Soybean (Glycine max [L.] Merr.) is a major crop in animal feed and human
nutrition, mainly for its rich protein and oil contents. The remarkable rise in soybean …

Stable gene expression for normalisation and single-sample scoring

DD Bhuva, J Cursons, MJ Davis - Nucleic Acids Research, 2020 - academic.oup.com
Gene expression signatures have been critical in defining the molecular phenotypes of cells,
tissues, and patient samples. Their most notable and widespread clinical application is …

Optimal use of statistical methods to validate reference gene stability in longitudinal studies

VK Sundaram, NK Sampathkumar, C Massaad… - PloS one, 2019 - journals.plos.org
Multiple statistical approaches have been proposed to validate reference genes in qPCR
assays. However, conflicting results from these statistical methods pose a major hurdle in …

Using RNA-seq data to select reference genes for normalizing gene expression in apple roots

Z Zhou, P Cong, Y Tian, Y Zhu - PloS one, 2017 - journals.plos.org
Gene expression in apple roots in response to various stress conditions is a less-explored
research subject. Reliable reference genes for normalizing quantitative gene expression …

Pan-cancer analysis of TCGA data revealed promising reference genes for qPCR normalization

GS Krasnov, AV Kudryavtseva, AV Snezhkina… - Frontiers in …, 2019 - frontiersin.org
Quantitative PCR (qPCR) remains the most widely used technique for gene expression
evaluation. Obtaining reliable data using this method requires reference genes (RGs) with …

StCoExpNet: a global co-expression network analysis facilitates identifying genes underlying agronomic traits in potatoes

VS Bonthala, B Stich - Plant Cell Reports, 2024 - Springer
Potato (Solanum tuberosum L.) is the world's most crucial non-cereal food crop and ranks
third in food production after wheat and rice. Despite the availability of several potato …