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Bioscience

Transcriptomics

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Displaying 1 - 7 of 7

SARS-CoV-2 infection establishes an enhanced, stable, and age-independent CD8+ T cell response against a dominant nucleocapsid epitope using highly restricted TCRs

October 23, 2023
Author(s)
Cecily Choy, Joseph Chen, Jiangyuan Li, Jian Lu, Daichao Wu, Ainslee Zou, Humza Hemani, Beverly Baptiste, Emily Wichmann, Qian Yang, Jeffrey Ciffelo, Rui Yin, Julia McKelvy, Denise Melvin, Tonya Wallace, Christopher Dunn, Cuong Nguyen, Chee Chia, Jingshui Fan, Jeannie Ruffolo, Linda Zukley, Guixin Shi, Tomokazu Amano, An Yang, Osorio Meirelles, Wells Wu, Rong-Fong Chen, RICHARD WILLIS, Minoru Ko, Y-T Liu, Supriyo De, Brian Pierce, Luigi Ferrucci, josephine egan, Roy Mariuzza, Nan-ping Weng, David Travis Gallagher
We analyzed circulating CD8+ T cells recognizing six epitopes from the SARS-CoV-2 nucleocapsid (N) protein in HLA-A2+ unexposed and recovered COVID-19 patients using multi-color flow cytometry and scRNAseq. We found that SARS-CoV-2 infection slightly

Understanding molt control switches: Transcriptomic and expression analysis of the genes involved in ecdysteroidogenesis and cholesterol uptake pathways in the Y-organ of the blue crab, Callinectes sapidus

September 3, 2021
Author(s)
Tracey Johnston, Elena Legrand, J. Sook Chung, Tsvetan Bachvaroff
The crustacean molting process is regulated by an interplay of hormones produced by the eyestalk ganglia and Y-organs (YO). Molt-inhibiting hormone and crustacean hyperglycemic hormone released by the sinus gland of the eyestalk ganglia (EG) inhibit the

Species and population specific gene expression in blood transcriptomes of marine turtles

May 13, 2021
Author(s)
Shreya M. Banerjee, Jamie A. Stoll, Camryn D. Allen, Jennifer Lynch, Heather Harris, Lauren Kenyon, Eleanor Sterling, Eugenia Naro-Maciel, Kate McFadden, Margaret Lamont, James Benge, Jeffrey A. Seminoff, Scott Benson, Rebecca L. Lewison, Tomoharu Eguchi, T. T. Jones, Peter Dutton, George H. Balazs, Lisa M. Komoroske
Background Transcriptomic data has demonstrated utility to advance the study of physiological diversity and organisms' responses to environmental stressors. However, a lack of genomic resources and challenges associated with collecting high-quality RNA can

Active Transcriptomic and Proteomic Reprogramming in the C. elegans Nucleotide Excision Repair Mutant xpa-1

April 9, 2013
Author(s)
Katarzyna Arczewska, Gisele Tomazella, Jessica Lindvall, Henok Kassahun, Silvia Maglioni, Alessandro Torgovnick, Johan Henriksson, Olli Matilainen, Bryce J. Marquis, Bryant Nelson, Eshrat Babaie, Carina Holmberg, Thomas Burglin, Natascia Ventura, Bernd Thiede, Hilde Nilsen
Transcription-blocking oxidative DNA damage is believed to contribute to aging and to underlie activation of oxidative stress-responses and down-regulation of insulin-like signaling (ILS) in Nucleotide Excision Repair (NER) deficient mice. Here, we present

Synthetic spike-in standards for RNA-seq experiments

August 31, 2011
Author(s)
Marc L. Salit, Lichun Jiang, Felix Schlesinger, Brian Oliver, Carrie Davis, Yu Zhang, Renhua Li, Thomas R. Gingeras
High-throughput sequencing of cDNA (RNA-seq) is a widely deployed transcriptome profiling and annotation technique, but questions about the performance of different protocols and platforms remain. We used a newly developed pool of 96 synthetic RNAs with
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