Single-Cell

scRepertoire 2: Enhanced and efficient toolkit for single-cell immune profiling
Single-cell adaptive immune receptor repertoire sequencing (scAIRR-seq) and single-cell RNA sequencing (scRNA-seq) provide a …
Qile Yang, Ksenia R. Safina, Kieu Diem Quynh Nguyen, Zewen Kelvin Tuong, Nick Borcherding
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scRepertoire 2: Enhanced and efficient toolkit for single-cell immune profiling
dandelionR: Single-cell immune repertoire trajectory analysis in R
Integration of single-cell RNA-sequencing (scRNA-seq) and adaptive immune receptor (AIR) sequencing (scVDJ-seq) is extremely powerful …
Jiawei Yu, Xiaohan Xu, Nick Borcherding, Zewen Kelvin Tuong
PDF DOI Pubmed
Myelin-reactive CD8+ T cells influence conventional dendritic cell subsets towards a mature and regulatory phenotype in experimental autoimmune encephalomyelitis
Multiple sclerosis (MS), an autoimmune demyelinating disease of the central nervous system, is modeled in mice as experimental …
Mohit Upadhye, Connor R. Wilhelm, Kai J. Rogers, Chakrapani Vemulawada,, Nick Borcherding, Alexander W. Boyden,, Kevin L. Legge, Nitin J. Karandikar
PDF DOI Pubmed
Leveraging single-cell transcriptomic data to uncover immune suppressive cancer cell subsets in triple-negative canine breast cancers
Single-cell RNA sequencing (scRNA-seq) has become an essential tool for uncovering the complexities of various physiological and …
Myung-Chul Kim, Myung-Chul Kim, Nick Borcherding, Woo-Jin Song,, Ryan Kolb, Weizhou Zhang
PDF DOI Pubmed
CD8+ T-cell differentiation and dysfunction inform treatment response in acute myeloid leukemia
The interplay between T-cell states of differentiation, dysfunction, and treatment response in acute myeloid leukemia (AML) remains …
Francesco Mazziotta, Luca Biavati, Joseph Rimando, Sergio Rutella, Nick Borcherding, Sonali Parbhoo, Rupkatha Mukhopadhyay, Sayan Chowdhury, Hanna A. Knaus, Peter Valent, Hubert Hackl, Ivan M. Borrello, Bruce R. Blazar, Katerina Hatzi, Ivana Gojo, Leo Luznik
PDF DOI Pubmed
CD4+ T cells exhibit distinct transcriptional phenotypes in the lymph nodes and blood following mRNA vaccination in humans
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection and mRNA vaccination induce robust CD4+ T cell responses. Using …
Nick Borcherding, Wooseob Kim, Michael Quinn, Fangjie Han, Julian Q Zhou, Alexandria J Sturtz, Aaron J Schmitz, Tingting Lei, Stefan A Schattgen, Michael K Klebert, Teresa Suessen, William D Middleton, Charles W Goss, Chang Liu, Jeremy Chase Crawford, Paul G Thomas, Sharlene A Teefey, Rachel M Presti, Jane A O'Halloran, Jackson S Turner, Ali H Ellebedy, Philip A Mudd
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CD4+ T cells exhibit distinct transcriptional phenotypes in the lymph nodes and blood following mRNA vaccination in humans
Single-cell transcriptomics unveil profiles and interplay of immune subsets in rare autoimmune childhood Sjögren's disease
Childhood Sjögren’s disease represents critically unmet medical needs due to a complete lack of immunological and molecular …
Myung-Chul Kim, Umasankar De, Nick Borcherding, Lei Wang, Joon Paek, Indraneel Bhattacharyya, Qing Yu, Ryan Kolb, Theodore Drashansky, Akaluck Thatayatikom, Weizhou Zhang, Seunghee Cha
PDF DOI Pubmed
Single-cell immune repertoire analysis
Single-cell T cell and B cell antigen receptor-sequencing data analysis can potentially perform in-depth assessments of adaptive immune …
Sergio Irac, Megan Sioe Fei Soon, Nick Borcherding, Zewen Kelvin Tuong
PDF DOI Pubmed
Type I Interferon Drives a Cellular State Inert to TCR‐Stimulation and Could Impede Effective T‐Cell Differentiation in Cancer
Head and neck squamous cell carcinoma (HNSCC) is linked to human papillomavirus (HPV) infection. HPV-positive and HPV-negative HNSCC …
Dillon Corvino, Martin Batstone, Brett G M Hughes, Tim Kempchen, Susanna S Ng, Nazhifah Salim, Franziska Schneppenheim, Denise Rommel, Ananthi Kumar, Sally Pearson, Jason Madore, Lambross T Koufariotis, Lisa Maria Steinheuer, Dilan Pathirana, Kevin Thurley, Michael Hölzel, Nick Borcherding, Matthias Braun, Tobias Bald
PDF DOI Pubmed
T Cell Clonal Analysis Using Single-cell RNA Sequencing and Reference Maps
T cells are endowed with T-cell antigen receptors (TCR) that give them the capacity to recognize specific antigens and mount …
Massimo Andreatta, Paul Gueguen, Nick Borcherding, Santiago Carmona
PDF DOI Pubmed