Zobrazeno 1 - 10
of 75
pro vyhledávání: '"Aly A Khan"'
Publikováno v:
PLoS Computational Biology, Vol 20, Iss 3, p e1011915 (2024)
Proximity sequencing (Prox-seq) simultaneously measures gene expression, protein expression and protein complexes on single cells. Using information from dual-antibody binding events, Prox-seq infers surface protein dimers at the single-cell level. P
Externí odkaz:
https://doaj.org/article/7ae3907a73e744339ab7adbe9263b542
Autor:
Derek Reiman, Godhev Kumar Manakkat Vijay, Heping Xu, Andrew Sonin, Dianyu Chen, Nathan Salomonis, Harinder Singh, Aly A Khan
Publikováno v:
PLoS Computational Biology, Vol 17, Iss 5, p e1008094 (2021)
Single cell RNA sequencing (scRNAseq) can be used to infer a temporal ordering of cellular states. Current methods for the inference of cellular trajectories rely on unbiased dimensionality reduction techniques. However, such biologically agnostic or
Externí odkaz:
https://doaj.org/article/4d4b486c110d4e0fa8b74d5347207dc6
Autor:
Jean Lee, Leonid A. Yurkovetskiy, Derek Reiman, Lara Frommer, Zoe Strong, Anthony Chang, George J. Kahaly, Aly A. Khan, Alexander V. Chervonsky
Publikováno v:
Nature Communications, Vol 15, Iss 1, Pp 1-19 (2024)
Abstract Autoimmune diseases such as systemic lupus erythematosus (SLE) display a strong female bias. Although sex hormones have been associated with protecting males from autoimmunity, the molecular mechanisms are incompletely understood. Here we re
Externí odkaz:
https://doaj.org/article/bc3a12679ae64cf6bc73934d3ee92974
Autor:
Denise Lau, Sonal Khare, Michelle M. Stein, Prerna Jain, Yinjie Gao, Aicha BenTaieb, Tim A. Rand, Ameen A. Salahudeen, Aly A. Khan
Publikováno v:
Nature Communications, Vol 13, Iss 1, Pp 1-12 (2022)
Some cancer patients with impaired HLA-I still respond to immunotherapy. Here the authors combine a cytotoxic gene signature from CD4+ and CD8+ T cells with tumor mutational burden to predict immunotherapy response in NSCLC patients, including those
Externí odkaz:
https://doaj.org/article/c4b01b42753d4ca0bd0b71c82d76931e
Autor:
Aly A. Khan, Leonid Yurkovetskiy, Kelly O’Grady, Joseph M. Pickard, Renée de Pooter, Dionysios A. Antonopoulos, Tatyana Golovkina, Alexander Chervonsky
Publikováno v:
Cell Reports, Vol 29, Iss 3, Pp 541-550.e4 (2019)
Summary: Environmental influences (infections and diet) strongly affect a host’s microbiota. However, host genetics may influence commensal communities, as suggested by the greater similarity between the microbiomes of identical twins compared to n
Externí odkaz:
https://doaj.org/article/7613ea228e1147c692789bf4f72b422a
Autor:
Talal Ahmed, Mark A Carty, Stephane Wenric, Jonathan R Dry, Ameen A Salahudeen, Aly A Khan, Eric Lefkofsky, Martin C Stumpe, Raphael Pelossof
Publikováno v:
Briefings in Bioinformatics. 23
Reproducibility of results obtained using ribonucleic acid (RNA) data across labs remains a major hurdle in cancer research. Often, molecular predictors trained on one dataset cannot be applied to another due to differences in RNA library preparation
Microbiota-dependent proteolysis of gluten subverts diet-mediated protection against type 1 diabetes
Autor:
Matthew C. Funsten, Leonid A. Yurkovetskiy, Andrey Kuznetsov, Derek Reiman, Camilla H.F. Hansen, Katharine I. Senter, Jean Lee, Jeremy Ratiu, Shiva Dahal-Koirala, Dionysios A. Antonopoulos, Gary M. Dunny, Ludvig M. Sollid, David Serreze, Aly A. Khan, Alexander V. Chervonsky
Publikováno v:
Cell Host & Microbe. 31:213-227.e9
Diet and commensals can affect the development of autoimmune diseases like type 1 diabetes (T1D). However, whether dietary interventions are microbe-mediated was unclear. We found that a diet based on hydrolyzed casein (HC) as a protein source protec
Autor:
Jessica Spring, Aly A. Khan, Sophie Lara, Kelly O’Grady, Jessica Wilks, Sandeep Gurbuxani, Steven Erickson, Michael Fischbach, Amy Jacobson, Alexander Chervonsky, Tatyana Golovkina
SummaryThe influence of the microbiota on viral transmission and replication is well appreciated. However, its impact on retroviral pathogenesis outside of transmission/replication control remained unknown. Using Murine Leukemia Virus (MuLV), we foun
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::dff067f0eeffdb8aaab05c1f5f11a475
https://doi.org/10.1101/2022.02.02.478820
https://doi.org/10.1101/2022.02.02.478820
Autor:
Christian Freund, Tatyana V. Golovkina, Lisa K. Denzin, Aly A. Khan, Miguel Álvaro-Benito, Francesca Virdis, Austin M. Graves, Eliot Morrison
Publikováno v:
The Journal of Immunology. 205:923-935
HLA molecules of the MHC class II (MHCII) bind and present pathogen-derived peptides for CD4 T cell activation. Peptide loading of MHCII in the endosomes of cells is controlled by the interplay of the nonclassical MHCII molecules, HLA-DM (DM) and HLA
Autor:
Denise, Lau, Sonal, Khare, Michelle M, Stein, Prerna, Jain, Yinjie, Gao, Aicha, BenTaieb, Tim A, Rand, Ameen A, Salahudeen, Aly A, Khan
Publikováno v:
Nature communications. 13(1)
The efficacy of immune checkpoint blockade (ICB) varies greatly among metastatic non-small cell lung cancer (NSCLC) patients. Loss of heterozygosity at the HLA-I locus (HLA-LOH) has been identified as an important immune escape mechanism. However, de