Zobrazeno 1 - 10
of 145
pro vyhledávání: '"Martin J, Aryee"'
Autor:
Luli S. Zou, Dylan M. Cable, Irving A. Barrera-Lopez, Tongtong Zhao, Evan Murray, Martin J. Aryee, Fei Chen, Rafael A. Irizarry
Publikováno v:
Genome Biology, Vol 25, Iss 1, Pp 1-22 (2024)
Abstract Spatial transcriptomics technologies permit the study of the spatial distribution of RNA at near-single-cell resolution genome-wide. However, the feasibility of studying spatial allele-specific expression (ASE) from these data remains unchar
Externí odkaz:
https://doaj.org/article/243a30a797114d5ebbd7cb7d5e3cb877
Autor:
Lydie Debaize, Ye Zhang, Michelle Ramseier, Mingzeng Zhang, Adam Langenbucher, Peter S. Winter, Ran Xu, Nezha Senhaji, Robert A Redd, Martin J. Aryee, Paul H. Branch, Austin I. Kim, David M. Weinstock, Alex Shalek, Scott R. Manalis, Mark A. Murakami
Publikováno v:
HemaSphere, Vol 7, p e96705d3 (2023)
Externí odkaz:
https://doaj.org/article/713cb23b4f6148cd99681bf90cefde7a
Autor:
Allison P. Siegenfeld, Shelby A. Roseman, Heejin Roh, Nicholas Z. Lue, Corin C. Wagen, Eric Zhou, Sarah E. Johnstone, Martin J. Aryee, Brian B. Liau
Publikováno v:
Nature Communications, Vol 13, Iss 1, Pp 1-16 (2022)
Here the authors developed ‘Lamina-Inducible Methylation and Hi-C’ (LIMe-Hi-C) to simultaneously measure chromosome conformation, DNA methylation, and nuclear lamina positioning. Application of the method revealed dynamic changes upon PRC2 inhibi
Externí odkaz:
https://doaj.org/article/0dbe0b6e225542a5b5d44d310c2d1f55
Autor:
Evangelos Konstantinidis, Agnieszka Molisak, Florian Perrin, Linn Streubel-Gallasch, Sarah Fayad, Daniel Y. Kim, Karl Petri, Martin J. Aryee, Ximena Aguilar, Bence György, Vilmantas Giedraitis, J. Keith Joung, Vikram Pattanayak, Magnus Essand, Anna Erlandsson, Oksana Berezovska, Martin Ingelsson
Publikováno v:
Molecular Therapy: Nucleic Acids, Vol 28, Iss , Pp 450-461 (2022)
Presenilin 1 (PS1) is a central component of γ-secretase, an enzymatic complex involved in the generation of the amyloid-β (Aβ) peptide that deposits as plaques in the Alzheimer’s disease (AD) brain. The M146L mutation in the PS1 gene (PSEN1) le
Externí odkaz:
https://doaj.org/article/503c1c5367834e719f03a069aa99c40b
Autor:
Christopher E. Lietz, Erik T. Newman, Andrew D. Kelly, David H. Xiang, Ziying Zhang, Caroline A. Luscko, Santiago A. Lozano-Calderon, David H. Ebb, Kevin A. Raskin, Gregory M. Cote, Edwin Choy, G. Petur Nielsen, Benjamin Haibe-Kains, Martin J. Aryee, Dimitrios Spentzos
Publikováno v:
Communications Biology, Vol 5, Iss 1, Pp 1-20 (2022)
Christopher Lietz et al. examined genome-wide methylation in patient cohorts of primary osteosarcoma. Their results suggest that genomic hypomethylation is predictive of response to standard chemotherapy, and provide further insight into clinical imp
Externí odkaz:
https://doaj.org/article/90a95b6cbfc54bdc95e1e3c7e78c0b3f
Publikováno v:
Genome Biology, Vol 20, Iss 1, Pp 1-16 (2019)
Abstract Single-cell RNA-Seq (scRNA-Seq) profiles gene expression of individual cells. Recent scRNA-Seq datasets have incorporated unique molecular identifiers (UMIs). Using negative controls, we show UMI counts follow multinomial sampling with no ze
Externí odkaz:
https://doaj.org/article/af287f725372438e966f4cc53d8c0d74
Autor:
Killian S. Hanlon, Benjamin P. Kleinstiver, Sara P. Garcia, Mikołaj P. Zaborowski, Adrienn Volak, Stefan E. Spirig, Alissa Muller, Alexander A. Sousa, Shengdar Q. Tsai, Niclas E. Bengtsson, Camilla Lööv, Martin Ingelsson, Jeffrey S. Chamberlain, David P. Corey, Martin J. Aryee, J. Keith Joung, Xandra O. Breakefield, Casey A. Maguire, Bence György
Publikováno v:
Nature Communications, Vol 10, Iss 1, Pp 1-11 (2019)
In-depth characterization of adeno-associated virus (AAV)-mediated CRISPR delivery is still lacking. Here, the authors show high levels of integration into Cas9-induced double-strand breaks (DSBs) in therapeutically relevant genes in vivo.
Externí odkaz:
https://doaj.org/article/d463e02a3bdc40c4aca343f4b409877a
Autor:
Huidong Chen, Luca Albergante, Jonathan Y. Hsu, Caleb A. Lareau, Giosuè Lo Bosco, Jihong Guan, Shuigeng Zhou, Alexander N. Gorban, Daniel E. Bauer, Martin J. Aryee, David M. Langenau, Andrei Zinovyev, Jason D. Buenrostro, Guo-Cheng Yuan, Luca Pinello
Publikováno v:
Nature Communications, Vol 10, Iss 1, Pp 1-14 (2019)
The increasing accessibility of single cell omics technologies beyond transcriptomics demands parallel advances in analysis. Here, the authors introduce STREAM, a pipeline for reconstruction and visualization of differentiation trajectories from both
Externí odkaz:
https://doaj.org/article/a8fc084be2f940a8842ac27783508d69
Autor:
Divy Kangeyan, Andrew Dunford, Sowmya Iyer, Chip Stewart, Megan Hanna, Gad Getz, Martin J. Aryee
Publikováno v:
BMC Bioinformatics, Vol 20, Iss 1, Pp 1-5 (2019)
Abstract Background Bisulfite sequencing allows base-pair resolution profiling of DNA methylation and has recently been adapted for use in single-cells. Analyzing these data, including making comparisons with existing data, remains challenging due to
Externí odkaz:
https://doaj.org/article/1bf9869603ee4e8b8a6fa853f184185e
Autor:
Richard C. Pelikan, Jennifer A. Kelly, Yao Fu, Caleb A. Lareau, Kandice L. Tessneer, Graham B. Wiley, Mandi M. Wiley, Stuart B. Glenn, John B. Harley, Joel M. Guthridge, Judith A. James, Martin J. Aryee, Courtney Montgomery, Patrick M. Gaffney
Publikováno v:
Nature Communications, Vol 9, Iss 1, Pp 1-14 (2018)
Disease risk variants can exert their influence on phenotypes by altering epigenome function. Here, Pelikan et al. show that variants inducing allelic imbalance in histone marks in lymphoblastoid cell lines from lupus patients are enriched in autoimm
Externí odkaz:
https://doaj.org/article/0996b48baa6642459f605c36bd0e9936