Ramani, Biswarathan Rose, Indigo V L Teyssier, Noam Pan, Andrew Danner-Bocks, Spencer Sanghal, Tanya Yadanar, Lin Tian, Ruilin Ma, Keran Palop, Jorge J
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bioRxiv : the preprint server for biology
There is a significant need for scalable CRISPR-based genetic screening methods that can be applied directly in mammalian tissues in vivo while enabling cell type-specific analysis. To address this, we developed an adeno-associated virus (AAV)-based CRISPR screening platform, CrAAVe-seq, that incorporates a Cre-sensitive sgRNA construct for pooled ...
Mthunzi, Liberty Islam, Mohammad N Gusarova, Galina A Bhattacharya, Sunita Karolewski, Brian Bhattacharya, Jahar
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bioRxiv : the preprint server for biology
The lung's mechanosensitive immune response, which occurs when pulmonary alveoli are overstretched, is a major impediment to ventilation therapy for hypoxemic respiratory failure. The cause is not known. We tested the hypothesis that alveolar stretch causes stretch of alveolar macrophages (AMs), leading to the immune response. In lungs viewed by op...
Samelson, Avi J Ariqat, Nabeela McKetney, Justin Rohanitazangi, Gita Bravo, Celeste Parra Bose, Rudra Travaglini, Kyle J Lam, Victor L Goodness, Darrin Dixon, Gary
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bioRxiv : the preprint server for biology
Aggregation of the protein tau defines tauopathies, which include Alzheimer's disease and frontotemporal dementia. Specific neuronal subtypes are selectively vulnerable to tau aggregation and subsequent dysfunction and death, but the underlying mechanisms are unknown. To systematically uncover the cellular factors controlling the accumulation of ta...
Egan, Marisa S O'Rourke, Emily A Mageswaran, Shrawan Kumar Zuo, Biao Martynyuk, Inna Demissie, Tabitha Hunter, Emma N Bass, Antonia R Chang, Yi-Wei Brodsky, Igor E
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bioRxiv : the preprint server for biology
Salmonella enterica serovar Typhimurium is a facultative intracellular pathogen that utilizes its type III secretion systems (T3SSs) to inject virulence factors into host cells and colonize the host. In turn, a subset of cytosolic immune receptors respond to T3SS ligands by forming multimeric signaling complexes called inflammasomes, which activate...
Zeng, Lu White, Charles C Bennett, David A Klein, Hans-Ulrich De Jager, Philip L
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medRxiv : the preprint server for health sciences
Myeloid cells, including monocytes, macrophages, microglia, dendritic cells and neutrophils are a part of innate immune system, playing a major role in orchestrating innate and adaptive immune responses. Both Alzheimer's disease (AD) and inflammatory bowel disease (IBD) susceptibility loci are enriched for genes expressed in myeloid cells, but it i...
Klem, John R Schwantes-An, Tae-Hwi Abreu, Marco Suttie, Michael Gray, Raeden Vo, Hieu Conley, Grace Foroud, Tatiana M Wetherill, Leah Lovely, C Ben
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bioRxiv : the preprint server for biology
Fetal Alcohol Spectrum Disorders (FASD) describe ethanol-induced developmental defects including craniofacial malformations. While ethanol-sensitive genetic mutations contribute to facial malformations, the impacted cellular mechanisms remain unknown. Bmp signaling is a key regulator of epithelial morphogenesis driving facial development, providing...
Kang, Yu Sung Jung, Jeffery Brown, Holly Mateusiak, Chase Doering, Tamara L Brent, Michael R
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bioRxiv : the preprint server for biology
Cryptococcus neoformans is an opportunistic fungal pathogen with a polysaccharide capsule that becomes greatly enlarged in the mammalian host and during in vitro growth under host-like conditions. To understand how individual environmental signals affect capsule size and gene expression, we grew cells in all combinations of five signals implicated ...
Lee, David S M Cardone, Kathleen M Zhang, David Y Tsao, Noah L Abramowitz, Sarah Sharma, Pranav DePaolo, John S Conery, Mitchell Aragam, Krishna G Biddinger, Kiran
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medRxiv : the preprint server for health sciences
Heart failure (HF) is a complex trait, influenced by environmental and genetic factors, which affects over 30 million individuals worldwide. Historically, the genetics of HF have been studied in Mendelian forms of disease, where rare genetic variants have been linked to familial cardiomyopathies. More recently, genome-wide association studies (GWAS...
Wylie, Dennis Wang, Xiaoping Yao, Jun Xu, Hengyi Ferrick-Kiddie, Elizabeth A Iwase, Toshiaki Krishnamurthy, Savitri Ueno, Naoto T Lambowitz, Alan M
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medRxiv : the preprint server for health sciences
Inflammatory breast cancer (IBC) is the most aggressive and lethal breast cancer subtype but lacks unequivocal genomic differences or robust biomarkers that differentiate it from non-IBC. Here, Thermostable Group II intron Reverse Transcriptase RNA-sequencing (TGIRT-seq) revealed myriad differences in tumor samples, Peripheral Blood Mononuclear Cel...
Hendrickson, Timothy J Reiners, Paul Moore, Lucille A Lundquist, Jacob T Fayzullobekova, Begim Perrone, Anders J Lee, Erik G Moser, Julia Day, Trevor K M Alexopoulos, Dimitrios
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bioRxiv : the preprint server for biology
Brain segmentation of infant magnetic resonance (MR) images is vitally important in studying developmental mental health and disease. The infant brain undergoes many changes throughout the first years of postnatal life, making tissue segmentation difficult for most existing algorithms. Here, we introduce a deep neural network BIBSNet (Baby and Infa...