Inferring cellular and molecular processes in single-cell data with non-negative matrix factorization using Python, R, and GenePattern Notebook implementations of CoGAPS

Posted by klaurent Hopkins

Kavli Affiliate: Loyal Goff | Authors: Jeanette Anna Irene Johnson, Ashley Tsang, Jacob T Mitchell, Emily F Davis-Marcisak, Thomas Sherman, Ted Liefeld, Melanie Loth, Loyal Goff, Jacquelyn Zimmerman, Ben Kinny-Köster, Elizabeth Jaffee, Pablo Tamayo, Jill Mesirov, Michael Reich, Elana J Fertig and Genevieve L Stein-O’Brien | Summary: Non-negative matrix factorization (NMF) is an unsupervised learning […]


Continue.. Inferring cellular and molecular processes in single-cell data with non-negative matrix factorization using Python, R, and GenePattern Notebook implementations of CoGAPS

Dynamics of Borrelia Burgdorferi Invasion and Intravasation in a Tissue Engineered Dermal Microvessel Model

Posted by klaurent Hopkins

Kavli Affiliate: Peter Searson | Authors: Zhaobin Guo, Nan Zhao, Tracy D. Chung, Anjan Singh, Ikshu Pandey, Linus Wang, Xinyue Gu, Aisha Ademola, Raleigh Miller Linville, Utpal Pal, J. Stephen Dumler and Peter C. Searson | Summary: Lyme disease is a tick-borne disease prevalent in North America, Europe, and Asia. Dissemination of vector-borne pathogens, such […]


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Large-scale capture of hidden fluorescent labels for training generalizable markerless motion capture models

Posted by klaurent UCSD / Salk

Kavli Affiliate: Eiman Azim | Authors: Daniel J Butler, Alexander P Keim, Shantanu Ray and Eiman Azim | Summary: Recent advances in deep learning-based markerless pose estimation have dramatically improved the scale and ease with which body landmarks can be tracked in studies of animal behavior. However, pose estimation for animals in a laboratory setting […]


Continue.. Large-scale capture of hidden fluorescent labels for training generalizable markerless motion capture models

A Draft Human Pangenome Reference

Posted by klaurent Rockefeller

Kavli Affiliate: Erich Jarvis | Authors: Wen-Wei Liao, Mobin Asri, Jana Ebler, Daniel Doerr, Marina Haukness, Glenn Hickey, Shuangjia Lu, Julian K. Lucas, Jean Monlong, Haley J. Abel, Silvia Buonaiuto, Xian H. Chang, Haoyu Cheng, Justin Chu, Vincenza Colonna, Jordan M. Eizenga, Xiaowen Feng, Christian Fischer, Robert S. Fulton, Shilpa Garg, Cristian Groza, Andrea Guarracino, […]


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Object-centered population coding in CA1 of the hippocampus

Posted by klaurent NTNU

Kavli Affiliate: Edvard Moser, May-Britt Moser | Authors: Anne Nagelhus, Sebastian Andersson, Soledad Gonzalo Cogno, Edvard I. Moser and May-Britt Moser | Summary: Objects and landmarks are crucial for guiding navigation and must be integrated into the cognitive map of space. Studies of object coding in the hippocampus have primarily focused on activity of single […]


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Increased mutation rate and interlocus gene conversion within human segmental duplications.

Posted by klaurent Columbia

Kavli Affiliate: Michael Goldberg | Authors: Mitchell R. Vollger, William S. DeWitt, Philip C. Dishuck, William T. Harvey, Xavi Guitart, Michael E. Goldberg, Allison Rozanski, Julian Lucas, Mobin Asri, The Human Pangenome Reference Consortium, Katherine M. Munson, Alexandra P. Lewis, Kendra Hoekzema, Glennis A. Logsdon, David Porubsky, Benedict Paten, Kelley Harris, PingHsun Hsieh and Evan […]


Continue.. Increased mutation rate and interlocus gene conversion within human segmental duplications.

High-Speed Imaging Reveals the Bimodal Nature of Dense Core Vesicle Exocytosis

Posted by klaurent UCSF

Kavli Affiliate: Robert Edwards | Authors: Pengcheng Zhang, David Rumschitzki and Robert H Edwards | Summary: During exocytosis, the fusion of secretory vesicle with plasma membrane forms a pore that regulates release of neurotransmitter and peptide. Heterogeneity of fusion pore behavior has been attributed to stochastic variation in a common exocytic mechanism, implying a lack […]


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Uncertainty alters the balance between incremental learning and episodic memory

Posted by klaurent Columbia

Kavli Affiliate: Daphna Shohamy | Authors: Jonathan Nicholas, Nathaniel Douglass Daw and Daphna Shohamy | Summary: A key question in decision making is how humans arbitrate between competing learning and memory systems to maximize reward. We address this question by probing the balance between the effects, on choice, of incremental trial-and-error learning versus episodic memories […]


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Manipulation of neuronal activity in the entorhinal-hippocampal circuit affects intraneuronal amyloid-β levels

Posted by klaurent NTNU

Kavli Affiliate: Menno Witter | Authors: Christiana Bjorkli, Nora Cecilie Ebbesen, Joshua B Julian, Menno P Witter, Axel Sandvig and Ioanna Sandvig | Summary: One of the neuropathological hallmarks of Alzheimer’s disease (AD) is the accumulation of amyloid-β (Aβ) plaques, which is preceded by intraneuronal build-up of toxic, aggregated Aβ during disease progression. Aβ plaques […]


Continue.. Manipulation of neuronal activity in the entorhinal-hippocampal circuit affects intraneuronal amyloid-β levels

Targeting C5aR1 signaling reduced neutrophil extracellular traps and ameliorates COVID-19 pathology

Posted by klaurent UCSD / Salk

Kavli Affiliate: Gabriel Silva | Authors: Bruna M. Silva, Flavio Protasio Veras, Giovanni Gomes, Seppe Cambier, Gabriel Silva, Andreza Quadros, Diego Caetite, Daniele Nascimento, Camila Silva, Juliana Silva, Samara Damasceno, Ayda Schneider, Fabio Beretta, Sabrina Batah, Icaro Castro, Isadora Paiva, Tamara Rodrigues, Ana C G Salina, Ronaldo Martins, Guilherme Cebinelli, Naira Bibo, Daniel Jorge, Helder […]


Continue.. Targeting C5aR1 signaling reduced neutrophil extracellular traps and ameliorates COVID-19 pathology