Robust characterization of selectivity of individual neurons to distinct task-relevant behavioral states using calcium imaging

Posted by dbos Hopkins

Kavli Affiliate: Shreesh P. Mysore | Authors: Huixin Huang, Garima Shah, Hita Adwanikar and Shreesh Mysore | Summary: Investigations into the neural basis of behavior have recently employed fluorescence imaging of calcium dynamics in a variety of brain areas to measure neural responses. However, across studies, diverse and seemingly subjective methodological choices have been made […]


Continue.. Robust characterization of selectivity of individual neurons to distinct task-relevant behavioral states using calcium imaging

Mapping cis- and trans-regulatory target genes of human-specific deletions

Posted by dbos UCSF

Kavli Affiliate: Alex Pollen | Authors: Tyler Fair, Bryan J Pavlovic, Dani Swope, Octavio E Castillo, Nathan K Schaefer and Alex Aaron Pollen | Summary: Deletion of functional sequence is predicted to represent a fundamental mechanism of molecular evolution. Comparative genetic studies of primates have identified thousands of human-specific deletions (hDels), and the cis-regulatory potential […]


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Genome Organization with CUT and Tag (GO-CaT) identifies substructure and maturation of lamina-associated domains in neurons of the developing human brain

Posted by dbos UCSF

Kavli Affiliate: Arnold R. Kriegstein | Authors: Chujing Zhang, Eugene Gil, Sajad Hamid Ahanger, Mingcong Li, Li Wang, Jingjing Li, Arnold Kriegstein and Daniel Lim | Summary: Approximately 30-40% of the human genome is anchored to the nuclear lamina through variably sized (10 kb–10 Mb) lamina-associated domains (LADs). Previous work in cultured murine and human […]


Continue.. Genome Organization with CUT and Tag (GO-CaT) identifies substructure and maturation of lamina-associated domains in neurons of the developing human brain

Multi-sample non-negative spatial factorization

Posted by dbos Hopkins

Kavli Affiliate: Loyal Goff | Authors: Yi Wang, Kyla Woyshner, Chaichontat Sriworarat, Genevieve Stein-O’Brien, Loyal A Goff and Kasper D Hansen | Summary: Analyzing multi-sample spatial transcriptomics data requires accounting for biological variation. We present multi-sample non-negative spatial factorization (mNSF), an alignment-free framework extending single-sample spatial factorization (NSF) to multi-sample datasets. mNSF incorporates sample-specific spatial […]


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Active vision in freely moving marmosets using head-mounted eye tracking

Posted by dbos UCSD / Salk

Kavli Affiliate: Cory Miller | Authors: Vikram Pal Singh, Jingwen Li, Jude Mitchell and Cory Miller | Summary: Our understanding of how vision functions as primates actively navigate the real-world is remarkably sparse. As most data have been limited to chaired and typically head-restrained animals, the synergistic interactions of different motor actions/plans inherent to active […]


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scatterbar: an R package for visualizing proportional data across spatially resolved coordinates

Posted by dbos Hopkins

Kavli Affiliate: Jean Fan | Authors: Dee Velazquez and Jean Fan | Summary: Summary: Displaying proportional data across many spatially resolved coordinates is a challenging but important data visualization task, particularly for spatially resolved transcriptomics data. Scatter pie plots are one type of commonly used data visualization for such data but present perceptual challenges that […]


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Sphae: An automated toolkit for predicting phage therapy candidates from sequencing data

Posted by dbos UCSF

Kavli Affiliate: Robert Edwards | Authors: Bhavya Papudeshi, Michael J. Roach, Vijini Mallawaarachchi, George Bouras, Susanna R Grigson, Sarah K Giles, Clarice M Harker, Abbey L.K Hutton, Anita Tarasenko, Laura K Inglis, Alejandro A Vega, Cole Souza, Lance Boling, Hamza Hajama, Ana Georgina Cobian-Guemes, Anca Segall, Elizabeth A Dinsdale and Robert A Edwards | Summary: […]


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Brain-wide representations of prior information in mouse decision-making

Posted by klaurent Columbia

Kavli Affiliate: Liam Paninski | Authors: Charles Findling, Felix Hubert, International Brain Laboratory, Luigi Acerbi, Brandon Benson, Julius Benson, Daniel Birman, Niccolò Bonacchi, Matteo Carandini, Joana A Catarino, Gaelle A Chapuis, Anne K Churchland, Yang Dan, Eric EJ DeWitt, Tatiana A Engel, Michele Fabbri, Mayo Faulkner, Ila Rani Fiete, Laura Freitas-Silva, Berk Gerçek, Kenneth D […]


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ELAVL3 regulates splicing of RNAs encoding synaptic signaling proteins in D1 and D2 striatal medium spiny neurons.

Posted by dbos Rockefeller

Kavli Affiliate: Robert B. Darnell | Authors: Krithi Irmady, Claudia Scheckel, Ruth A Singer, Thomas Carroll and Robert B Darnell | Summary: The neuronal RNA-binding protein (RBP) family nELAVL regulates key neuronal processes by binding directly to target RNA transcripts. In this study, we demonstrate that ELAVL3 is the predominant nELAVL paralog expressed in D1 […]


Continue.. ELAVL3 regulates splicing of RNAs encoding synaptic signaling proteins in D1 and D2 striatal medium spiny neurons.

Inter- and Intrahemispheric Sources of Vestibular Signals to V1

Posted by dbos UCSD / Salk

Kavli Affiliate: Massimo Scanziani | Authors: Guy Bouvier, Alessandro Sanzeni, Elizabeth Hamada, Nicolas Brunel and Massimo Scanziani | Summary: Head movements are sensed by the vestibular organs. Unlike classical senses, signals from vestibular organs are not conveyed to a dedicated cortical area but are broadcast throughout the cortex. Surprisingly, the routes taken by vestibular signals […]


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