Gapped-kmer sequence modeling robustly identifies regulatory vocabularies and distal enhancers conserved between evolutionarily distant mammals

Kavli Affiliate: Michael Beer | Authors: Jin Woo Oh and Michael A Beer | Summary: Gene regulatory elements drive many complex biological phenomena such as fetal development, and their mutations are linked to a multitude of common human diseases. The phenotypic impacts of regulatory variants are often tested using their conserved orthologous counterparts in model […]


Continue.. Gapped-kmer sequence modeling robustly identifies regulatory vocabularies and distal enhancers conserved between evolutionarily distant mammals

Whole-cortex in situ sequencing reveals peripheral input-dependent cell type-defined area identity

Kavli Affiliate: Patrick Kanold | Authors: Xiaoyin Chen, Stephan Fischer, Mara CP Rue, Aixin Zhang, Didhiti Mukherjee, Patrick O Kanold, Jesse Gillis and Anthony Zador | Summary: The cortex is composed of neuronal types with diverse gene expression that are organized into specialized cortical areas. These areas, each with characteristic cytoarchitecture (Brodmann 1909; Vogt and […]


Continue.. Whole-cortex in situ sequencing reveals peripheral input-dependent cell type-defined area identity

MAP1B Regulates Cortical Neuron Interstitial Axon Branching Through the Tubulin Tyrosination Cycle

Kavli Affiliate: Alex Kolodkin | Authors: Jakub Ziak, Joelle Dorskind, Brian Trigg, Sriram Sudarsanam, Randal Hand and Alex L Kolodkin | Summary: Regulation of directed axon guidance and branching during development is essential for the generation of neuronal networks. However, the molecular mechanisms that underlie interstitial axon branching in the mammalian brain remain unresolved. Here, […]


Continue.. MAP1B Regulates Cortical Neuron Interstitial Axon Branching Through the Tubulin Tyrosination Cycle

Disruption of Epithelium Integrity by Inflammation-Associated Fibroblasts through Prostaglandin Signaling

Kavli Affiliate: Peter Searson | Authors: Yi Dong, Blake A Johns, Linhao Ruan, Maged Zeineldin, Albert Liu, Sumana Raychaudhuri, Ian Chiu, Jin Zhu, Barbara Smith, Nan Zhao, Peter Searson, Shigeki Watanabe, Mark Donowitz, Tatianna Chantelle Larman and Rong Li | Summary: Inflammation-associated fibroblasts (IAFs) are associated with the progression and drug resistance of chronic inflammatory […]


Continue.. Disruption of Epithelium Integrity by Inflammation-Associated Fibroblasts through Prostaglandin Signaling

Using a function-first “scout fragment”-based approach to develop allosteric covalent inhibitors of conformationally dynamic helicase mechanoenzymes

Kavli Affiliate: Michael Miller, Ekaterina V. Vinogradova | Authors: Jared R Ramsey, Patrick M M Shelton, Tyler K. Heiss, Paul Dominic B Olinares, Lauren E Vostal, Heather Soileau, Michael Grasso, Sara Warrington, Stephanie Adaniya, Michael Miller, Shan Sun, David J Huggins, Robert W Myers, Brian T Chait, Ekaterina V Vinogradova and Tarun M Kapoor | […]


Continue.. Using a function-first “scout fragment”-based approach to develop allosteric covalent inhibitors of conformationally dynamic helicase mechanoenzymes

Placebo treatment affects brain systems related to affective and cognitive processes, but not nociceptive pain

Kavli Affiliate: Martin Lindquist | Authors: Rotem Botvinik-Nezer, Bogdan Petre, Marta Ceko, Martin A. Lindquist, Naomi P. Friedman and Tor D. Wager | Summary: Placebo analgesia is a replicable and well-studied phenomenon, yet it remains unclear to what degree it includes modulation of nociceptive processes. Some studies find effects consistent with nociceptive effects, but meta-analyses […]


Continue.. Placebo treatment affects brain systems related to affective and cognitive processes, but not nociceptive pain

Exploring Neural Dynamics in Self-Voice Processing and Perception: Implications for Hallucination Proneness

Kavli Affiliate: David Linden | Authors: Suvarnalata Xanthate Duggirala, Hanna Honcamp, Michael Schwartze, Therese Amelsvoort, Ana Pinheiro, David Linden and Sonja A Kotz | Summary: Altered sensory feedback processing and attention control are assumed to contribute to auditory verbal hallucinations, which are experienced by the general population and patients with psychosis, implying a continuum of […]


Continue.. Exploring Neural Dynamics in Self-Voice Processing and Perception: Implications for Hallucination Proneness

Bering: joint cell segmentation and annotation for spatial transcriptomics with transferred graph embeddings

Kavli Affiliate: Jin Kang | Authors: Kang Jin, Zuobai Zhang, Ke Zhang, Francesca Viggiani, Claire Callahan, Jian Tang, Bruce J. Aronow and Jian Shu | Summary: Single-cell spatial transcriptomics such as in-situ hybridization or sequencing technologies can provide subcellular resolution that enables the identification of individual cell identities, locations, and a deep understanding of subcellular […]


Continue.. Bering: joint cell segmentation and annotation for spatial transcriptomics with transferred graph embeddings

Context-dependent hyperactivity in syngap1a and syngap1b zebrafish autism models

Kavli Affiliate: Richard Huganir | Authors: Sureni H. Sumathipala, Suha Khan, Robert A. Kozol, Yoichi Araki, Sheyum Syed, Richard L. Huganir and Julia Dallman | Summary: Background and Aims SYNGAP1 disorder is a prevalent genetic form of Autism Spectrum Disorder and Intellectual Disability (ASD/ID) and is caused by de novo or inherited mutations in one […]


Continue.. Context-dependent hyperactivity in syngap1a and syngap1b zebrafish autism models

Serotonin predictively encodes value

Kavli Affiliate: Jeremiah Cohen | Authors: Emerson F Harkin, Cooper D Grossman, Jeremiah Y Cohen, Jean-Claude Béïque and Richard Naud | Summary: The in vivo responses of dorsal raphe nucleus (DRN) serotonin neurons to emotionally-salient stimuli are a puzzle. Existing theories centred on reward, surprise, or uncertainty individually account for some aspects of serotonergic activity […]


Continue.. Serotonin predictively encodes value