Impact of Data Quality on Deep Learning Prediction of Spatial Transcriptomics from Histology Images

Posted by dbos Hopkins, This Week: Neuroscience

Kavli Affiliate: Jean Fan | Authors: Caleb Hallinan, Calixto-Hope G Lucas, Jr. and Jean Fan | Summary: Abstract Spatial transcriptomics technologies enable high-throughput quantification of gene expression at specific locations across tissue sections, facilitating insights into the spatial organization of biological processes. However, high costs associated with these technologies have motivated the development of deep […]


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ABCDscores: An R package for computing summary scores in the ABCD Study®

Posted by dbos This Week: Neuroscience, UCSD / Salk

Kavli Affiliate: Anders Dale | Authors: Le Zhang, Olivier Celhay, Biplabendu Das, Samantha Berman, Laura R. Ziemer, Calen J. Smith, Anders M. Dale and Janosch Linkersdörfer | Summary: Abstract The ABCD Study® is the largest longitudinal research study of brain development and child health across the United States. The study generates a rich multimodal dataset, […]


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HLA-E and NKG2A Mediate Resistance to BCG Immunotherapy in Non-Muscle-Invasive Bladder Cancer

Posted by dbos Rockefeller, This Week: Neuroscience

Kavli Affiliate: Li Zhao | Authors: Daniel Ranti, Haocheng Yu, Berengere Salome, Sunjoo Bang, Igor Duquesne, Yuanshuo Wang, Christine Bieber, Trine Strandgaard, Elliot Merritt, Glenn Doherty, Arun Narasimhan, Iyinyeoluwa Okulate, Sean Houghton, Brenda Hug, Junbum Kim, Hiranmayi Ravichandran, Alexandros Demetriou, Zhao Li, Sia Viborg Lindskrog, Andrea N. M. Rangel da Silva, Dan Fu Ruan, Jorge […]


Continue.. HLA-E and NKG2A Mediate Resistance to BCG Immunotherapy in Non-Muscle-Invasive Bladder Cancer

Biomarker Discovery via Integrative Multi-omics for Children exposed to Humidifier Disinfectant

Posted by dbos Hopkins, This Week: Neuroscience

Kavli Affiliate: Jin Kang | Authors: Jaeho Ji, Ahrum Son, Mi-Jin Kang, Jeonghun Yeom, Hyun Ju Yoo, Kwoneel Kim, Jeong-Hyun Kim, Hea Young Oh, Shin Ah Kim, So-Yeon Lee, Seung-Hwa Lee, Soo-Jong Hong and Hyunsoo Kim | Summary: Abstract Rationale Exposure to humidifier disinfectants has been linked to an array of pulmonary disorders and diminished […]


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DART: A GUI Pipeline for Aligning Histological Brain Sections to 3D Atlases and Automating Laser Microdissection

Posted by dbos Hopkins, This Week: Neuroscience

Kavli Affiliate: Justus M Kebschull | Authors: Rishi Koneru, Manjari M-G Anant, Hyopil Kim, Julian Cheron and Justus M Kebschull | Summary: The precise dissection of anatomically defined brain regions is the basis of many workflows in neurobiology. Traditionally, brain regions of interest are defined by visual inspection of tissue sections, followed by manual dissection. […]


Continue.. DART: A GUI Pipeline for Aligning Histological Brain Sections to 3D Atlases and Automating Laser Microdissection

Motor cortex flexibly deploys a high-dimensional repertoire of subskills

Posted by dbos Columbia

Kavli Affiliate: Michael Shadlen and Mark Churchland | Authors: Elom A Amematsro, Eric M Trautmann, Najja J Marshall, LF Abbott, Michael N Shadlen, Daniel M Wolpert and Mark M Churchland | Summary: control strategies and underlying computations. How the motor system achieves such versatility remains unclear. Using high-density Neuropixels recordings from primary motor cortex (M1) […]


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Sensory Compression as a Unifying Principle for Action Chunking and Time Coding in the Brain

Posted by dbos UCSD / Salk

Kavli Affiliate: Marcelo Mattar | Authors: Sreejan Kumar, Matthieu B Le Cauchois, Alexander Mathis, Lea Duncker, Jonathon R. Howlett and Marcelo G. Mattar | Summary: The brain seamlessly transforms sensory information into precisely-timed movements, enabling us to type familiar words, play musical instruments, or perform complex motor routines with millisecond precision. This process often involves […]


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MitoScribe single-cell molecular recorder logs graded signaling dynamics into mitochondrial DNA

Posted by dbos UCSF

Kavli Affiliate: Seth Shipman | Authors: Linhan Wang, Nikolaos Poulis, Deepak Srivastava and Seth Shipman | Summary: Genetically encoded DNA recorders convert transient biological events into stable genomic mutations, offering a means to reconstruct past cellular states. However, current approaches to log historical events by modifying genomic DNA have limited capacity to record the magnitude […]


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Rare mutations implicate CGE interneurons as a vulnerable axis of cognitive deficits across psychiatric disorders

Posted by klaurent Columbia

Kavli Affiliate: Attila Losonczy | Authors: Stephanie A Herrlinger, Jiayao Wang, Bovey Y Rao, Jonathan Chang, Joseph Gogos, Attila Losonczy and Dennis Vitkup | Summary: Neuropsychiatric disorders such as autism spectrum disorder (ASD) and schizophrenia (SCZ) share genetic risk factors, including rare high penetrance single nucleotide variants and copy number variants (CNVs), and exhibit both […]


Continue.. Rare mutations implicate CGE interneurons as a vulnerable axis of cognitive deficits across psychiatric disorders

Calorie Restriction modulates beta cell IP3R activity to regulate Ca2+ homeostasis and cell network connectivity

Posted by dbos UCSD / Salk

Kavli Affiliate: Mark Ellisman | Authors: Johannes Pfabe, Cristiane dos Santos, Melanie Cutler, Christopher Acree, Aliyah Habashy, Amanda Cambraia, Guy Perkins, Mark Ellisman, Marjan Slak Rupnik and Rafael Arrojo e Drigo | Summary: Calorie restriction (CR) promotes beta cell longevity by regulating cell identity, organelle and protein homeostasis, and metabolism pathways. CR beta cells have […]


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