Protocol for the three-dimensional analysis of rodent skeletal muscle by Smrithi Karthikeyan, Yoko Asakura, Mayank Verma, Atsushi Asakura

“…Summary: Confocal imaging is a powerful tool capable of analyzing cellular spatial data within a given tissue. …”
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Protocol for efficient CRISPR/AAV-mediated genome editing and erythroid differentiation of human hematopoietic stem and progenitor cells by Devesh Sharma, Roshani Sinha, Benjamin J. Lesch, M. Kyle Cromer

“…Summary: Here, we present a protocol for genome editing in human hematopoietic stem and progenitor cells (HSPCs) using CRISPR-Cas9 ribonucleoproteins and adeno-associated virus (AAV)-mediated homology-directed repair. …”
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Protocol for culture, purification, and target validation of a hybridoma-generated monoclonal antibody targeting Aβ truncated species by Maria Luisa Valle, Bitseat Getaneh, James Loveland, Hediye Erdjument-Bromage, Christopher William, Thomas A. Neubert, Agueda Rostagno, Jorge Ghiso

“…Summary: Alzheimer’s disease (AD) is characterized by the deposition of full-length and truncated amyloid beta (Aβ) species within brain parenchyma and cerebral vessels. …”
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Protocol for fast antibiotic resistance-based gene editing of mammalian cells with CRISPR-Cas9 by Petia Adarska, Eleanor Fox, Joshua Heyza, Carlo Barnaba, Jens Schmidt, Francesca Bottanelli

“…Summary: Protein tagging with CRISPR-Cas9 enables the investigation of protein function in its native environment but is limited by low homology-directed repair (HDR) efficiency. …”
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Protocol for efficient germination of Castilleja (Orobanchaceae) for chemical haustorium induction and parasite-host interaction studies by Sagar Bashyal, Lena Maria Müller, Joanne Chory, Marco Bürger

“…Summary: We present a protocol for germinating Castilleja seeds and growing seedlings for hormone treatments and plant-plant interaction assays. …”
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Protocol for identifying components of subcellular compartments by antibody-based in situ biotinylation by Hidefumi Suzuki, Kexin Li, Sayaka Ito, Keiichiro Asano, Keisuke Noguchi, Ryota Abe, Hidehisa Takahashi

“…Summary: Recent studies revealed that membrane-less subcellular organelles play important roles in cellular functions. …”
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Protocol for identifying sound-activated neurons in the inferior colliculus by cFos immunostaining by Beatriz Maio, Nagore Elu, Cristina Martinez-Gonzalez, Emily K. Osterweil, Susana R. Louros

“…Summary: cfos is an immediate early gene commonly used to identify neuronal activation. …”
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Preparing to act follows Bayesian inference rules by Luca Tarasi, Chiara Tabarelli de Fatis, Margherita Covelli, Giuseppe Ippolito, Alessio Avenanti, Vincenzo Romei

“…Summary: Bayesian brain theories suggest that the human brain sets up predictive models to anticipate sensory evidence. …”
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Protocol for cryopreserving neural organoids and human living brain tissue using MEDY by Weiwei Xue, Jiacheng Du, Yunteng Li, Zhicheng Shao

“…Summary: Cryopreservation of neural organoids and human living brain tissue faces huge challenges. …”
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Protocol for predicting single- and multiple-dose-dependent gene expression using deep generative learning by Derek E. Bowman, Vishal Panda, Daniel Marri, Omar Kana, Sudin Bhattacharya

“…Summary: Variational autoencoders (VAEs) can be used to model the gene expression space of single-cell RNA sequencing (scRNA-seq) data. …”
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Protocol for the functional evaluation of genetic variants using saturation genome editing by Sofia Obolenski, Rebeca Olvera-León, Dijue Sun, David J. Adams, Andrew J. Waters

“…Summary: Saturation genome editing (SGE) employs CRISPR-Cas9 and homology-directed repair (HDR) to introduce exhaustive nucleotide modifications at specific genomic sites in multiplex, enabling the functional analysis of genetic variants while preserving their native genomic context. …”
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PSTR: A Test Case Reuse Method Based on Path Similarity by Xinyue Xu, Sinong Chen, Zhonghao Guo, Xiangxian Chen

“…Next, the test cases from the old version are executed on its code, establishing a mapping between each test case and its covered execution paths. …”
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Redesigning to V-Y Fasciocutaneous Flaps: Optimizing Outcomes in Patients With Pressure Injuries and Spinal Cord Injuries by Mario Vélez-Palafox, MD, Nelson N. Espinosa-Queb, MD, Ángel J. Lara-Valdés, MD, Maykel González-Torres, PhD, Erik Márquez-Gutiérrez, MD

“…Summary:. Surgical treatment for patients with stage 4 pressure injury and spinal cord injury can be difficult because the complication rates are high. …”
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Protocol for interpretable and context-specific single-cell-informed deconvolution of bulk RNA-seq data by Daniele Malpetti, Francesca Mangili, Marco Bolis, Anna Rinaldi, David Legouis, Lorenzo Ruinelli, Pietro Cippà, Laura Azzimonti

“…Summary: Single-cell sequencing provides rich information; however, its clinical use is limited due to high costs and complex data output. …”
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Split-and-pool synthesis to generate scalable combinatorial oligonucleotide libraries on magnetic nanoparticles by John V.L. Nguyen, Lidija Malic, Christina Nassif, Dillon Da Fonte, Maryam Tabrizian

“…Summary: The generation of combinatorial oligonucleotide libraries is desirable for applications such as DNA aptamers, data storage, DNA origami, or synthetic genomes, but conventional libraries present challenges in detection and analysis. …”
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Protocol update to: High-throughput scNMT protocol for multiomics profiling of single cells from mouse brain and pancreatic organoids by Santiago Cerrizuela, Oguzhan Kaya, Lukas P.M. Kremer, Andrea Sarvari, Tobias Ellinger, Jannes Straub, Jan Brunken, Andrés Sanz-Morejón, Aylin Korkmaz, Ana Martín-Villalba

“…Summary: Single-cell nucleosome, methylome, and transcriptome (scNMT) sequencing is a recently developed method that allows multiomics profiling of single cells. …”
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Protocol for high-efficiency generation of iPSCs stably expressing Cas9-EGFP using the selection by essential gene exon knockin method by Yao Zhang, Hao Yang, Yuan Yang, Zijun Lu, Lokyu Cheng, Hongmei Tan, Joe Z. Zhang

“…Summary: CRISPR-Cas9 is widely used for genome editing. …”
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Protocol for isolating and purifying murine liver sinusoidal endothelial cells for in vitro culture and functional assays by Sophia Papaioannou, Jia-Xiang See, Tinja Baljkas, Philipp Reiners-Koch, Manuel Winkler, Adelheid Cerwenka, Ana Stojanovic

“…Summary: Liver sinusoidal endothelial cells (LSECs) line the liver sinusoids and play a crucial role in liver function. …”
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Protocol for tyramide signal amplification immunohistochemical detection of Notch1 signaling in the vascular system by Ying Lin, Shekhar Singh, Chong Xu, Zeyu Wang, Cailin Feng, Dongyang Jiang, Lingfeng Luo, Weiming Li, Wenliang Che, Guofu Zhu

“…Summary: Notch signaling is a pivotal regulator in the vascular system that is essential for development, angiogenesis, and maintaining vascular homeostasis. …”
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Protocol to study the neural mechanism of music therapy in alleviating depression using EEG-LFP signal recording by Qixuan Lin, Yu Cao, Yunhao Wu, Xian Qiu, Bomin Sun, Xin Lv

“…Summary: Here, we present a protocol for studying the neural mechanism of music therapy in alleviating depression using a combined electroencephalogram (EEG) and local field potential (LFP) signal recording. …”
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