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VIBRANT: spectral profiling for single-cell drug responses
High-content cell profiling has proven invaluable for single-cell phenoty** in response to chemical perturbations. However, methods with improved...
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Scalable single-cell profiling of chromatin modifications with sciCUT&Tag
Cleavage under targets and tagmentation (CUT&Tag) is an antibody-directed in situ chromatin profiling strategy that is rapidly replacing immune...
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Identification of a clinically efficacious CAR T cell subset in diffuse large B cell lymphoma by dynamic multidimensional single-cell profiling
Chimeric antigen receptor (CAR) T cells used for the treatment of B cell malignancies can identify T cell subsets with superior clinical activity....
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Single-cell T-cell receptor repertoire profiling in dogs
Spontaneous cancers in companion dogs are robust models of human disease. Tracking tumor-specific immune responses in these models requires reagents...
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Morphological profiling by high-throughput single-cell biophysical fractometry
Complex and irregular cell architecture is known to statistically exhibit fractal geometry, i.e., a pattern resembles a smaller part of itself....
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Principles, challenges, and advances in ribosome profiling: from bulk to low-input and single-cell analysis
Ribosome profiling has revolutionized our understanding of gene expression regulation by providing a snapshot of global translation in vivo. This...
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High-capacity sample multiplexing for single cell chromatin accessibility profiling
Single-cell chromatin accessibility has emerged as a powerful means of understanding the epigenetic landscape of diverse tissues and cell types, but...
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Combinatorial single-cell profiling of major chromatin types with MAbID
Gene expression programs result from the collective activity of numerous regulatory factors. Studying their cooperative mode of action is imperative...
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Joint single-cell profiling resolves 5mC and 5hmC and reveals their distinct gene regulatory effects
Oxidative modification of 5-methylcytosine (5mC) by ten-eleven translocation (TET) DNA dioxygenases generates 5-hydroxymethylcytosine (5hmC), the...
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Single-cell transcriptional profiling of clear cell renal cell carcinoma reveals a tumor-associated endothelial tip cell phenotype
Clear cell renal cell carcinoma (ccRCC) is the most prevalent form of renal cancer, accounting for over 75% of cases. The asymptomatic nature of the...
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Nanobody-tethered transposition enables multifactorial chromatin profiling at single-cell resolution
Chromatin states are functionally defined by a complex combination of histone modifications, transcription factor binding, DNA accessibility and...
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Multifactorial profiling of epigenetic landscapes at single-cell resolution using MulTI-Tag
Chromatin profiling at locus resolution uncovers gene regulatory features that define cell types and developmental trajectories, but it remains...
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Dissecting key regulators of transcriptome kinetics through scalable single-cell RNA profiling of pooled CRISPR screens
We present a combinatorial indexing method, PerturbSci-Kinetics , for capturing whole transcriptomes, nascent transcriptomes and single guide RNA...
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Nano-CUT&Tag for multimodal chromatin profiling at single-cell resolution
The ability to comprehensively analyze the chromatin state with single-cell resolution is crucial for understanding gene regulatory principles in...
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Stress-free single-cell transcriptomic profiling and functional genomics of murine eosinophils
Eosinophils are a class of granulocytes with pleiotropic functions in homeostasis and various human diseases. Nevertheless, they are absent from...
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Patch-seq: Multimodal Profiling of Single-Cell Morphology, Electrophysiology, and Gene Expression
Cells exhibit diverse morphologic phenotypes, biophysical and functional properties, and gene expression patterns. Understanding how these features...
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Profiling RNA Editing in Single Cells
RNA editing is a widespread molecular phenomenon occurring in a variety of organisms. In humans, it mainly involves the deamination of adenosine to...
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Single-cell chromatin accessibility profiling of acute myeloid leukemia reveals heterogeneous lineage composition upon therapy-resistance
Acute myeloid leukemia (AML) is a heterogeneous disease characterized by high rate of therapy resistance. Since the cell of origin can impact...
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Single-cell profiling of the microenvironment in human bone metastatic renal cell carcinoma
Bone metastasis is of common occurrence in renal cell carcinoma with poor prognosis, but no optimal treatment approach has been established for bone...
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Droplet-based single-cell joint profiling of histone modifications and transcriptomes
We previously reported Paired-Tag, a combinatorial indexing-based method that can simultaneously map histone modifications and gene expression at...
