Search Results - "Mitra, Robi D"

Rapid and Extraction-Free Detection of SARS-CoV-2 from Saliva by Colorimetric Reverse-Transcription Loop-Mediated Isothermal Amplification by Lalli, Matthew A, Langmade, Joshua S, Chen, Xuhua, Fronick, Catrina C, Sawyer, Christopher S, Burcea, Lauren C, Wilkinson, Michael N, Fulton, Robert S, Heinz, Michael, Buchser, William J, Head, Richard D, Mitra, Robi D, Milbrandt, Jeffrey

“…Abstract Background Rapid, reliable, and widespread testing is required to curtail the ongoing COVID-19 pandemic. Current gold-standard nucleic acid tests are…”
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Single-Cell RNA-Seq Uncovers a Robust Transcriptional Response to Morphine by Glia by Avey, Denis, Sankararaman, Sumithra, Yim, Aldrin K.Y., Barve, Ruteja, Milbrandt, Jeffrey, Mitra, Robi D.

“…Molecular and behavioral responses to opioids are thought to be primarily mediated by neurons, although there is accumulating evidence that other cell types…”
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High-throughput single-cell functional elucidation of neurodevelopmental disease-associated genes reveals convergent mechanisms altering neuronal differentiation by Lalli, Matthew A, Avey, Denis, Dougherty, Joseph D, Milbrandt, Jeffrey, Mitra, Robi D

“…The overwhelming success of exome- and genome-wide association studies in discovering thousands of disease-associated genes necessitates developing novel…”
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Amyotrophic lateral sclerosis onset is influenced by the burden of rare variants in known amyotrophic lateral sclerosis genes by Cady, Janet, Allred, Peggy, Bali, Taha, Pestronk, Alan, Goate, Alison, Miller, Timothy M., Mitra, Robi D., Ravits, John, Harms, Matthew B., Baloh, Robert H.

“…Objective To define the genetic landscape of amyotrophic lateral sclerosis (ALS) and assess the contribution of possible oligogenic inheritance, we aimed to…”
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Gene expression analysis of zebrafish melanocytes, iridophores, and retinal pigmented epithelium reveals indicators of biological function and developmental origin by Higdon, Charles W, Mitra, Robi D, Johnson, Stephen L

“…In order to facilitate understanding of pigment cell biology, we developed a method to concomitantly purify melanocytes, iridophores, and retinal pigmented…”
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Zinc cluster transcription factors frequently activate target genes using a non-canonical half-site binding mode by Recio, Pamela S, Mitra, Nikhil J, Shively, Christian A, Song, David, Jaramillo, Grace, Lewis, Kristine Shady, Chen, Xuhua, Mitra, Robi D

“…Abstract Gene expression changes are orchestrated by transcription factors (TFs), which bind to DNA to regulate gene expression. It remains surprisingly…”
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ATHLATES: accurate typing of human leukocyte antigen through exome sequencing by Liu, Chang, Yang, Xiao, Duffy, Brian, Mohanakumar, Thalachallour, Mitra, Robi D, Zody, Michael C, Pfeifer, John D

“…Human leukocyte antigen (HLA) typing at the allelic level can in theory be achieved using whole exome sequencing (exome-seq) data with no added cost but has…”
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Rare variants in APP, PSEN1 and PSEN2 increase risk for AD in late-onset Alzheimer's disease families by Cruchaga, Carlos, Haller, Gabe, Chakraverty, Sumitra, Mayo, Kevin, Vallania, Francesco L M, Mitra, Robi D, Faber, Kelley, Williamson, Jennifer, Bird, Tom, Diaz-Arrastia, Ramon, Foroud, Tatiana M, Boeve, Bradley F, Graff-Radford, Neill R, St Jean, Pamela, Lawson, Michael, Ehm, Margaret G, Mayeux, Richard, Goate, Alison M

“…Pathogenic mutations in APP, PSEN1, PSEN2, MAPT and GRN have previously been linked to familial early onset forms of dementia. Mutation screening in these…”
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TATA is a modular component of synthetic promoters by Mogno, Ilaria, Vallania, Francesco, Mitra, Robi D, Cohen, Barak A

“…The expression of most genes is regulated by multiple transcription factors. The interactions between transcription factors produce complex patterns of gene…”
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Accurate Multiplex Polony Sequencing of an Evolved Bacterial Genome by Shendure, Jay, Porreca, Gregory J, Reppas, Nikos B, Lin, Xiaoxia, McCutcheon, John P, Rosenbaum, Abraham M, Wang, Michael D, Zhang, Kun, Mitra, Robi D, Church, George M

“…We describe a DNA sequencing technology in which a commonly available, inexpensive epifluorescence microscope is converted to rapid nonelectrophoretic DNA…”
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Functional characterization of piggyBat from the bat Myotis lucifugus unveils an active mammalian DNA transposon by Mitra, Rupak, Li, Xianghong, Kapusta, Aurélie, Mayhew, David, Mitra, Robi D., Feschotte, Cédric, Craig, Nancy L.

“…A revelation of the genomic age has been the contributions of the mobile DNA segments called transposable elements to chromosome structure, function, and…”
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Protein Quantification in Complex Mixtures by Solid Phase Single-Molecule Counting by Tessler, Lee A, Reifenberger, Jeffrey G, Mitra, Robi D

“…Here we present a procedure for quantifying single protein molecules affixed to a surface by counting bound antibodies. We systematically investigate many of…”
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Quantification of rare allelic variants from pooled genomic DNA by Mitra, Robi D, Druley, Todd E, Vallania, Francesco L M, Wegner, Daniel J, Varley, Katherine E, Knowles, Olivia L, Bonds, Jacqueline A, Robison, Sarah W, Doniger, Scott W, Hamvas, Aaron, Cole, F Sessions, Fay, Justin C

“…We report a targeted, cost-effective method to quantify rare single-nucleotide polymorphisms from pooled human genomic DNA using second-generation sequencing…”
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Measuring transcription factor binding and gene expression using barcoded self-reporting transposon calling cards and transcriptomes by Lalli, Matthew, Yen, Allen, Thopte, Urvashi, Dong, Fengping, Moudgil, Arnav, Chen, Xuhua, Milbrandt, Jeffrey, Dougherty, Joseph D, Mitra, Robi D

“…Abstract Calling cards technology using self-reporting transposons enables the identification of DNA–protein interactions through RNA sequencing. Although…”
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Transposase mapping identifies the genomic targets of BAP1 in uveal melanoma by Yen, Matthew, Qi, Zongtai, Chen, Xuhua, Cooper, John A, Mitra, Robi D, Onken, Michael D

“…BAP1 is a histone deubiquitinase that acts as a tumor and metastasis suppressor associated with disease progression in human cancer. We have used the "Calling…”
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A systematic study of gene expression variation at single-nucleotide resolution reveals widespread regulatory roles for uAUGs by Yun, Yue, Adesanya, T M Ayodele, Mitra, Robi D

“…Regulatory single-nucleotide polymorphisms (rSNPs) alter gene expression. Common approaches for identifying rSNPs focus on sequence variants in conserved…”
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Novel markers of gonadectomy-induced adrenocortical neoplasia in the mouse and ferret by Schillebeeckx, Maximiliaan, Pihlajoki, Marjut, Gretzinger, Elisabeth, Yang, Wei, Thol, Franziska, Hiller, Theresa, Löbs, Ann-Kathrin, Röhrig, Theresa, Schrade, Anja, Cochran, Rebecca, Jay, Patrick Y., Heikinheimo, Markku, Mitra, Robi D., Wilson, David B.

“…•Spinlw1, Insl3, &Foxl2 are upregulated in murine post-GDX adrenocortical tumors.•FOXL2 immunoreactivity is evident in adrenocortical tumors from…”
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Intra-tumor heterogeneity of MLH1 promoter methylation revealed by deep single molecule bisulfite sequencing by Varley, Katherine E, Mutch, David G, Edmonston, Tina B, Goodfellow, Paul J, Mitra, Robi D

“…A single tumor may contain cells with different somatic mutations. By characterizing this genetic heterogeneity within tumors, advances have been made in the…”
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A computational analysis of whole-genome expression data reveals chromosomal domains of gene expression by Church, George M, Cohen, Barak A, Mitra, Robi D, Hughes, Jason D

“…Chromosome correlation maps display correlations between the expression patterns of genes on the same chromosome. Using these maps, we show here that adjacent…”
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Sequencing of idiopathic pulmonary fibrosis-related genes reveals independent single gene associations by Coghlan, Meghan A, Shifren, Adrian, Huang, Howard J, Russell, Tonya D, Mitra, Robi D, Zhang, Qunyuan, Wegner, Daniel J, Cole, F Sessions, Hamvas, Aaron

“…Background Previous studies investigating a genetic basis for idiopathic pulmonary fibrosis (IPF) have focused on resequencing single genes in IPF kindreds or…”
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