Relevant bibliographies by topics / Massively Parallel Reporter Assay

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  1. Journal articles
  2. Dissertations / Theses
  3. Books
  4. Book chapters
  5. Conference papers

Academic literature on the topic 'Massively Parallel Reporter Assay'

Author: Grafiati
Published: 30 June 2021
Last updated: 29 July 2025

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Journal articles on the topic "Massively Parallel Reporter Assay"

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Inoue, Fumitaka, and Nadav Ahituv. "Decoding enhancers using massively parallel reporter assays." Genomics 106, no. 3 (2015): 159–64. http://dx.doi.org/10.1016/j.ygeno.2015.06.005.

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Trauernicht, Max, Miguel Martinez-Ara, and Bas van Steensel. "Deciphering Gene Regulation Using Massively Parallel Reporter Assays." Trends in Biochemical Sciences 45, no. 1 (2020): 90–91. http://dx.doi.org/10.1016/j.tibs.2019.10.006.

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Avramopoulos, Dimitrios, Leslie Myint, Kasper Hansen, Ruihua Wang, Leandros Boukas, and Loyal Goff. "SA131A MASSIVELY PARALLEL REPORTER ASSAY FOR VARIANTS ASSOCIATED WITH SCHIZOPHRENIA AND ALZHEIMER'S DISEASE." European Neuropsychopharmacology 29 (2019): S1260—S1261. http://dx.doi.org/10.1016/j.euroneuro.2018.08.353.

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Delfosse, Kate, Chiara Gerhardinger, John L. Rinn, and Philipp G. Maass. "High-throughput functional analysis of regulatory variants using a massively parallel reporter assay." STAR Protocols 4, no. 4 (2023): 102731. http://dx.doi.org/10.1016/j.xpro.2023.102731.

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Georgakopoulos-Soares, Ilias, Naman Jain, Jesse M. Gray, and Martin Hemberg. "MPRAnator: a web-based tool for the design of massively parallel reporter assay experiments." Bioinformatics 33, no. 1 (2016): 137–38. http://dx.doi.org/10.1093/bioinformatics/btw584.

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Easterlin, Ryder, and Nadav Ahituv. "Lineage-specific regulatory evolution: insights from massively parallel reporter assays." Current Opinion in Genetics & Development 93 (August 2025): 102372. https://doi.org/10.1016/j.gde.2025.102372.

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Lee, Dongwon, Ashish Kapoor, Changhee Lee, Michael Mudgett, Michael A. Beer, and Aravinda Chakravarti. "Sequence-based correction of barcode bias in massively parallel reporter assays." Genome Research 31, no. 9 (2021): 1638–45. http://dx.doi.org/10.1101/gr.268599.120.

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Massively parallel reporter assays (MPRAs) are a high-throughput method for evaluating in vitro activities of thousands of candidate cis-regulatory elements (CREs). In these assays, candidate sequences are cloned upstream or downstream from a reporter gene tagged by unique DNA sequences. However, tag sequences may themselves affect reporter gene expression and lead to major potential biases in the measured cis-regulatory activity. Here, we present a sequence-based method for correcting tag-sequence-specific effects and show that our method can significantly reduce this source of variation and
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Maricque, Brett B., Hemangi G. Chaudhari, and Barak A. Cohen. "A massively parallel reporter assay dissects the influence of chromatin structure on cis-regulatory activity." Nature Biotechnology 37, no. 1 (2018): 90–95. http://dx.doi.org/10.1038/nbt.4285.

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Tonelli, Anastasiia, Pascal Cousin, and Maria Cristina Gambetta. "Protocol for detecting genomic insulators in Drosophila using insulator-seq, a massively parallel reporter assay." STAR Protocols 5, no. 4 (2024): 103391. http://dx.doi.org/10.1016/j.xpro.2024.103391.

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Hughes, Andrew E. O., Connie A. Myers, and Joseph C. Corbo. "A massively parallel reporter assay reveals context-dependent activity of homeodomain binding sites in vivo." Genome Research 28, no. 10 (2018): 1520–31. http://dx.doi.org/10.1101/gr.231886.117.

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Dissertations / Theses on the topic "Massively Parallel Reporter Assay"

1

Samenuk, Thomas. "Incorporation of Organ-Specific MicroRNA Target Sequences to Improve Gene Therapy Specificity:." Thesis, Boston College, 2021. http://hdl.handle.net/2345/bc-ir:109174.

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Thesis advisor: Vassilios Bezzerides<br>The aim of this study was to utilize a massively parallel reporter assay (MPRA) to identify organ-specific microRNA (miRNA) target sequences to refine the timing and expression of transgene expression for gene therapy. We previously had developed a cardiac gene therapy for Catecholaminergic Polymorphic Ventricular Tachycardia (CPVT) using a systemically delivered adeno-associated virus (AAV9) vector. We hypothesized that incorporation of organ specific miRNA target sites into our vector construct could improve our therapy’s tissue specificity due to the
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FitzPatrick, Vincent Drury. "Predicting Autonomous Promoter Activity Based on Genome-wide Modeling of Massively Parallel Reporter Data." Thesis, 2020. https://doi.org/10.7916/d8-qct0-z873.

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Existing methods to systematically characterize sequence-intrinsic activity of promoters are limited by relatively low throughput and the length of sequences that could be tested. Here we present Survey of Regulatory Elements (SuRE), a method to assay more than a billion DNA fragments in parallel for their ability to drive transcription autonomously. In SuRE, a plasmid library is constructed of random genomic fragments upstream of a barcode and decoded by paired-end sequencing. This library is transfected into cells and transcribed barcodes are quantified in the RNA by high-throughput sequenci
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Books on the topic "Massively Parallel Reporter Assay"

1

FitzPatrick, Vincent Drury. Predicting Autonomous Promoter Activity Based on Genome-wide Modeling of Massively Parallel Reporter Data. [publisher not identified], 2020.

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Book chapters on the topic "Massively Parallel Reporter Assay"

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Gilliot, Pierre-Aurelien, and Thomas E. Gorochowski. "Design and Analysis of Massively Parallel Reporter Assays Using FORECAST." In Methods in Molecular Biology. Springer US, 2022. http://dx.doi.org/10.1007/978-1-0716-2617-7_3.

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Oh, Inez Y., and Shiming Chen. "High-Throughput Analysis of Retinal Cis-Regulatory Networks by Massively Parallel Reporter Assays." In Retinal Degenerative Diseases. Springer International Publishing, 2019. http://dx.doi.org/10.1007/978-3-030-27378-1_59.

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Theriault, Thomas p. "Application of ink-jet printing technology to the manufacture of molecular arrays." In DNA Microarrays. Oxford University PressOxford, 1999. http://dx.doi.org/10.1093/oso/9780199637775.003.0006.

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Abstract Massively parallel assay technology is increasingly the method of choice for conducting scientific inquiry in the physical sciences. For example, in physics, particularly materials science, combinatorial mixtures of components are prepared and screened to elucidate new superconductors. In chemistry, combinatorial synthesis programs represent one state-of-the-art mode for the discovery of novel drug leads. And in biology, arrays of unique DNA sequences are commonly used to assay the genetic state of cells. What these three different pursuits share is the need to perform a very large nu
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Golden Aaron, McLellan Andrew S., Dubin Robert A., et al. "The Einstein Genome Gateway using WASP &ndash; A High Throughput Multi-Layered Life Sciences Portal for XSEDE." In Studies in Health Technology and Informatics. IOS Press, 2012. https://doi.org/10.3233/978-1-61499-054-3-182.

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Massively-parallel sequencing (MPS) technologies and their diverse applications in genomics and epigenomics research have yielded enormous new insights into the physiology and pathophysiology of the human genome. The biggest hurdle remains the magnitude and diversity of the datasets generated, compromising our ability to manage, organize, process and ultimately analyse data. The Wiki-based Automated Sequence Processor (WASP), developed at the Albert Einstein College of Medicine (hereafter Einstein), uniquely manages to tightly couple the sequencing platform, the sequencing assay, sample metada
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Conference papers on the topic "Massively Parallel Reporter Assay"

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Littlejohn, M. D., T. J. Lopdell, A. Trevarton, et al. "534. A massively parallel reporter assay to screen bovine regulatory variants." In World Congress on Genetics Applied to Livestock Production. Wageningen Academic Publishers, 2022. http://dx.doi.org/10.3920/978-90-8686-940-4_534.

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Choi, Jiyeon, Tongwu Zhang, Michael Kovacs, et al. "Abstract 1317: Simultaneous identification of candidate melanoma risk variants using massively parallel reporter assay." In Proceedings: AACR Annual Meeting 2017; April 1-5, 2017; Washington, DC. American Association for Cancer Research, 2017. http://dx.doi.org/10.1158/1538-7445.am2017-1317.

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Wang, Qiang, Xiaoming Lu, Matthew T. Weirauch, and Peter Nigrovic. "903 Decoding genome-wide association study (GWAS) hits for lupus using massively parallel reporter assays." In LUPUS 21ST CENTURY 2022 CONFERENCE, Abstracts of Sixth Scientific Meeting of North American and European Lupus Community, Tucson, AZ, USA – September 20–23, 2022. Lupus Foundation of America, 2022. http://dx.doi.org/10.1136/lupus-2022-lupus21century.54.

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Journal articles
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