Výsledky vyhľadávania - "Oligonucleotide Array Sequence Analysis: methods"

ArrayExpress update – from bulk to single-cell expression data Autor Athar, Awais, Füllgrabe, Anja, George, Nancy, Iqbal, Haider, Huerta, Laura, Ali, Ahmed, Snow, Catherine, Fonseca, Nuno A, Petryszak, Robert, Papatheodorou, Irene, Sarkans, Ugis, Brazma, Alvis

“…Abstract ArrayExpress (https://www.ebi.ac.uk/arrayexpress) is an archive of functional genomics data from a variety of technologies assaying functional…”
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Low-level processing of Illumina Infinium DNA Methylation BeadArrays Autor Triche, Timothy J., Weisenberger, Daniel J., Van Den Berg, David, Laird, Peter W., Siegmund, Kimberly D.

“…We propose a novel approach to background correction for Infinium HumanMethylation data to account for technical variation in background fluorescence signal…”
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ChAMP: updated methylation analysis pipeline for Illumina BeadChips Autor Tian, Yuan, Morris, Tiffany J, Webster, Amy P, Yang, Zhen, Beck, Stephan, Feber, Andrew, Teschendorff, Andrew E

“…The Illumina Infinium HumanMethylationEPIC BeadChip is the new platform for high-throughput DNA methylation analysis, effectively doubling the coverage…”
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Comprehensive characterization, annotation and innovative use of Infinium DNA methylation BeadChip probes Autor Zhou, Wanding, Laird, Peter W., Shen, Hui

“…Illumina Infinium DNA Methylation BeadChips represent the most widely used genome-scale DNA methylation assays. Existing strategies for masking Infinium probes…”
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Preprocessing, normalization and integration of the Illumina HumanMethylationEPIC array with minfi Autor Fortin, Jean-Philippe, Triche, Timothy J., Hansen, Kasper D

“…The minfi package is widely used for analyzing Illumina DNA methylation array data. Here we describe modifications to the minfi package required to support the…”
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Minfi: a flexible and comprehensive Bioconductor package for the analysis of Infinium DNA methylation microarrays Autor Aryee, Martin J., Jaffe, Andrew E., Corrada-Bravo, Hector, Ladd-Acosta, Christine, Feinberg, Andrew P., Hansen, Kasper D., Irizarry, Rafael A.

“…Motivation: The recently released Infinium HumanMethylation450 array (the ‘450k’ array) provides a high-throughput assay to quantify DNA methylation (DNAm) at…”
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ENmix: a novel background correction method for Illumina HumanMethylation450 BeadChip Autor Xu, Zongli, Niu, Liang, Li, Leping, Taylor, Jack A.

“…The Illumina HumanMethylation450 BeadChip is increasingly utilized in epigenome-wide association studies, however, this array-based measurement of DNA…”
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Differential expression in RNA-seq: a matter of depth Autor Tarazona, Sonia, García-Alcalde, Fernando, Dopazo, Joaquín, Ferrer, Alberto, Conesa, Ana

“…Next-generation sequencing (NGS) technologies are revolutionizing genome research, and in particular, their application to transcriptomics (RNA-seq) is…”
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missMethyl: an R package for analyzing data from Illumina’s HumanMethylation450 platform Autor Phipson, Belinda, Maksimovic, Jovana, Oshlack, Alicia

“…DNA methylation is one of the most commonly studied epigenetic modifications due to its role in both disease and development. The Illumina HumanMethylation450…”
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Evaluating Robustness and Sensitivity of the NanoString Technologies nCounter Platform to Enable Multiplexed Gene Expression Analysis of Clinical Samples Autor Veldman-Jones, Margaret H, Brant, Roz, Rooney, Claire, Geh, Catherine, Emery, Hollie, Harbron, Chris G, Wappett, Mark, Sharpe, Alan, Dymond, Michael, Barrett, J Carl, Harrington, Elizabeth A, Marshall, Gayle

“…Analysis of clinical trial specimens such as formalin-fixed paraffin-embedded (FFPE) tissue for molecular mechanisms of disease progression or drug response is…”
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ChAMP: 450k Chip Analysis Methylation Pipeline Autor Morris, Tiffany J., Butcher, Lee M., Feber, Andrew, Teschendorff, Andrew E., Chakravarthy, Ankur R., Wojdacz, Tomasz K., Beck, Stephan

“…The Illumina Infinium HumanMethylation450 BeadChip is a new platform for high-throughput DNA methylation analysis. Several methods for normalization and…”
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Data Normalization Strategies for MicroRNA Quantification Autor Schwarzenbach, Heidi, da Silva, Andreia Machado, Calin, George, Pantel, Klaus

“…Different technologies, such as quantitative real-time PCR or microarrays, have been developed to measure microRNA (miRNA) expression levels. Quantification of…”
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A beta-mixture quantile normalization method for correcting probe design bias in Illumina Infinium 450 k DNA methylation data Autor Teschendorff, Andrew E., Marabita, Francesco, Lechner, Matthias, Bartlett, Thomas, Tegner, Jesper, Gomez-Cabrero, David, Beck, Stephan

“…Motivation: The Illumina Infinium 450 k DNA Methylation Beadchip is a prime candidate technology for Epigenome-Wide Association Studies (EWAS). However, a…”
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Diversity arrays technology: a generic genome profiling technology on open platforms Autor Kilian, Andrzej, Wenzl, Peter, Huttner, Eric, Carling, Jason, Xia, Ling, Blois, Hélène, Caig, Vanessa, Heller-Uszynska, Katarzyna, Jaccoud, Damian, Hopper, Colleen, Aschenbrenner-Kilian, Malgorzata, Evers, Margaret, Peng, Kaiman, Cayla, Cyril, Hok, Puthick, Uszynski, Grzegorz

“…In the last 20 years, we have observed an exponential growth of the DNA sequence data and simular increase in the volume of DNA polymorphism data generated by…”
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Critical evaluation of the Illumina MethylationEPIC BeadChip microarray for whole-genome DNA methylation profiling Autor Pidsley, Ruth, Zotenko, Elena, Peters, Timothy J., Lawrence, Mitchell G., Risbridger, Gail P., Molloy, Peter, Van Djik, Susan, Muhlhausler, Beverly, Stirzaker, Clare, Clark, Susan J.

“…Background In recent years the Illumina HumanMethylation450 (HM450) BeadChip has provided a user-friendly platform to profile DNA methylation in human samples…”
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Guidance for DNA methylation studies: statistical insights from the Illumina EPIC array Autor Mansell, Georgina, Gorrie-Stone, Tyler J., Bao, Yanchun, Kumari, Meena, Schalkwyk, Leonard S., Mill, Jonathan, Hannon, Eilis

“…Background There has been a steady increase in the number of studies aiming to identify DNA methylation differences associated with complex phenotypes. Many of…”
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A genomic view of mosaicism and human disease Autor Biesecker, Leslie G., Spinner, Nancy B.

“…Key Points Mosaicism refers to the presence of genetically distinct cells within an organism that result from postzygotic mutational events. There are several…”
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High density DNA methylation array with single CpG site resolution Autor Bibikova, Marina, Barnes, Bret, Tsan, Chan, Ho, Vincent, Klotzle, Brandy, Le, Jennie M., Delano, David, Zhang, Lu, Schroth, Gary P., Gunderson, Kevin L., Fan, Jian-Bing, Shen, Richard

“…We have developed a new generation of genome-wide DNA methylation BeadChip which allows high-throughput methylation profiling of the human genome. The new high…”
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Discovery of methylated circulating DNA biomarkers for comprehensive non-invasive monitoring of treatment response in metastatic colorectal cancer Autor Barault, Ludovic, Amatu, Alessio, Siravegna, Giulia, Ponzetti, Agostino, Moran, Sebastian, Cassingena, Andrea, Mussolin, Benedetta, Falcomatà, Chiara, Binder, Alexandra M, Cristiano, Carmen, Oddo, Daniele, Guarrera, Simonetta, Cancelliere, Carlotta, Bustreo, Sara, Bencardino, Katia, Maden, Sean, Vanzati, Alice, Zavattari, Patrizia, Matullo, Giuseppe, Truini, Mauro, Grady, William M, Racca, Patrizia, Michels, Karin B, Siena, Salvatore, Esteller, Manel, Bardelli, Alberto, Sartore-Bianchi, Andrea, Di Nicolantonio, Federica

“…ObjectiveMutations in cell-free circulating DNA (cfDNA) have been studied for tracking disease relapse in colorectal cancer (CRC). This approach requires…”
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Low cost DNA data storage using photolithographic synthesis and advanced information reconstruction and error correction Autor Antkowiak, Philipp L., Lietard, Jory, Darestani, Mohammad Zalbagi, Somoza, Mark M., Stark, Wendelin J., Heckel, Reinhard, Grass, Robert N.

“…Due to its longevity and enormous information density, DNA is an attractive medium for archival storage. The current hamstring of DNA data storage systems—both…”
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