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Unraveling the complex relationship between mRNA and protein abundances: a machine learning-based approach for imputing protein levels from RNA-seq data
Prabahar, Archana, Zamora, Ruben, Barclay, Derek, Yin, Jinling, Ramamoorthy, Mahesh, Bagheri, Atefeh, Johnson, Scott A, Badylak, Stephen, Vodovotz, Yoram, Jiang, Peng
Published in NAR genomics and bioinformatics (01.03.2024)
Published in NAR genomics and bioinformatics (01.03.2024)
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SMGR: a joint statistical method for integrative analysis of single-cell multi-omics data
Song, Qianqian, Zhu, Xuewei, Jin, Lingtao, Chen, Minghan, Zhang, Wei, Su, Jing
Published in NAR genomics and bioinformatics (01.09.2022)
Published in NAR genomics and bioinformatics (01.09.2022)
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Scalable and efficient DNA sequencing analysis on different compute infrastructures aiding variant discovery
Hanssen, Friederike, Garcia, Maxime U, Folkersen, Lasse, Pedersen, Anders Sune, Lescai, Francesco, Jodoin, Susanne, Miller, Edmund, Seybold, Matthias, Wacker, Oskar, Smith, Nicholas, Gabernet, Gisela, Nahnsen, Sven
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Published in NAR genomics and bioinformatics (01.06.2024)
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PEPATAC: an optimized pipeline for ATAC-seq data analysis with serial alignments
Smith, Jason P, Corces, M Ryan, Xu, Jin, Reuter, Vincent P, Chang, Howard Y, Sheffield, Nathan C
Published in NAR genomics and bioinformatics (01.12.2021)
Published in NAR genomics and bioinformatics (01.12.2021)
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A map of the SARS-CoV-2 RNA structurome
Andrews, Ryan J, O’Leary, Collin A, Tompkins, Van S, Peterson, Jake M, Haniff, Hafeez S, Williams, Christopher, Disney, Matthew D, Moss, Walter N
Published in NAR genomics and bioinformatics (01.06.2021)
Published in NAR genomics and bioinformatics (01.06.2021)
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Joint single cell DNA-seq and RNA-seq of gastric cancer cell lines reveals rules of in vitro evolution
Andor, Noemi, Lau, Billy T, Catalanotti, Claudia, Sathe, Anuja, Kubit, Matthew, Chen, Jiamin, Blaj, Cristina, Cherry, Athena, Bangs, Charles D, Grimes, Susan M, Suarez, Carlos J, Ji, Hanlee P
Published in NAR genomics and bioinformatics (01.06.2020)
Published in NAR genomics and bioinformatics (01.06.2020)
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Interpretable detection of novel human viruses from genome sequencing data
Bartoszewicz, Jakub M, Seidel, Anja, Renard, Bernhard Y
Published in NAR genomics and bioinformatics (01.03.2021)
Published in NAR genomics and bioinformatics (01.03.2021)
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DeepCOMBI: explainable artificial intelligence for the analysis and discovery in genome-wide association studies
Mieth, Bettina, Rozier, Alexandre, Rodriguez, Juan Antonio, Höhne, Marina M C, Görnitz, Nico, Müller, Klaus-Robert
Published in NAR genomics and bioinformatics (01.09.2021)
Published in NAR genomics and bioinformatics (01.09.2021)
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CADA: phenotype-driven gene prioritization based on a case-enriched knowledge graph
Peng, Chengyao, Dieck, Simon, Schmid, Alexander, Ahmad, Ashar, Knaus, Alexej, Wenzel, Maren, Mehnert, Laura, Zirn, Birgit, Haack, Tobias, Ossowski, Stephan, Wagner, Matias, Brunet, Theresa, Ehmke, Nadja, Danyel, Magdalena, Rosnev, Stanislav, Kamphans, Tom, Nadav, Guy, Fleischer, Nicole, Fröhlich, Holger, Krawitz, Peter
Published in NAR genomics and bioinformatics (01.09.2021)
Published in NAR genomics and bioinformatics (01.09.2021)
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A bioinformatics pipeline for estimating mitochondrial DNA copy number and heteroplasmy levels from whole genome sequencing data
Battle, Stephanie L, Puiu, Daniela, Verlouw, Joost, Broer, Linda, Boerwinkle, Eric, Taylor, Kent D, Rotter, Jerome I, Rich, Stephan S, Grove, Megan L, Pankratz, Nathan, Fetterman, Jessica L, Liu, Chunyu, Arking, Dan E
Published in NAR genomics and bioinformatics (01.06.2022)
Published in NAR genomics and bioinformatics (01.06.2022)
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Global variability analysis of mRNA and protein concentrations across and within human tissues
Wegler, Christine, Ölander, Magnus, Wiśniewski, Jacek R, Lundquist, Patrik, Zettl, Katharina, Åsberg, Anders, Hjelmesæth, Jøran, Andersson, Tommy B, Artursson, Per
Published in NAR genomics and bioinformatics (01.03.2020)
Published in NAR genomics and bioinformatics (01.03.2020)
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nf-core/mag: a best-practice pipeline for metagenome hybrid assembly and binning
Krakau, Sabrina, Straub, Daniel, Gourlé, Hadrien, Gabernet, Gisela, Nahnsen, Sven
Published in NAR genomics and bioinformatics (01.03.2022)
Published in NAR genomics and bioinformatics (01.03.2022)
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State-of-the-RNArt: benchmarking current methods for RNA 3D structure prediction
Bernard, Clément, Postic, Guillaume, Ghannay, Sahar, Tahi, Fariza
Published in NAR genomics and bioinformatics (01.06.2024)
Published in NAR genomics and bioinformatics (01.06.2024)
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The Catalan initiative for the Earth BioGenome Project: contributing local data to global biodiversity genomics
Corominas, Montserrat, Marquès-Bonet, Tomàs, Arnedo, Miquel A, Bayés, Mònica, Belmonte, Jordina, Escrivà, Hector, Fernández, Rosa, Gabaldón, Toni, Garnatje, Teresa, Germain, Josep, Niell, Manel, Palero, Ferran, Pons, Joan, Puigdomènech, Pere, Arroyo, Vanesa, Cuevas-Caballé, Cristian, Obiol, Joan Ferrer, Gut, Ivo, Gut, Marta, Hidalgo, Oriane, Izquierdo-Arànega, Guillem, Pérez-Sorribes, Laia, Righi, Emilio, Riutort, Marta, Vallès, Joan, Rozas, Julio, Alioto, Tyler, Guigó, Roderic
Published in NAR genomics and bioinformatics (01.09.2024)
Published in NAR genomics and bioinformatics (01.09.2024)
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