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Research Open access Published: 20 January 2020 Benchmarking principal component analysis for large-scale single-cell RNA-sequencing Koki Tsuyuzaki ORCID: orcid.org/0000-0003-3797-21481,2, Hiroyuki Sato ORCID: orcid.org/0000-0003-1399-81403, Kenta Sato ORCID: orcid.org/0000-0002-6569-55741,4 & …Itoshi Nikaido ORCID: orcid.org/0000-0002-7261-25701,5 Show authors Genome Biology volume 21, Article nu
Comment Open access Published: 23 August 2016 Gene name errors are widespread in the scientific literature Mark Ziemann1, Yotam Eren1,2 & Assam El-Osta1,3 Genome Biology volume 17, Article number: 177 (2016) Cite this article The spreadsheet software Microsoft Excel, when used with default settings, is known to convert gene names to dates and floating-point numbers. A programmatic scan of leading
InSilico DB genomic datasets hub: an efficient starting point for analyzing genome-wide studies in GenePattern, Integrative Genomics Viewer, and R/Bioconductor Software Open Access Published: 18 November 2012 InSilico DB genomic datasets hub: an efficient starting point for analyzing genome-wide studies in GenePattern, Integrative Genomics Viewer, and R/Bioconductor Alain Coletta1, Colin Molter1,
Genome editing and cancer - Open until: 8 Feb 2025 Centromere structure and evolution - Open until: 8 Jan 2025 Genomics for crop improvement - Open until: 4 Jan 2025 Transposable elements in genome evolution - Open until: 21 Dec 2024 Chromatin and epigenomic modifications in development and disease - Open until: 11 Sep 2024 Ancient DNA - Open until: 11 Sep 2024 Insights from trans-ancestral associ
Method Open Access Published: 27 October 2010 Differential expression analysis for sequence count data Simon Anders1 & Wolfgang Huber1 Genome Biology volume 11, Article number: R106 (2010) Cite this article High-throughput sequencing assays such as RNA-Seq, ChIP-Seq or barcode counting provide quantitative readouts in the form of count data. To infer differential signal in such data correctly and
Method Open access Published: 02 March 2010 A scaling normalization method for differential expression analysis of RNA-seq data Mark D Robinson1,2 & Alicia Oshlack1 Genome Biology volume 11, Article number: R25 (2010) Cite this article The fine detail provided by sequencing-based transcriptome surveys suggests that RNA-seq is likely to become the platform of choice for interrogating steady state R
Software Open access Published: 04 March 2009 Ultrafast and memory-efficient alignment of short DNA sequences to the human genome Ben Langmead1, Cole Trapnell1, Mihai Pop1 & …Steven L Salzberg1 Show authors Genome Biology volume 10, Article number: R25 (2009) Cite this article Bowtie is an ultrafast, memory-efficient alignment program for aligning short DNA sequence reads to large genomes. For the
Bioinformatics has become too central to biology to be left to specialist bioinformaticians. Biologists are all bioinformaticians now. Six years ago I felt like the boy who hit a telephone pole with a wooden stick at the exact instant a power failure darkened all the lights across the US Northeast. In February 2003 I gave a keynote address for the second annual O'Reilly Bioinformatics Technology C
CellProfiler: image analysis software for identifying and quantifying cell phenotypes Software Open access Published: 31 October 2006 CellProfiler: image analysis software for identifying and quantifying cell phenotypes Anne E Carpenter1, Thouis R Jones1,2, Michael R Lamprecht1, Colin Clarke1,2, In Han Kang2, Ola Friman3, David A Guertin1, Joo Han Chang1, Robert A Lindquist1, Jason Moffat1, Polina
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