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Hugues Richard (on leave, RKI, Berlin)
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Found 21 results
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Targeted domain assembly for fast functional profiling of metagenomic datasets with S3A. Bioinformatics. (2020).
. Transcripts’ Evolutionary History and Structural Dynamics Give Mechanistic Insights into the Functional Diversity of the JNK Family. Journal of Molecular Biology. (2020).
. DiNAMO: highly sensitive DNA motif discovery in high-throughput sequencing data. 19(1), pp.223 (2018).
. Jointly aligning a group of DNA reads improves accuracy of identifying large deletions. Nucleic Acids Research. 46(3), (2018).
. Meet-U: Educating through research immersion. PLOS Computational Biology. 14, pp.1-10 (2018).
. PureCLIP: Capturing Target-Specific protein-RNA Interaction Footprints from Single-Nucleotide CLIP-Seq Data. Genome Biology. 18(1), (2017).
. The Metagenomics and Metadesign of the Subways and Urban Biomes (MetaSUB) International Consortium inaugural meeting report. Microbiome. 4(1), pp.24 (2016).
. Ulysses: accurate detection of low-frequency structural variations in large insert-size sequencing libraries. Bioinformatics. 31(6), pp.801-8 (2015).
. The diversity of small non-coding RNAs in the diatom Phaeodactylum tricornutum. BMC Genomics. 15, pp.698 (2014).
. Fiona: a parallel and automatic strategy for read error correction. Bioinformatics. 30(17), pp.i356-63 (2014).
. Parseq: reconstruction of microbial transcription landscape from RNA-Seq read counts using state-space models. Bioinformatics. 30(10), pp.1409-16 (2014).
. Pardiff: Inference of Differential Expression at Base-Pair Level from RNA-Seq Experiments. in IEEE International Conference on Image Analysis and Processing (ICIAP) 2013 Workshops, LNCS 8158. Springer. pp. 418–427 (2013)
Comprehensive identification and quantification of microbial transcriptomes by genome-wide unbiased methods. Curr Opin Biotechnol. 22(1), pp.32-41 (2011).
. The genome of a songbird. Nature. 464(7289), pp.757 - 762 (2010).
. Prediction of alternative isoforms from exon expression levels in RNA-Seq experiments. Nucleic Acids Res. 38(10), pp.e112 (2010).
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A global view of gene activity and alternative splicing by deep sequencing of the human transcriptome. Science. 321(5891), pp.956-60 (2008).
. seq++: analyzing biological sequences with a range of Markov-related models. Bioinformatics. 21, pp.2783-2784 (2005).
. SIC: A tool to detect short inverted segments in a biological sequence. Nucleic Acids Res. 31(13), pp.3669-71 (2003).
. SPA: Simple web tool to assess statistical significance of DNA patterns. Nucleic Acids Res. 31(13), pp.3679-81 (2003).
. Occurrence probability of structured motifs in random sequences. J Comput Biol. 9(6), pp.761-73 (2002).
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