Gautheret D - Search Results

1

REINDEER: efficient indexing of k-mer presence and abundance in sequencing datasets.

Marchet C, Iqbal Z, Gautheret D, Salson M, Chikhi R. Marchet C, et al. Among authors: gautheret d. Bioinformatics. 2020 Jul 1;36(Suppl_1):i177-i185. doi: 10.1093/bioinformatics/btaa487. Bioinformatics. 2020. PMID: 32657392 Free PMC article.

2

DE-kupl: exhaustive capture of biological variation in RNA-seq data through k-mer decomposition.

Audoux J, Philippe N, Chikhi R, Salson M, Gallopin M, Gabriel M, Le Coz J, Drouineau E, Commes T, Gautheret D. Audoux J, et al. Among authors: gautheret d. Genome Biol. 2017 Dec 28;18(1):243. doi: 10.1186/s13059-017-1372-2. Genome Biol. 2017. PMID: 29284518 Free PMC article.

3

A benchmark study of scoring methods for non-coding mutations.

Drubay D, Gautheret D, Michiels S. Drubay D, et al. Among authors: gautheret d. Bioinformatics. 2018 May 15;34(10):1635-1641. doi: 10.1093/bioinformatics/bty008. Bioinformatics. 2018. PMID: 29340599

4

2-kupl: mapping-free variant detection from DNA-seq data of matched samples.

Wang Y, Xue H, Pourcel C, Du Y, Gautheret D. Wang Y, et al. Among authors: gautheret d. BMC Bioinformatics. 2021 Jun 5;22(1):304. doi: 10.1186/s12859-021-04185-6. BMC Bioinformatics. 2021. PMID: 34090332 Free PMC article.

5

AltTrans: transcript pattern variants annotated for both alternative splicing and alternative polyadenylation.

Le Texier V, Riethoven JJ, Kumanduri V, Gopalakrishnan C, Lopez F, Gautheret D, Thanaraj TA. Le Texier V, et al. Among authors: gautheret d. BMC Bioinformatics. 2006 Mar 23;7:169. doi: 10.1186/1471-2105-7-169. BMC Bioinformatics. 2006. PMID: 16556303 Free PMC article.

6

Mireval: a web tool for simple microRNA prediction in genome sequences.

Ritchie W, Théodule FX, Gautheret D. Ritchie W, et al. Among authors: gautheret d. Bioinformatics. 2008 Jun 1;24(11):1394-6. doi: 10.1093/bioinformatics/btn137. Epub 2008 May 3. Bioinformatics. 2008. PMID: 18453555

7

VING: a software for visualization of deep sequencing signals.

Descrimes M, Ben Zouari Y, Wery M, Legendre R, Gautheret D, Morillon A. Descrimes M, et al. Among authors: gautheret d. BMC Res Notes. 2015 Sep 7;8:419. doi: 10.1186/s13104-015-1404-5. BMC Res Notes. 2015. PMID: 26346985 Free PMC article.

8

Bridging the gap between reference and real transcriptomes.

Morillon A, Gautheret D. Morillon A, et al. Among authors: gautheret d. Genome Biol. 2019 Jun 3;20(1):112. doi: 10.1186/s13059-019-1710-7. Genome Biol. 2019. PMID: 31159855 Free PMC article.

9

Rfam 14: expanded coverage of metagenomic, viral and microRNA families.

Kalvari I, Nawrocki EP, Ontiveros-Palacios N, Argasinska J, Lamkiewicz K, Marz M, Griffiths-Jones S, Toffano-Nioche C, Gautheret D, Weinberg Z, Rivas E, Eddy SR, Finn RD, Bateman A, Petrov AI. Kalvari I, et al. Among authors: gautheret d. Nucleic Acids Res. 2021 Jan 8;49(D1):D192-D200. doi: 10.1093/nar/gkaa1047. Nucleic Acids Res. 2021. PMID: 33211869 Free PMC article.

10

Applications of single-cell and bulk RNA sequencing in onco-immunology.

Kuksin M, Morel D, Aglave M, Danlos FX, Marabelle A, Zinovyev A, Gautheret D, Verlingue L. Kuksin M, et al. Among authors: gautheret d. Eur J Cancer. 2021 May;149:193-210. doi: 10.1016/j.ejca.2021.03.005. Epub 2021 Apr 15. Eur J Cancer. 2021. PMID: 33866228 Free article. Review.

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