Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Projects: pypi: NanoSV

https://packages.ecosyste.ms/registries/pypi.org/packages/NanoSV

Structural variation detection tool for Oxford Nanopore data.
12 versions
Latest release: almost 5 years ago
33 downloads last month

Papers Mentioning NanoSV 14

GRIDSS2: comprehensive characterisation of somatic structural variation using single breakend variants and structural variant phasing
Cited by: 58
Author(s): Daniel Cameron, Jonathan Baber, Charles Shale, Jose Espejo Valle-Inclán, Nicolle Besselink, Arne van Hoeck, Roel Janssen, Edwin Cuppen, Peter Priestley, Anthony T. Papenfuss
Software Mentions: 6
Published: about 3 years ago

10.1186/s13059-019-1858-1

Evaluating nanopore sequencing data processing pipelines for structural variation identification
Cited by: 30
Author(s): Anbo Zhou, Timothy Lin, Jinchuan Xing
Software Mentions: 5
Published: almost 5 years ago

10.1007/s00401-017-1743-5

Same-day genomic and epigenomic diagnosis of brain tumors using real-time nanopore sequencing
Cited by: 120
Author(s): Philipp Euskirchen, Franck Bielle, Karim Labreche, Wigard P. Kloosterman, Shai Rosenberg, Maïlys Daniau, Charlotte Schmitt, Julien Masliah‐Planchon, Franck Bourdeaut, Caroline Dehais, Yannick Marie, Jean‐Yves Delattre, Ahmed Idbaïh
Software Mentions: 4
Published: about 7 years ago

10.1186/s12915-020-00927-9

Rapid protein evolution, organellar reductions, and invasive intronic elements in the marine aerobic parasite dinoflagellate Amoebophrya spp
Cited by: 29
Author(s): Sarah Farhat, Phuong Thi Le, Ehsan Kayal, Benjamin Noël, Estelle Bigeard, Matthieu Le Corre, Florian Maumus, Isabelle Florent, Adriana Alberti, Jean‐Marc Aury, Tristan Barbeyron, Ruibo Cai, Corinne Da Silva, Benjamin Istace, Karine Labadie, Dominique Marie, Jonathan Mercier, Tsinda Rukwavu, Jeremy Szymczak, Thierry Tonon, Catharina Alves‐de‐Souza, Pierre Rouzé, Yves Van de Peer, Patrick Wincker, Stéphane Rombauts, Betina M. Porcel, Laure Guillou
Software Mentions: 4
Published: over 3 years ago

10.1186/s13073-018-0606-6

Complex structural variants in Mendelian disorders: identification and breakpoint resolution using short- and long-read genome sequencing
Cited by: 102
Author(s): Alba Sanchis‐Juan, Jonathan Stephens, Courtney French, Nicholas Gleadall, Karyn Mégy, Christopher J. Penkett, Olga Shamardina, Kathleen Stirrups, Isabelle Delon, Eleanor Dewhurst, Helen Dolling, Marie Erwood, Detelina Grozeva, Luca Stefanucci, Gavin Arno, Andrew R. Webster, Trevor Cole, Topun Austin, Ricardo Garcia Branco, Willem H. Ouwehand, F. Lucy Raymond, Keren Carss
Software Mentions: 3
Published: almost 6 years ago

10.1186/s13059-021-02382-3

Characterization of structural variation in Tibetans reveals new evidence of high-altitude adaptation and introgression
Cited by: 29
Author(s): Qimin Cheng, Yuanfeng Li, Xinyi Liu, Yahui Wang, Jie Ping, Yiming Lu, Gangqiao Zhou
Software Mentions: 3
Published: over 3 years ago

10.1186/s12885-020-07571-0

Targeted nanopore sequencing for the identification of ABCB1 promoter translocations in cancer
Cited by: 6
Author(s): Mark S. Williams, Naseer J. Basma, Fabio Amaral, Gillian Williams, John Weightman, Wolfgang Breitwieser, Louisa Nelson, Stephen S. Taylor, Daniel H. Wiseman, Tim C. P. Somervaille
Software Mentions: 3
Published: almost 4 years ago

10.1186/s13059-020-01968-7

NanoVar: accurate characterization of patients’ genomic structural variants using low-depth nanopore sequencing
Cited by: 53
Author(s): Cheng Yong Tham, Roberto Tirado-Magallanes, Yufen Goh, Melissa J. Fullwood, Bryan T. H. Koh, Wilson Wang, Chin Hin Ng, Wee Joo Chng, Alexandre H. Thiéry, Daniel G. Tenen, Touati Benoukraf
Software Mentions: 3
Published: over 4 years ago

10.1186/s13059-019-1828-7

Structural variant calling: the long and the short of it
Cited by: 346
Author(s): Medhat Mahmoud, Nastassia Gobet, Diana Ivette Cruz-Dávalos, Ninon Mounier, Christophe Dessimoz, Fritz J. Sedlazeck
Software Mentions: 2
Published: almost 5 years ago

10.1186/s13073-020-00762-1

A pipeline for complete characterization of complex germline rearrangements from long DNA reads
Cited by: 21
Author(s): Satomi Mitsuhashi, Sachiko Ohori, Kazutaka Katoh, Martin C. Frith, Naomichi Matsumoto
Software Mentions: 2
Published: about 4 years ago

10.3389/fgene.2019.01313

Location of Balanced Chromosome-Translocation Breakpoints by Long-Read Sequencing on the Oxford Nanopore Platform
Cited by: 27
Author(s): Liang Hu, Fan Liang, Dehua Cheng, Zhiyuan Zhang, Guoliang Yu, Jianjun Zha, Yan Wang, Xia Qi, Yuan Chun Ding, Yue‐Qiu Tan, Depeng Wang, Liang Yu, Ge Lin
Software Mentions: 1
Published: over 4 years ago

10.1016/j.mex.2019.10.028

High-resolution mapping of reciprocal translocation breakpoints using long-read sequencing
Cited by: 5
Author(s): Judy F.C. Chow, Heidi H.Y. Cheng, Esther Yuet Ying Lau, William S.B. Yeung, Ernest H.Y. Ng
Software Mentions: 1
Published: over 5 years ago

10.1186/s13073-021-00899-7

Optimizing Nanopore sequencing-based detection of structural variants enables individualized circulating tumor DNA-based disease monitoring in cancer patients
Cited by: 13
Author(s): Jose Espejo Valle-Inclán, Christina Stangl, Anouk C. de Jong, Lisanne F. van Dessel, Markus J. van Roosmalen, Jean C. A. Helmijr, Ivo Renkens, Roel Janssen, Sam de Blank, Chris J. de Witte, John W.M. Martens, Maurice P.H.M. Jansen, Martijn P. Lolkema, Wigard P. Kloosterman
Software Mentions: 1
Published: over 3 years ago

10.3389/fgene.2020.00159

Evaluating Structural Variation Detection Tools for Long-Read Sequencing Datasets in Saccharomyces cerevisiae
Cited by: 12
Author(s): Meiwei Luan, Xiaoming Zhang, Zhaojie Zhu, Ying Chen, Shuang Xie
Software Mentions: 1
Published: over 4 years ago