Lachlan James M. Coin

According to our database, Lachlan James M. Coin authored at least 28 papers between 2004 and 2024.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2024

PLANNER: A Multi-Scale Deep Language Model for the Origins of Replication Site Prediction.

Cong Wang, Zhijie He, Runchang Jia, Shirui Pan, Lachlan J. M. Coin, Jiangning Song, Fuyi Li

IEEE J. Biomed. Health Informatics, April, 2024

2023

Digerati - A multipath parallel hybrid deep learning framework for the identification of mycobacterial PE/PPE proteins.

Fuyi Li, Xudong Guo, Yue Bi, Runchang Jia, Miranda E. Pitt, Shirui Pan, Shuqin Li, Robin B. Gasser, Lachlan J. M. Coin, Jiangning Song

Comput. Biol. Medicine, September, 2023

TIMER is a Siamese neural network-based framework for identifying both general and species-specific bacterial promoters.

Yan Zhu, Fuyi Li, Xudong Guo, Xiaoyu Wang, Lachlan J. M. Coin, Geoffrey I. Webb, Jiangning Song, Cangzhi Jia

Briefings Bioinform., July, 2023

ATTIC is an integrated approach for predicting A-to-I RNA editing sites in three species.

Ruyi Chen, Fuyi Li, Xudong Guo, Yue Bi, Chen Li, Shirui Pan, Lachlan J. M. Coin, Jiangning Song

Briefings Bioinform., May, 2023

2022

Nanoq: ultra-fast quality control for nanopore reads.

Eike Steinig, Lachlan J. M. Coin

J. Open Source Softw., 2022

DeepGenGrep: a general deep learning-based predictor for multiple genomic signals and regions.

Quanzhong Liu, Honglin Fang, Xiao Wang, Miao Wang, Shuqin Li, Lachlan J. M. Coin, Fuyi Li, Jiangning Song

Bioinform., 2022

Critical assessment of computational tools for prokaryotic and eukaryotic promoter prediction.

Meng Zhang, Cangzhi Jia, Fuyi Li, Chen Li, Yan Zhu, Tatsuya Akutsu, Geoffrey I. Webb, Quan Zou, Lachlan J. M. Coin, Jiangning Song

Briefings Bioinform., 2022

Positive-unlabeled learning in bioinformatics and computational biology: a brief review.

Fuyi Li, Shuangyu Dong, André Leier, Meiya Han, Xudong Guo, Jing Xu, Xiaoyu Wang, Shirui Pan, Cangzhi Jia, Yang Zhang, Geoffrey I. Webb, Lachlan J. M. Coin, Chen Li, Jiangning Song

Briefings Bioinform., 2022

2021

Real-time resolution of short-read assembly graph using ONT long reads.

Son Hoang Nguyen, Minh Duc Cao, Lachlan J. M. Coin

PLoS Comput. Biol., 2021

Porpoise: a new approach for accurate prediction of RNA pseudouridine sites.

Fuyi Li, Xudong Guo, Peipei Jin, Jinxiang Chen, Dongxu Xiang, Jiangning Song, Lachlan J. M. Coin

Briefings Bioinform., 2021

2018

npInv: accurate detection and genotyping of inversions using long read sub-alignment.

Haojing Shao, Devika Ganesamoorthy, Tania P. S. Duarte, Minh Duc Cao, Clive J. Hoggart, Lachlan J. M. Coin

BMC Bioinform., 2018

GtTR: Bayesian estimation of absolute tandem repeat copy number using sequence capture and high throughput sequencing.

Devika Ganesamoorthy, Minh Duc Cao, Tania P. S. Duarte, Wenhan Chen, Lachlan James M. Coin

BMC Bioinform., 2018

Simulating the dynamics of targeted capture sequencing with CapSim.

Minh Duc Cao, Devika Ganesamoorthy, Chenxi Zhou, Lachlan J. M. Coin

Bioinform., 2018

2017

Real-time demultiplexing Nanopore barcoded sequencing data with npBarcode.

Son Hoang Nguyen, Tania P. S. Duarte, Lachlan J. M. Coin, Minh Duc Cao

Bioinform., 2017

2016

Realtime analysis and visualization of MinION sequencing data with npReader.

Minh Duc Cao, Devika Ganesamoorthy, Matthew A. Cooper, Lachlan J. M. Coin

Bioinform., 2016

2014

cnvOffSeq: detecting intergenic copy number variation using off-target exome sequencing data.

Evangelos Bellos, Lachlan J. M. Coin

Bioinform., 2014

2013

YHap: a population model for probabilistic assignment of Y haplogroups from re-sequencing data.

Fan Zhang, Ruoyan Chen, Dongbing Liu, Xiaotian Yao, Guoqing Li, Yabin Jin, Chang Yu, Yingrui Li, Lachlan James M. Coin

BMC Bioinform., 2013

2012

An exome sequencing pipeline for identifying and genotyping common CNVs associated with disease with application to psoriasis.

Lachlan James M. Coin, Dandan Cao, Jingjing Ren, Xianbo Zuo, Liangdan Sun, Sen Yang, Xuejun Zhang, Yong Cui, Yingrui Li, Xin Jin, Jun Wang

Bioinform., 2012

2011

famCNV: copy number variant association for quantitative traits in families.

Hariklia Eleftherohorinou, Johanna C. Andersson-Assarsson, Robin G. Walters, Julia S. El-Sayed Moustafa, Lachlan J. M. Coin, Peter Jacobson, Lena M. S. Carlsson, Alexandra I. F. Blakemore, Philippe Froguel, Andrew J. Walley, Mario Falchi

Bioinform., 2011

2010

Inferring combined CNV/SNP haplotypes from genotype data.

Shu-Yi Su, Julian E. Asher, Marjo-Riitta Järvelin, Philippe Froguel, Alexandra I. F. Blakemore, David J. Balding, Lachlan J. M. Coin

Bioinform., 2010

invertFREGENE: software for simulating inversions in population genetic data.

Paul F. O'Reilly, Lachlan J. M. Coin, Clive J. Hoggart

Bioinform., 2010

2008

TreeFam: 2008 Update.

Jue Ruan, Heng Li, Zhongzhong Chen, Avril Coghlan, Lachlan James M. Coin, Yiran Guo, Jean-Karim Hériché, Yafeng Hu, Karsten Kristiansen, Ruiqiang Li, Tao Liu, Alan Moses, Junjie Qin, Søren Vang, Albert J. Vilella, Abel Ureta-Vidal, Lars Bolund, Jun Wang, Richard Durbin

Nucleic Acids Res., 2008

Inference of haplotypic phase and missing genotypes in polyploid organisms and variable copy number genomic regions.

Shu-Yi Su, Jonathan White, David J. Balding, Lachlan J. M. Coin

BMC Bioinform., 2008

Disease association tests by inferring ancestral haplotypes using a hidden markov model.

Shu-Yi Su, David J. Balding, Lachlan J. M. Coin

Bioinform., 2008

2006

TreeFam: a curated database of phylogenetic trees of animal gene families.

Heng Li, Avril Coghlan, Jue Ruan, Lachlan James M. Coin, Jean-Karim Hériché, Lara Osmotherly, Ruiqiang Li, Tao Liu, Zhang Zhang, Lars Bolund, Gane Ka-Shu Wong, Wei-Mou Zheng, Paramvir Dehal, Jun Wang, Richard Durbin

Nucleic Acids Res., 2006

2004

The Pfam protein families database.

Alex Bateman, Lachlan James M. Coin, Richard Durbin, Robert D. Finn, Volker Hollich, Sam Griffiths-Jones, Ajay Khanna, Mhairi Marshall, Simon Moxon, Erik L. L. Sonnhammer, David J. Studholme, Corin Yeats, Sean R. Eddy

Nucleic Acids Res., 2004

Enhanced protein domain discovery using taxonomy.

Lachlan James M. Coin, Alex Bateman, Richard Durbin

BMC Bioinform., 2004

Improved techniques for the identification of pseudogenes.

Lachlan James M. Coin, Richard Durbin

Proceedings of the Proceedings Twelfth International Conference on Intelligent Systems for Molecular Biology/Third European Conference on Computational Biology 2004, 2004