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Genion, an accurate tool to detect gene fusion from long transcriptomics reads

BMC genomics, 2022-02, Vol.23 (1), p.129-129, Article 129

2022

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SCALCE: boosting sequence compression algorithms using locally consistent encoding

Bioinformatics, 2012-12, Vol.28 (23), p.3051-3057

2012

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Fast characterization of segmental duplications in genome assemblies

Bioinformatics, 2018-09, Vol.34 (17), p.i706-i714

2018

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mrsFAST: a cache-oblivious algorithm for short-read mapping

Nature methods, 2010-08, Vol.7 (8), p.576-577

2010

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CoLoRMap: Correcting Long Reads by Mapping short reads

Bioinformatics (Oxford, England), 2016-09, Vol.32 (17), p.i545-i551

2016

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Comparison of high-throughput sequencing data compression tools

Nature methods, 2016-12, Vol.13 (12), p.1005-1008

2016

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HASLR: Fast Hybrid Assembly of Long Reads

iScience, 2020-08, Vol.23 (8), p.101389-101389, Article 101389

2020

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Fast characterization of segmental duplication structure in multiple genome assemblies

Algorithms for molecular biology, 2022-03, Vol.17 (1), p.4-15, Article 4

2022

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Discovery and genotyping of novel sequence insertions in many sequenced individuals

Bioinformatics (Oxford, England), 2017-07, Vol.33 (14), p.i161-i169

2017

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BAP1 haploinsufficiency predicts a distinct immunogenic class of malignant peritoneal mesothelioma

Genome medicine, 2019-02, Vol.11 (1), p.8-8, Article 8

2019

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Functional mapping of androgen receptor enhancer activity

Genome Biology, 2021-05, Vol.22 (1), p.149-149, Article 149

2021

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Identification of gene signature for treatment response to guide precision oncology in clear-cell renal cell carcinoma

Scientific reports, 2020-02, Vol.10 (1), p.2026-2026, Article 2026

2020

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Fast and accurate matching of cellular barcodes across short-reads and long-reads of single-cell RNA-seq experiments

iScience, 2022-07, Vol.25 (7), p.104530-104530, Article 104530

2022

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Alu repeat discovery and characterization within human genomes

Genome research, 2011-06, Vol.21 (6), p.840-849

2011

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Robustness of Massively Parallel Sequencing Platforms

PloS one, 2015-09, Vol.10 (9), p.e0138259-e0138259

2015

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lordFAST: sensitive and Fast Alignment Search Tool for LOng noisy Read sequencing Data

Bioinformatics, 2019-01, Vol.35 (1), p.20-27

2019

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Detecting high-scoring local alignments in pangenome graphs

Bioinformatics (Oxford, England), 2021-08, Vol.37 (16), p.2266-2274

2021

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PD23-11 UNCOVERING THE GENETIC PATHWAYS OF PEYRONIE'S FIBROSIS: SINGLE CELL TRANSCRIPTOMIC ANALYSIS OF PEYRONIE'S PLAQUE

The Journal of urology, 2022-05, Vol.207 (Supplement 5)

2022

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PD48-06 DEVELOPMENT OF A MACHINE LEARNING ALGORITHM FOR PEYRONIE'S DISEASE CURVATURE ASSESSMENT

The Journal of urology, 2021-09, Vol.206 (Supplement 3)

2021

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Molecular mechanisms of cellular dysfunction in testes from men with non-obstructive azoospermia

Nature reviews. Urology, 2024-02, Vol.21 (2), p.67-90

2024

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TKSM: highly modular, user-customizable, and scalable transcriptomic sequencing long-read simulator

Bioinformatics (Oxford, England), 2024-02, Vol.40 (2)

2024

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Freddie: annotation-independent detection and discovery of transcriptomic alternative splicing isoforms using long-read sequencing

Nucleic acids research, 2023-01, Vol.51 (2), p.e11-e11

2023

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PD36-12 ABNORMALITIES IN BOTH SOMATIC AND GERM CELLS DIFFERENTIATE NOA TESTES FROM NORMAL CONTROLS USING SINGLE CELL RNA SEQUENCING

The Journal of urology, 2022-05, Vol.207 (Supplement 5)

2022

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PhISCS: a combinatorial approach for subperfect tumor phylogeny reconstruction via integrative use of single-cell and bulk sequencing data

Genome research, 2019-11, Vol.29 (11), p.1860-1877

2019

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CircMiner: accurate and rapid detection of circular RNA through splice-aware pseudo-alignment scheme

Bioinformatics, 2020-06, Vol.36 (12), p.3703-3711

2020

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Genion, an accurate tool to detect gene fusion from long transcriptomics reads

SCALCE: boosting sequence compression algorithms using locally consistent encoding

Fast characterization of segmental duplications in genome assemblies

mrsFAST: a cache-oblivious algorithm for short-read mapping

CoLoRMap: Correcting Long Reads by Mapping short reads

Comparison of high-throughput sequencing data compression tools

HASLR: Fast Hybrid Assembly of Long Reads

Fast characterization of segmental duplication structure in multiple genome assemblies

Discovery and genotyping of novel sequence insertions in many sequenced individuals

BAP1 haploinsufficiency predicts a distinct immunogenic class of malignant peritoneal mesothelioma

Functional mapping of androgen receptor enhancer activity

Identification of gene signature for treatment response to guide precision oncology in clear-cell renal cell carcinoma

Fast and accurate matching of cellular barcodes across short-reads and long-reads of single-cell RNA-seq experiments

Alu repeat discovery and characterization within human genomes

Robustness of Massively Parallel Sequencing Platforms

lordFAST: sensitive and Fast Alignment Search Tool for LOng noisy Read sequencing Data

Detecting high-scoring local alignments in pangenome graphs

PD23-11 UNCOVERING THE GENETIC PATHWAYS OF PEYRONIE'S FIBROSIS: SINGLE CELL TRANSCRIPTOMIC ANALYSIS OF PEYRONIE'S PLAQUE

PD48-06 DEVELOPMENT OF A MACHINE LEARNING ALGORITHM FOR PEYRONIE'S DISEASE CURVATURE ASSESSMENT

Molecular mechanisms of cellular dysfunction in testes from men with non-obstructive azoospermia

TKSM: highly modular, user-customizable, and scalable transcriptomic sequencing long-read simulator

Freddie: annotation-independent detection and discovery of transcriptomic alternative splicing isoforms using long-read sequencing

PD36-12 ABNORMALITIES IN BOTH SOMATIC AND GERM CELLS DIFFERENTIATE NOA TESTES FROM NORMAL CONTROLS USING SINGLE CELL RNA SEQUENCING

PhISCS: a combinatorial approach for subperfect tumor phylogeny reconstruction via integrative use of single-cell and bulk sequencing data

CircMiner: accurate and rapid detection of circular RNA through splice-aware pseudo-alignment scheme

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