Publications by authors named "Ben Busby"

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The challenge of chromatin model comparison and validation: A project from the first international 4D Nucleome Hackathon.
Jędrzej Kubica, Sevastianos Korsak, Krzysztof H Banecki, Dvir Schirman, Anurupa Devi Yadavalli, Ben Busby

PLoS Comput Biol· August 2025

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Correction: An international consensus on effective, inclusive, and career-spanning short-format training in the life sciences and beyond.
Jason J Williams, Rochelle E Tractenberg, Bérénice Batut, Erin A Becker, Anne M Brown, Ben Busby

PLoS One· February 2025

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The GIAB genomic stratifications resource for human reference genomes.
Nathan Dwarshuis, Divya Kalra, Jennifer McDaniel, Philippe Sanio, Pilar Alvarez Jerez, Ben Busby

Nat Commun· October 2024

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Plasma Proteomic Signature Predicts Myeloid Neoplasm Risk.
Duc Tran, J Scott Beeler, Jie Liu, Brian Wiley, Irenaeus C C Chan, Ben Busby

Clin Cancer Res· August 2024

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An international consensus on effective, inclusive, and career-spanning short-format training in the life sciences and beyond.
Jason J Williams, Rochelle E Tractenberg, Bérénice Batut, Erin A Becker, Anne M Brown, Ben Busby

PLoS One· November 2023

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VariantSurvival: a tool to identify genotype-treatment response.
Thomas Krannich, Marina Herrera Sarrias, Hiba Ben Aribi, Moustafa Shokrof, Alfredo Iacoangeli, Ben Busby

Front Bioinform· October 2023

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Genetically defined individual reference ranges for tryptase limit unnecessary procedures and unmask myeloid neoplasms.
Jack Chovanec, Ilker Tunc, Jason Hughes, Joseph Halstead, Allyson Mateja, Ben Busby

Blood Adv· May 2023

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The third international hackathon for applying insights into large-scale genomic composition to use cases in a wide range of organisms.
Kimberly Walker, Divya Kalra, Rebecca Lowdon, Guangyi Chen, David Molik, Ben Busby

F1000Res· October 2022

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iCn3D: From Web-Based 3D Viewer to Structural Analysis Tool in Batch Mode.
Jiyao Wang, Philippe Youkharibache, Aron Marchler-Bauer, Christopher Lanczycki, Dachuan Zhang, Ben Busby

Front Mol Biosci· February 2022

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Acute and Chronic Pancreatitis Disease Prevalence, Classification, and Comorbidities: A Cohort Study of the UK BioBank.
Daniel M Spagnolo, Phil J Greer, Celeste Shelton Ohlsen, Shannon Mance, Mitchell Ellison, Ben Busby

Clin Transl Gastroenterol· January 2022

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An international virtual hackathon to build tools for the analysis of structural variants within species ranging from coronaviruses to vertebrates.
Ann M Mc Cartney, Medhat Mahmoud, Michael Jochum, Daniel Paiva Agustinho, Barry Zorman, Ben Busby

F1000Res· October 2021

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Predicting drug-metagenome interactions: Variation in the microbial β-glucuronidase level in the human gut metagenomes.
Moamen M Elmassry, Sunghwan Kim, Ben Busby

PLoS One· May 2021

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Jupyter notebook-based tools for building structured datasets from the Sequence Read Archive.
Matthew N Bernstein, Ariella Gladstein, Khun Zaw Latt, Emily Clough, Ben Busby

F1000Res· March 2021

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NCBI's Virus Discovery Codeathon: Building "FIVE" -The Federated Index of Viral Experiments API Index.
Joan Martí-Carreras, Alejandro Rafael Gener, Sierra D Miller, Anderson F Brito, Christiam E Camacho, Ben Busby

Viruses· December 2020

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Iron Hack - A symposium/hackathon focused on porphyrias, Friedreich's ataxia, and other rare iron-related diseases.
Gloria C Ferreira, Jenna Oberstaller, Renée Fonseca, Thomas E Keller, Swamy Rakesh Adapa, Ben Busby

F1000Res· June 2020

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Integrated Informatics Analysis of Cancer-Related Variants.
Kymberleigh A Pagel, Rick Kim, Kyle Moad, Ben Busby, Lily Zheng

JCO Clin Cancer Inform· March 2020

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NovoGraph: Human genome graph construction from multiple long-read assemblies.
Evan Biederstedt, Jeffrey C Oliver, Nancy F Hansen, Aarti Jajoo, Nathan Dunn, Ben Busby

F1000Res· November 2019

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A strategy for building and using a human reference pangenome.
Bastien Llamas, Giuseppe Narzisi, Valerie Schneider, Peter A Audano, Evan Biederstedt, Ben Busby

F1000Res· October 2019

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NCBI's Virus Discovery Hackathon: Engaging Research Communities to Identify Cloud Infrastructure Requirements.
Ryan Connor, Rodney Brister, Jan P Buchmann, Ward Deboutte, Rob Edwards, Ben Busby

Genes (Basel)· September 2019

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Reply to the paper: Misunderstood parameters of NCBI BLAST impacts the correctness of bioinformatics workflows.
Thomas L Madden, Ben Busby, Jian Ye

Bioinformatics· August 2019

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Box, stalked, and upside-down? Draft genomes from diverse jellyfish (Cnidaria, Acraspeda) lineages: Alatina alata (Cubozoa), Calvadosia cruxmelitensis (Staurozoa), and Cassiopea xamachana (Scyphozoa).
Aki Ohdera, Cheryl L Ames, Rebecca B Dikow, Ehsan Kayal, Marta Chiodin, Ben Busby

Gigascience· July 2019

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geneHummus: an R package to define gene families and their expression in legumes and beyond.
Jose V Die, Moamen M Elmassry, Kimberly H LeBlanc, Olaitan I Awe, Allissa Dillman, Ben Busby

BMC Genomics· July 2019

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Magic-BLAST, an accurate RNA-seq aligner for long and short reads.
Grzegorz M Boratyn, Jean Thierry-Mieg, Danielle Thierry-Mieg, Ben Busby, Thomas L Madden

BMC Bioinformatics· July 2019

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SeqAcademy: an educational pipeline for RNA-Seq and ChIP-Seq analysis.
Syed Hussain Ather, Olaitan Igbagbo Awe, Thomas J Butler, Tamiru Denka, Stephen Andrew Semick, Ben Busby

F1000Res· May 2018

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Matchmaking in Bioinformatics.
Ewy Mathé, Ben Busby, Helen Piontkivska,

F1000Res· February 2018

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