Whole genome sequencing of Mycobacterium tuberculosis: current standards and open issues

CJ Meehan, GA Goig, TA Kohl, L Verboven… - NATURE reviews …, 2019 - nature.com
Whole genome sequencing (WGS) of Mycobacterium tuberculosis has rapidly progressed
from a research tool to a clinical application for the diagnosis and management of …

[PDF][PDF] The role of metadata in reproducible computational research

J Leipzig, D Nüst, CT Hoyt, K Ram, J Greenberg - Patterns, 2021 - cell.com
Reproducible computational research (RCR) is the keystone of the scientific method for in
silico analyses, packaging the transformation of raw data to published results. In addition to …

PLANTdataHUB: a collaborative platform for continuous FAIR data sharing in plant research

HL Weil, K Schneider, M Tschöpe, J Bauer… - The Plant …, 2023 - Wiley Online Library
In modern reproducible, hypothesis‐driven plant research, scientists are increasingly relying
on research data management (RDM) services and infrastructures to streamline the …

Towards the development of digital twins for the bio-manufacturing industry

CL Gargalo, SC de Las Heras, MN Jones… - Digital twins: Tools and …, 2021 - Springer
The bio-manufacturing industry, along with other process industries, now has the opportunity
to be engaged in the latest industrial revolution, also known as Industry 4.0. To successfully …

Data lakes, clouds, and commons: A review of platforms for analyzing and sharing genomic data

RL Grossman - Trends in Genetics, 2019 - cell.com
Data commons collate data with cloud computing infrastructure and commonly used
software services, tools, and applications to create biomedical resources for the large-scale …

OncoMX: a knowledgebase for exploring cancer biomarkers in the context of related cancer and healthy data

HM Dingerdissen, F Bastian… - JCO clinical cancer …, 2020 - ascopubs.org
PURPOSE The purpose of OncoMX knowledgebase development was to integrate cancer
biomarker and relevant data types into a meta-portal, enabling the research of cancer …

[HTML][HTML] Data management and modeling in plant biology

M Krantz, D Zimmer, SO Adler, A Kitashova… - Frontiers in Plant …, 2021 - frontiersin.org
The study of plant-environment interactions is a multidisciplinary research field. With the
emergence of quantitative large-scale and high-throughput techniques, amount and …

[HTML][HTML] Enabling precision medicine via standard communication of HTS provenance, analysis, and results

G Alterovitz, D Dean, C Goble, MR Crusoe… - PLoS …, 2018 - journals.plos.org
A personalized approach based on a patient's or pathogen's unique genomic sequence is
the foundation of precision medicine. Genomic findings must be robust and reproducible …

[HTML][HTML] Orchestrating and sharing large multimodal data for transparent and reproducible research

A Mammoliti, P Smirnov, M Nakano, Z Safikhani… - Nature …, 2021 - nature.com
Reproducibility is essential to open science, as there is limited relevance for findings that
can not be reproduced by independent research groups, regardless of its validity. It is …

Blockchain: An enabler for healthcare and life sciences transformation

F Curbera, DM Dias, V Simonyan… - IBM Journal of …, 2019 - ieeexplore.ieee.org
Major trends in healthcare and life sciences (HCLS) include huge amounts of and
longitudinal patient data, policies on a patient's rights to access and control their data, a …