Daniel C. Berrios
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View article: Advancing Readiness for Deep Space Exploration: Status and Developments by the Alpha Magnetic Spectrometer Group
Advancing Readiness for Deep Space Exploration: Status and Developments by the Alpha Magnetic Spectrometer Group Open
View article: The WMDP Benchmark: Measuring and Reducing Malicious Use With Unlearning
The WMDP Benchmark: Measuring and Reducing Malicious Use With Unlearning Open
The White House Executive Order on Artificial Intelligence highlights the risks of large language models (LLMs) empowering malicious actors in developing biological, cyber, and chemical weapons. To measure these risks of malicious use, gov…
View article: Biological research and self-driving labs in deep space supported by artificial intelligence
Biological research and self-driving labs in deep space supported by artificial intelligence Open
Space biology research aims to understand fundamental spaceflight effects on organisms, develop foundational knowledge to support deep space exploration and, ultimately, bioengineer spacecraft and habitats to stabilize the ecosystem of pla…
View article: Biomonitoring and precision health in deep space supported by artificial intelligence
Biomonitoring and precision health in deep space supported by artificial intelligence Open
View article: Machine intelligence for radiation science: summary of the Radiation Research Society 67th annual meeting symposium
Machine intelligence for radiation science: summary of the Radiation Research Society 67th annual meeting symposium Open
The era of high-throughput techniques created big data in the medical field and research disciplines. Machine intelligence (MI) approaches can overcome critical limitations on how those large-scale data sets are processed, analyzed, and in…
View article: Holistic and pragmatic standards processes enable interdisciplinary science
Holistic and pragmatic standards processes enable interdisciplinary science Open
Earth and Space Science Open Archive This is a preprint and has not been peer reviewed. ESSOAr is a venue for early communication or feedback before peer review. Data may be preliminary.Learn more about preprints preprintOpen AccessYou are…
View article: Holistic and pragmatic standards processes enable interdisciplinary science
Holistic and pragmatic standards processes enable interdisciplinary science Open
Open, interdisciplinary science inevitably relies heavily on standards. Standards are those often unseen agreements that we take for granted when systems and processes are working fine. Yet standards work is perpetual, laborious, and somet…
View article: Beyond Low Earth Orbit: Biomonitoring, Artificial Intelligence, and Precision Space Health
Beyond Low Earth Orbit: Biomonitoring, Artificial Intelligence, and Precision Space Health Open
Human space exploration beyond low Earth orbit will involve missions of significant distance and duration. To effectively mitigate myriad space health hazards, paradigm shifts in data and space health systems are necessary to enable Earth-…
View article: Beyond Low Earth Orbit: Biological Research, Artificial Intelligence, and Self-Driving Labs
Beyond Low Earth Orbit: Biological Research, Artificial Intelligence, and Self-Driving Labs Open
Space biology research aims to understand fundamental effects of spaceflight on organisms, develop foundational knowledge to support deep space exploration, and ultimately bioengineer spacecraft and habitats to stabilize the ecosystem of p…
View article: Correction for Vangay et al., “Microbiome Metadata Standards: Report of the National Microbiome Data Collaborative’s Workshop and Follow-On Activities”
Correction for Vangay et al., “Microbiome Metadata Standards: Report of the National Microbiome Data Collaborative’s Workshop and Follow-On Activities” Open
Author(s): Vangay, Pajau; Burgin, Josephine; Johnston, Anjanette; Beck, Kristen L; Berrios, Daniel C; Blumberg, Kai; Canon, Shane; Chain, Patrick; Chandonia, John-Marc; Christianson, Danielle; Costes, Sylvain V; Damerow, Joan; Duncan, Will…
View article: NASA GeneLab RNA-seq consensus pipeline: Standardized processing of short-read RNA-seq data
NASA GeneLab RNA-seq consensus pipeline: Standardized processing of short-read RNA-seq data Open
View article: Microbiome Metadata Standards: Report of the National Microbiome Data Collaborative’s Workshop and Follow-On Activities
Microbiome Metadata Standards: Report of the National Microbiome Data Collaborative’s Workshop and Follow-On Activities Open
Microbiome samples are inherently defined by the environment in which they are found. Therefore, data that provide context and enable interpretation of measurements produced from biological samples, often referred to as metadata, are criti…
View article: Standardization of assay representation in the Ontology for Biomedical Investigations
Standardization of assay representation in the Ontology for Biomedical Investigations Open
The Ontology for Biomedical Investigations (OBI) underwent a focused review of assay term annotations, logic and hierarchy with a goal to improve and standardize these terms. As a result, inconsistencies in W3C Web Ontology Language (OWL) …
View article: NASA GeneLab RNA-Seq Consensus Pipeline: Standardized Processing of Short-Read RNA-Seq Data
NASA GeneLab RNA-Seq Consensus Pipeline: Standardized Processing of Short-Read RNA-Seq Data Open
Summary With the development of transcriptomic technologies, we are able to quantify precise changes in gene expression profiles from astronauts and other organisms exposed to spaceflight. Members of NASA GeneLab and GeneLab-associated ana…
View article: NASA GeneLab: interfaces for the exploration of space omics data
NASA GeneLab: interfaces for the exploration of space omics data Open
The mission of NASA’s GeneLab database (https://genelab.nasa.gov/) is to collect, curate, and provide access to the genomic, transcriptomic, proteomic and metabolomic (so-called ‘omics’) data from biospecimens flown in space or exposed to …
View article: Visualizing Omics Data from Spaceflight Samples using the NASA GeneLab Platform
Visualizing Omics Data from Spaceflight Samples using the NASA GeneLab Platform Open
NASA’s GeneLab platform is the first omics database and platform limited to studies related to space flight. This platform provides the scientific community a valuable resource for exploring, evaluating, and discovering hypotheses of space…
View article: Exploring the Effects of Spaceflight on Mouse Physiology using the Open Access NASA GeneLab Platform
Exploring the Effects of Spaceflight on Mouse Physiology using the Open Access NASA GeneLab Platform Open
Performing biological experiments in space requires special accommodations and procedures to ensure that these investigations are performed effectively and efficiently. Moreover, given the infrequency of these experiments it is imperative …
View article: NASA's GeneLab: An Integrated Omics Data Commons and Workbench
NASA's GeneLab: An Integrated Omics Data Commons and Workbench Open
GeneLab (http://genelab.nasa.gov) is a NASA initiative designed to accelerate "open science" biomedical research in support of the human exploration of space and the improvement of life on earth. The GeneLab Data Systems (GLDS) were develo…
View article: GeneLab: Omics database for spaceflight experiments
GeneLab: Omics database for spaceflight experiments Open
Motivation To curate and organize expensive spaceflight experiments conducted aboard space stations and maximize the scientific return of investment, while democratizing access to vast amounts of spaceflight related omics data generated fr…
View article: A microRNA signature and TGF-β1 response were identified as the key master regulators for spaceflight response
A microRNA signature and TGF-β1 response were identified as the key master regulators for spaceflight response Open
Translating fundamental biological discoveries from NASA Space Biology program into health risk from space flights has been an ongoing challenge. We propose to use NASA GeneLab database to gain new knowledge on potential systemic responses…
View article: NASA GeneLab Project: Bridging Space Radiation Omics with Ground Studies
NASA GeneLab Project: Bridging Space Radiation Omics with Ground Studies Open
Accurate assessment of risks of long-term space missions is critical for human space exploration. It is essential to have a detailed understanding of the biological effects on humans living and working in deep space. Ionizing radiation fro…
View article: FAIRness and Usability for Open-access Omics Data Systems.
FAIRness and Usability for Open-access Omics Data Systems. Open
Omics data sharing is crucial to the biological research community, and the last decade or two has seen a huge rise in collaborative analysis systems, databases, and knowledge bases for omics and other systems biology data. We assessed the…
View article: GeneLab: Multi‐Omics Investigation of Rodent Research‐1 Biobanked Tissues
GeneLab: Multi‐Omics Investigation of Rodent Research‐1 Biobanked Tissues Open
NASA's Rodent Research (RR) project is playing a critical role in advancing biomedical research on the physiological effects of space environments. Due to the limited resources for conducting biological experiments aboard the International…