Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
67
datasets available to search
ShareScore release 0.9.0
Dataset results
67 results for “life sciences”
Unlocking the power of computer modelling and simulation across the life sciences product lifecycle
<p><strong>Unlocking the Power of Computer Modelling and Simulation Across the Life Sciences Product Lifecycle</strong></p> <p>In an era where technology continuously reshapes the boundaries of research and development, the field of life sciences stands at the cusp of a transformative shift. The potent combination of computer modelling and simulation has begun to unlock unprecedented opportunities across the product lifecycle in life sciences, promising to revolutionize everything from medicinal product development to clinical research. Let's delve into how these technological advancements are paving the way for groundbreaking progress in medicine and healthcare.</p> <p><strong>The Fusion of Technology and Life Sciences</strong></p> <p><em>In Silico Methods: A New Frontier in Medicine</em></p> <p>The term 'in silico' refers to computer simulations used in the study of biological and chemical processes. The video highlights the growing importance of in silico methods in the life sciences sector, particularly in the United Kingdom. These methods allow for the virtual testing of new medicinal products, significantly reducing the need for costly and time-consuming physical trials.</p> <p><em>Bridging the Gap with Computational Modeling</em></p> <p>Computational modeling is another key aspect discussed in the presentation. It involves the use of computer algorithms and mathematical models to simulate real-world medical data. This approach enables researchers to predict how medicinal products will behave in various scenarios, including their interaction with different types of patient data. As a result, computational modeling is instrumental in enhancing the precision of clinical research and improving medical equitability by considering a broader range of patient profiles.</p> <p><strong>The Impact on Clinical Research and Patient Care</strong></p> <p><em>Enhancing Precision and Efficiency</em></p> <p>One of the most notable benefits of integrating computer modelling and simulation into the life sciences is the enhanced precision and efficiency it brings to clinical research. By leveraging real-world medical data, researchers can obtain more accurate predictions about the efficacy and safety of new medicinal products. This not only accelerates the development process but also ensures that treatments are more tailored to individual patient needs.</p> <p><em>Promoting Medical Equitability</em></p> <p>The video underscores the role of these technologies in promoting medical equitability. Through the use of patient data simulations, it becomes possible to account for a wider array of genetic, environmental, and lifestyle factors that influence health outcomes. This inclusive approach ensures that the benefits of medical advancements are accessible to a diverse population, addressing disparities in healthcare access and treatment efficacy.</p> <p><strong>Conclusion: The Future is Now</strong></p> <p>The integration of computer modelling and simulation in the life sciences heralds a new era of medical research and patient care. As we continue to explore the potential of these technologies, it's clear that they hold the key to unlocking more efficient, precise, and equitable healthcare solutions. The journey towards fully realizing this potential is just beginning, but the promise it holds is immense. As we stand on the brink of this technological revolution, one thing is certain: the future of medicine and healthcare is being shaped here and now, and it's brighter than ever.</p>
Practices and policies of preprint platforms for life and biomedical sciences
<p>Given the increase in the use and profile of preprint servers – and alternative publishing hybrid platforms such as F1000 Research – in the life sciences, it is increasingly important to identify how many such servers and hybrids exist, to describe their scope in terms of the scientific disciplines they cover, and to compare and contrast their characteristics and policies.</p> <p>We surveyed forty-four (44) platforms that host preprints relevant to life and biomedical sciences and that were active online and accepting submissions on 25 June 2019. Information on preprint platform policies, features and practices was collected through online research by the authors and by surveying preprint platform representatives directly. </p> <p>Full data sheets include an additional 5 platforms hosted on OSF Preprints (rows 49-53) to fulfil the wider scope for the ASAPbio project, not in disciplinary scope (biology and medical sciences) for the manuscript with Jamie Kirkham.</p> <p><strong>Tables 1-5: </strong>Data (44 platforms, manuscript) are separated into five main tables of information and a list of preprint platform websites for reference.</p> <p>Table 1: Scope and ownership of each server<br> Table 2: Content-specific characteristics and information relating to submission, journal transfer options, and external discoverability<br> Table 3: Screening, moderation, and permanence of content<br> Table 4: Usage metrics and other features<br> Table 5: Metadata<br> Preprint platform websites</p> <p>Data for each platform are listed as ‘Verified’ in the tables if these tables (V1.0 or V2.0) were seen and approved by a platform representative between January 13 and January 27, 2020.</p> <p><strong>Original online survey:</strong> a blank copy of the original survey form used by online researchers (the authors) and supplied pre-filled (or empty, in some cases) to preprint platform representatives for verification (or completion, in some cases). </p> <p><strong>Final data:</strong> survey data is presented in .txt and .xlsx, as follows:</p> <ul> <li>Row 1: Heading (where field is included in manuscript tables, the heading presented here replaces any heading used in original survey. All columns are presented in the order the information was requested on the original survey form, with some supplementary columns added and columns removed (detailed below).</li> <li>Row 2: Schema or description of field</li> <li>Row 3: Whether and where included in manuscript tables. For supporting information for table data (e.g. source information, URLs), the table location for supported data is indicated in brackets, e.g. (Table 2) and supporting information is not included in tables. Data included in manuscript tables is presented in its final form, which in some cases is simplified from the original survey data. This simplified version of the data was presented to platform representatives for additional verification (v1.0/v2.0 verification). Data not included in manuscript tables is presented here as verified by platform representatives and/or found online. Some columns from the original survey have been removed due to the information not being informative or useful: specifically, Print ISSN (not reported for any platform); End date (no platforms have an end date; although two platforms stopped accepting submissions after survey completed; Personal contact information for platform representative(s) has been removed).</li> <li>Rows 4 onwards: data for each preprint platform (44 included in manuscript (rows 4-47), plus 5 additional OSF platforms (rows 48-52)</li> <li>Columns 3-6 (D-G) report online research and verification information and Column 13 (M) reports an additional data field (number of articles) – these are supplementary to the original survey columns</li> <li>Verification status: Released V1/V2 data applies to data included in manuscript tables (as indicated in row 3); Online survey data applies to data used for manuscript tables and also to original survey data included here but not included in manuscript tables (‘Not included’ in row 3)</li> <li>Note that data fields are presented as individual columns in these sheets, while some entries in Tables 1-5 combine several data fields.</li> </ul> <p>These data were collected in collaboration and as part of:<br> i. An ASAPbio project, led by Dr Naomi Penfold, to develop an online directory of preprint platforms<br> ii. A research project led by Prof Jamie Kirkham<br> These data are supplementary outputs for both projects.</p> <p>Data v1.0 were presented during the ASAPbio January 2020 workshop – see Penfold, Naomi C, & Polka, Jessica. (2020, January). ASAPbio Preprint Platform Directory: 2019 data (presentation) (Version 1.0). Zenodo. http://doi.org/10.5281/zenodo.3626770.<br> <br> <strong>Version 3.0 updates (December 14, 2020): added new files with updated information about servers from the ASAPbio preprint directory (https://asapbio.org/preprint-servers), provided by Jessica Polka (now included as author).</strong></p>
Identification at local and global scale: a case for using the Compact URI (CURIE) for life science data
<p>Panel A) A Local Resource Identifier (LRI) is not suited to global scale identification because of inevitable collisions: “9606” corresponds to a Pubmed article, a CGNC gene, a PubChem chemical, as well as an NCBI taxon (<em>Homo sapiens</em>), a BOLD taxon (<em>Bombycilla</em> <em>cedrorum</em>), and a GRIN taxon (<em>Catha</em> <em>edulis</em>)</p> <p>Panel B) Prefixing is often used to indicate the source of an LRI, but prefixes themselves are often undocumented and collide.</p> <p>Panel C) Prefixes may exist in alternate forms. When all of the alternates are not known, collapsing equivalent identifiers is tedious and incomplete.</p> <p>Panel D) CURIE syntax addresses these issues by having a prefix whose relationship with a resolving namespace is clearly documented.</p>
Supporting Material for article "The ELIXIR Core Data Resources: fundamental infrastructure for the life sciences"
<p>This data set is the Supporting Material referred to in the Supplementary Data for the article "The ELIXIR Core Data Resources: fundamental infrastructure for the life sciences" (Drysdale, et al.) submitted for publication in April 2019.</p> <p> </p>
Survey on the social impact of the citizen science in the projects LIFE MIPP and InNat
<p>The present dataset consists in a sociological survey addressed to the volunteers involved in MIPP and InNat projects, a citizen science initiative aimed at the collection of distribution data of protected species and habitats all over Italian national territory. In particular, two different files are provided: </p> <ol> <li>the original survey (questions and answers) addressed to the volunteers in Italian</li> <li>the English translation of the questionnaire </li> </ol> <p>The survey covers different topics: socio-demographic data (section 1), opinions on the role of volunteering in a citizen science project (section 2), possible previous citizen science experience (section 3), test on the acquired skills on the monitored insect species with MIPP/InNat (section 4), opinions concerning the ecological crisis and the trust in the ability of humankind to solve environmental issues (section 5), possibility to be further contacted for additional interviews (section 6).</p> <p>A total of 364 completed questionnaires have been collected and relative results are provided here. Moreover, the above-mentioned results are thoroughly investigated and analysed in a scientific paper which also explores drivers that might keep volunteers active in a biodiversity monitoring project. Indeed, the engagement of volunteers in citizen science projects is a remarkable issue to address in order to ensure long-term sustainability, scientific relevance and public participation.</p> <p>The MIPP/InNat initiative started in 2012, with the project MIPP “Monitoring of insects with public participation” (LIFE11 NAT/IT/000252) which ended in 2017, and was then continued by the InNat project thanks to Italian National fundings. Data gathered in both projects converged in the same database. This research was supported by the National Recovery and Resilience Plan (NRRP), Mission 4 Component 2 Investment 1.4 - Call for tender No. 3138 of 16 December 2021, rectified by Decree n.3175 of 18 December 2021 of Italian Ministry of University and Research funded by the European Union – 1034 of 17 June 2022 adopted by the Italian Ministry of University and Research, CUP B83D21014060006, Project title “National Biodiversity Future Center” – NBFC.</p>
PhasAGE Training School 1 -Overview of bioinformatics tools for the life sciences & Classification and evolution of non-globular proteins- LECTUREs
<p>The Training School 1 <strong>“Computational Methods to Study Protein Phase Separation”</strong> is the first edition of a series of PhasAGE training activities.</p> <p>The goal of this course is to provide participants with the basic knowledge to understand the phenomenon of <strong>Phase Separation</strong>, its role in biological processes and diseases. In addition, the course will provide <strong>an overview of the available computational resources</strong> to navigate this knowledge. Participants will have <strong>hands-on training</strong> in tools and resources available for life sciences, to collect information from the literature on biomolecular phase transitions, identify features triggering phase transitions, mutations associated with diseases, known or predicted PTMs and molecular interaction sites.</p>
Dataset: Whole blood count, used in: "AIDeveloper: deep learning image classification in life science and beyond"
<p>Real-time deformability cytometry (RT-DC) data of whole blood measurements.<br> Data was used to train and validate a neural net to perform a blood count based on brightfield images of RT-DC.</p> <p>01_Model: Contains the final model as well as an AIDeveloper meta-file that allows to reproduce the training procedure. The metafile preciesely defines which dataset was used for training and which for validation as well as all parameters that were set in AIDeveloper.</p> <p>The following folders contain data that was used for training (and validation):</p> <ul> <li>Cambr</li> <li>KIK</li> <li>20190306_DextranBlood_AI_DataSet</li> <li>Gs_Blood_Train</li> </ul> <p>Testing data is stored on figshare:<br> https://figshare.com/articles/Krater_et_al_2020_Data_zip/9902636</p>
Supporting material for "Impact of gender on the formation and outcome of formal mentoring relationships in the life sciences"
<p>This repository contains data and analysis code associated with the manuscript: L.P. Schwartz, J. Liénard, S. V. David. (2022) "Impact of gender on formation and outcome of formal mentoring relationships in the life sciences." Figures and tables in the manuscript can be produced by running the make_figures.ipynb notebook. Figures have been marked with headings indicating their position in the manuscript (Figure 1, Figure S1, etc.). In addition, the notebook contains code to reproduce regression analyses that are cited in the text but not directly associated with a figure.</p> <p>Data on mentoring relationships derives from Academic Family Tree (AFT, www.academictree.org) and public data sources on funding, publications, and awards. Inclusion criteria, public data sources, and procedures for linking across sources are described in the manuscript. Personal identifiers for researchers have been anonymized, but remain consistent across all data in the repository. In other words, the personal identifier "1" refers to the same person in all dataframes in the repository. But, that person is *not* the same researcher identified as "1" on the public AFT website.</p> <p><strong>Installation</strong></p> <p>Requires Python 3.x. and Pandas. To load required libraries using Anaconda, run:</p> <p>`conda create --name aft -c conda-forge pandas numpy scipy ipython jupyterlab scipy scikit-learn pandas matplotlib numpy statsmodels seaborn pytables`</p> <p><strong>Dataframes</strong></p> <p>Data is stored as a series of Pandas dataframes within HDF5 or CSV files:</p> <p>* cng_tc: The primary dataset used in the analysis. The name is an acronym for "connections" (i.e. training relationships, "cn"), "gender" ("g"), and "trainee count" ("tc"). Each row contains data on the mentor and trainee in one training relationship. See manuscript for inclusion criteria.</p> <p>* mentors: Data on mentors. Each row contains data on one mentor. See manunscript for inclusion criteria.</p> <p>* mentors_grants, mentors_hindex, mentors_locs_ranked: Subset of mentors with data available for funding (mentors_grants), citation (mentors_hindex), and institution rank (mentors_locs_ranked).</p> <p>* mentors_nobel, mentors_hhmi, mentors_nas: Subsets of mentors that received a Nobel (mentors_nobel), Howard Hughes Medical Institute grants (mentors_hhmi), or membership in the National Academy of Sciences (mentors_nas). See manuscript for details of data sources and linking procedures.</p> <p>* cn, cng, first_names, gn, gn_all, locs: Partial data (connections only, inferred gender only, connections and gender only, location only, first names and inferred gender only) for more inclusive sets of researchers in AFT. They are generally not used used for analysis, but have been included here to calculate statistics on the total amount of data included and to screen for data from U.S. locations.</p> <p>* nsf_gender_phds, nsf_gender_pds: National Science Foundation survey data on gender and fraction PhDs conferred per year (nsf_gender_phds) or fraction postdocs employed per year (nsf_gender_pds). See manuscript for details of data source.</p> <p>* photo: Data for validation of gender inference method.</p> <p><strong>Dataframe columns</strong></p> <p>* amount: Mentor's total funding<br> * amount_adj: Mentor's total funding (adjusted to 2020 dollars)<br> * broad_field: Mentor's general research area (e.g., life sciences, engineering, based on National Science Foundation classifications)<br> * continue: Whether trainee went on to become a mentor (i.e., has trainees listed in AFT)<br> * country: Country in which mentor's current institution is located<br> * firstname: First name of researcher (table of first names is not aligned with tables containing anonymized personal identifiers)<br> * first_grant_year: Year of mentor's first grant<br> * funding_rate: Mentor's annual funding rate (since first grant)<br> * funding_rate_adj: Mentor's annual funding rate (since first grant) adjusted to 2020 dollars<br> * hhmi: Whether mentor was granted HHMI funding<br> * hindex: Mentor's hindex<br> * location: Name of mentor's current institution<br> * locid: Identifier for mentor's institution<br> * locid_rank: Postion of mentor's institution in 2015 Quacquarelli-Symonds rankings (lower numbers are better)<br> * locid_rank_rev: Reversed version of "locid_rank" (i.e., higher numbers are better)<br> * majorarea: Mentor's specific research area (e.g, neuroscience)<br> * male_mentor, male trainee: Whether the probability that a researcher's first name is used by a person identifying as a man meets threshold (see manuscript for details on gender inference using first names)<br> * match_score: Score for string match between institution or name of awardee and researcher<br> * mentor_career_start: The date at which the mentor's academic career began<br> * mentor_continue_rate: Fraction of mentor's trainees that become mentors<br> * mentor_continue_rate_ft: Fraction of mentor's woman trainees that become mentors<br> * mentor_continue_rate_mt: Fraction of mentor's man trainees that become mentors<br> * mentor_t_p_male0: Fraction of mentor's trainees that are men<br> * mentor_t_p_male0_gs: Fraction of mentor's trainees that are men (graduate students only)<br> * mentor_t_p_male0_pd: Fraction of mentor's trainees that are men (postdocs only)<br> * mentor_tcount0: Mentor's total number of trainees<br> * nas: Whether mentor is a member of the National Academy of Sciences<br> * nobel: Whether mentor is a Nobel laureate<br> * p_male_mentor, p_male_trainee: Probability that a researcher's first name is used by a person identifying as a man<br> * pid: Anonymized identifier of researcher<br> * pid_mentor: Anonymized identifier of mentor in training relationship<br> * pid_trainee: Anonymized identifier of trainee in training relationship<br> * pq: "1" if data on training relationship is drawn from ProQuest database and has not been manually edited a human AFT user<br> * relation: Type of training relationship (1: graduate student, 2: postdoc)<br> * scorer1, scorer2, scorer3: Results of photo validation of gender inference for each scorer<br> * start: Training start year<br> * stop: Training end year<br> * trainee_tcount: Total people that the trainee has trained<br> * triad: Whether trainee has participated in both a graduate-level and postdoctoral training relationship</p> <p>The cn dataframe follows slightly different naming conventions, but is not generally used in the analysis (pid1 = pid_trainee, pid2 = pid_mentor, startdate = start, stopdate = stop).</p>
Dataset: Achieve Life Sciences, Inc. (ACHV) Stock Performance
This dataset provides historical stock market performance data for specific companies. It enables users to analyze and understand the past trends and fluctuations in stock prices over time. This information can be utilized for various purposes such as investment analysis, financial research, and market trend forecasting.
Dataset: Bellevue Life Sciences Acquisition Corp. (BLACW) Stock Performance
This dataset provides historical stock market performance data for specific companies. It enables users to analyze and understand the past trends and fluctuations in stock prices over time. This information can be utilized for various purposes such as investment analysis, financial research, and market trend forecasting.
Dataset: Bellevue Life Sciences Acquisition Corp. (BLACR) Stock Performance
This dataset provides historical stock market performance data for specific companies. It enables users to analyze and understand the past trends and fluctuations in stock prices over time. This information can be utilized for various purposes such as investment analysis, financial research, and market trend forecasting.
Dataset: Bellevue Life Sciences Acquisition Corp. (BLAC) Stock Performance
This dataset provides historical stock market performance data for specific companies. It enables users to analyze and understand the past trends and fluctuations in stock prices over time. This information can be utilized for various purposes such as investment analysis, financial research, and market trend forecasting.
Dataset: Bellevue Life Sciences Acquisition Corp. (BLACU) Stock Performance
This dataset provides historical stock market performance data for specific companies. It enables users to analyze and understand the past trends and fluctuations in stock prices over time. This information can be utilized for various purposes such as investment analysis, financial research, and market trend forecasting.
Dataset: 180 Life Sciences Corp. (ATNF) Stock Performance
This dataset provides historical stock market performance data for specific companies. It enables users to analyze and understand the past trends and fluctuations in stock prices over time. This information can be utilized for various purposes such as investment analysis, financial research, and market trend forecasting.
Dataset: 180 Life Sciences Corp. (ATNFW) Stock Performance
This dataset provides historical stock market performance data for specific companies. It enables users to analyze and understand the past trends and fluctuations in stock prices over time. This information can be utilized for various purposes such as investment analysis, financial research, and market trend forecasting.
Dataset: Atai Life Sciences N.V. (ATAI) Stock Performance
This dataset provides historical stock market performance data for specific companies. It enables users to analyze and understand the past trends and fluctuations in stock prices over time. This information can be utilized for various purposes such as investment analysis, financial research, and market trend forecasting.
Dataset: Achieve Life Sciences, Inc. (ACHV) Stock Performance
This dataset provides historical stock market performance data for specific companies. It enables users to analyze and understand the past trends and fluctuations in stock prices over time. This information can be utilized for various purposes such as investment analysis, financial research, and market trend forecasting.
Dataset: Wave Life Sciences Ltd. (WVE) Stock Performance
This dataset provides historical stock market performance data for specific companies. It enables users to analyze and understand the past trends and fluctuations in stock prices over time. This information can be utilized for various purposes such as investment analysis, financial research, and market trend forecasting.
Dataset: TriSalus Life Sciences, Inc. (TLSIW) Stock Performance
This dataset provides historical stock market performance data for specific companies. It enables users to analyze and understand the past trends and fluctuations in stock prices over time. This information can be utilized for various purposes such as investment analysis, financial research, and market trend forecasting.
Dataset: Tiziana Life Sciences Ltd (TLSA) Stock Performance
This dataset provides historical stock market performance data for specific companies. It enables users to analyze and understand the past trends and fluctuations in stock prices over time. This information can be utilized for various purposes such as investment analysis, financial research, and market trend forecasting.
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.