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dkNET community events and announcements in November, 2023

  • 06:07pm November 2, 2023
  • Ko-Wei Lin

Dear dkNET Community,

dkNET provides updates on activities of interest to the NIDDK-supported community. You could keep up to date on these activities through our Twitter feed @dkNET_info, through our Community Calendar, or through dkNET e-mail list. If you have an event or funding opportunities you'd like to advertise, please contact us info_at_dknet.org.


    dkNET News


    • Recording and Slides are Available: (1) dkNET Office Hours for Data Management and Sharing Mandate on Sep. 22, 2023: Recording; Slides (2) The National Sleep Research Resource (NSRR) - Opportunities for Large-Scale Sleep and Circadian Data to Promote Understanding of Metabolic Diseases, presented by Dr. Susan Redline, Harvard T.H. Chan School of Public Health on October 27, 2023: Recording: Slides.



    • New Resources Added to dkNET
      • Playbook Workflow Builder (RRID:SCR_024540) is a web-based platform that facilitates knowledge resolution by enabling users to traverse the growing network of input datasets, semantically annotated API endpoints, and data visualization tools contributed by the ecosystem. It is via a user-friendly web-based user interface, workflows can be constructed from these building blocks without technical expertise.

      • BioThings API (RRID:SCR_024539) is a FAIR API ecosystem for inter-connected biomedical knowledge. It provides three components in its API development ecosystem: the family of high-performance APIs for accessing up-to-date annotations for genes, genetic variants, chemicals, and drugs. It provides BioThings API packages its API-development best practice into a reusable Software Development Kit to help other bioinformaticians build the same high-quality API to distribute their own specific knowledge. BioThings API provides a platform to foster findability and interoperability across community-developed biomedical APIs. It provides tools for authoring API metadata following community-supported OpenAPI standards and hosts standardized interactive API documentation. It defines a set of OpenAPI extensions to provide biomedical-specific semantic annotations.

      • miRNet (RRID:SCR_024567) is a web-based tool that offers statistical, visual, and network-based approaches to understanding miRNAs functions and regulatory mechanisms. It is used for dissecting miRNA-target interactions and functional associations through network-based visual analysis. miRNet 2.0 is network-based visual analytics for miRNA functional analysis and systems biology.

      • CARGO (RRID:SCR_024474) is a web browser for the analysis of proteomic data. ShinyApp interface generated in R and RStudio.

      • Biocode Commons (RRID:SCR_024553) is a platform that provides resources for genomic observations from collection to analysis and publication. Works with the standards community to ensure clear vocabularies and useful ontologies for biological resources and related assets. Biocode Commons is also collaborating on the development of Biological Collections Ontology, working to better integrate ontologies, vocabularies, and relevant standards that are related to BCO.

      • Luna (RRID:SCR_024541) is a software package for the analysis of sleep signal data. It contains open-source C/C++ software for manipulating and analyzing polysomnographic recordings, with a focus on sleep EEG.

      • Moonlight (RRID:SCR_024542) is a Luna-based interactive viewer for EDF signal and annotations, specifically designed for polysomnographic data. It supports visualization, analyses, and manipulation of sleep signals, a range of summary statistics, and hypnogram-based analyses including automated staging.

    Events in November 2023

    Nov. 02-05, 2023

    Kidney Week 2023 ASN Annual Meeting

    Join ASN and approximately 12,000 other kidney professionals from across the globe at Kidney Week 2023 in Philadelphia, PA. The world's premier nephrology meeting, Kidney Week provides participants exciting and challenging opportunities to exchange knowledge, learn the latest scientific and medical advances, and listen to engaging and provocative discussions with leading experts in the field.

    Location:  Philadelphia, PA, USA

    More information: https://www.asn-online.org/educatio n/kidneyweek/



    Nov. 11-15, 2023

    Neuroscience 2023

    Neuroscience 2023 will be held at the Walter E. Washington Convention Center in Washington, D.C., November 11-15, 2023.

    Each year, scientists from around the world congregate to discover new ideas, share their research, and experience the best the field has to offer. Attend so you can: present research, network with scientists, attend session and events, and browse the exhibit hall.

    Join the nearly half a million neuroscientists from around the world who have propelled their careers by presenting an abstract at an SfN annual meeting — the premier global neuroscience event. 

    Location: Washington, DC, USA

    More information: https://www.sfn.org/meetings/neuroscience-2023


    Nov.14, 2023

    Open Office Hour Discussing MoTrPAC Data

    Attention all researchers, academics, and data enthusiasts! Are you eager to delve into the Molecular Transducers of Physical Activity (MoTrPAC) research data, featuring a detailed map of the molecular changes that occur in response to exercise? Then mark your calendars for our upcoming Open Office Hour! This Q&A session is designed to be an interactive session to explore the MoTrPAC study data and exchange valuable insights. Whether you're already familiar with our data or just getting started, this event is an excellent opportunity to get your questions answered and learn about navigating through our complex data sets. Our panel of experts will be present to facilitate the conversation and address your specific challenges. This event is open to everyone with an interest in our unique multi-omic, multi-tissue data describing the molecular changes that occur with physical activity, with the goal of generating insights towards improving and preserving health at the molecular level.



    Nov. 15, 2023

    ScHARe Think-a-Thon webinar series: Preparing for AI-Driven Research 2: An Introduction to FAIR Data and AI-Ready Datasets

    The NIDDK Central Repository will be collaborating with the Science Collaborative for Health disparities and Artificial intelligence bias REduction (ScHARe) to host a webinar/think-a-thon on November 15, 2023, at 2PM (EST). The webinar will walk participants through the data challenge datasets and show them how to prepare datasets for AI analyses and how to address bias in datasets to drive meaningful insights. Registration for this webinar will be open until the day of the event. We are encouraging data challenge participants to register for the webinar. 



    Nov. 16, 2023

    Vivli Meeting: Shaping the next 10 years in data sharing

    Join Vivli at the National Academy of Medicine in Washington, DC (and virtually) on November 16, 2023 in Washington, D.C. for a strategic meeting to collectively reflect on the seminal 2015 IOM report Sharing Clinical Trial Data: Maximizing Benefits, Minimizing Risk to see how far we have come and chart a course to meet the challenges and opportunities that lie ahead.

    Location:  Washington, DC, USA

    More information: 
    https://vivli.org/event-shaping-the-next-10-years-in-data-sharing-b uilding-on-the-gains-made-and-looking-ahead-to-the-next-10-years-in-advanci ng-human-health/



    Nov. 17, 2023

    dkNET Webinar: Generation Of A Cellular Atlas Of Adipose Tissue In Mouse And Man

    Join dkNET Webinar on Friday, November 17, 2023, 11 am - 12 pm PT

    Abstract: White adipose tissue, once regarded as morphologically and functionally bland, is now recognized to be dynamic, plastic and heterogenous, and is involved in a wide array of biological processes including energy homeostasis, glucose and lipid handling, blood pressure control and host defense. High-fat feeding and other metabolic stressors cause marked changes in adipose morphology, physiology and cellular composition, and alterations in adiposity are associated with insulin resistance, dyslipidemia and type 2 diabetes. Here we provide detailed cellular atlases of human and mouse subcutaneous and visceral white fat at single-cell resolution across a range of body weight. We identify subpopulations of adipocytes, adipose stem and progenitor cells, vascular and immune cells and demonstrate commonalities and differences across species and dietary conditions. We link specific cell types to increased risk of metabolic disease and provide an initial blueprint for a comprehensive set of interactions between individual cell types in the adipose niche in leanness and obesity. These data comprise an extensive resource for the exploration of genes, traits and cell types in the function of white adipose tissue across species, depots and nutritional conditions. The top 3 key questions that this resource can answer:1. How specific is my gene of interest to a particular cell type in adipose tissue? 2. Is the gene/pathway that I am studying in mouse adipose tissue also present in human adipose tissue (and is it regulated similarly in low vs high body weight)?3. What are the changes in gene expression in a specific cell type at low vs high body weight?

    Presenter: Margo Emont, PhD. Instructor, Beth Israel Deaconess Medical Center

    Dial-in Information: https://uchealth.zoom.us/meeting/register/tZIvduGvpjstGdQhMFKNAbQVPgSCa-q7SY2n




    Nov. 28-29, 2023

    NIDDK Workshop: Pharmacotherapy for Obesity in Children and Adolesc ents: State of the Science, Research Gaps and Opportunities

    The overarching goal of the workshop will be to identify gaps and opportunities to guide research and speed progress in the safe, effective, and equitable use of pharmacotherapy for obesity in children and adolescents. This workshop will convene leading scientific and clinical experts with expertise in obesity pathophysiology, clinical trials of pharmacotherapy, clinical use of medication to treat obesity, precision medicine, implementation science, health equity and disparities, and health economics to discuss the use of pharmacotherapy in children, systemic and individual barriers to treatment, effects on physical and mental health, quality of life and eating behaviors, and cost-effectiveness of therapy. At the end of the workshop, participants will identify gaps and opportunities for future research to guide.

    Location:  Bethesda, MD, USA

    More information: https://www.niddk.nih.gov/news/meetings-workshops/2023/pharmac otherapy-for-obesity-in-children-and-adolescents



    Nov. 29-Dec. 01, 2023

    Annual Cairibu Meeting: Collaborating for the Advancement of Interd isciplinary Research in Benign Urology

    The purpose of the annual CAIRIBU meeting is to bring together the Directors and research teams of the NIDDK U54 Urology O’Brien Centers, the FORWARD P20 Centers for Interdisciplinary Research in Benign Urology, and the Multidisciplinary K12 Urologic Research (KURe) and Urological Epidemiology (KEpi) Institutional Research Career Development Programs. Meeting Objective: (1) Sharing of research resources.(2) Advancing students and early investigators in their development as future leaders in the field of benign urology. (3) Interactive poster sessions during the meeting will feature the work of trainees and early-stage investigators whose abstracts are selected for presentation. Abstract submission deadline: October 20, 2023.

    Location: Kansas City, MO, USA

    More information: https://www.niddk.nih.gov/news/meetings-workshops/2023/annual-cairibu-meeting


    Nov. 30, 2023 [Extended deadline]

    Registration deadline: NIDDK's Data-Centric Challenge

    NIDDK is seeking innovative approaches to enhance the utility of NIDDK datasets for AI applications. Towards this, the goals of the NIDDK-CR Data Centric Challenge will be to 1) generate an “AI-ready” dataset that can be used for future data challenges, and 2) to produce methods that can be used to enhance the AI-readiness of NIDDK data. Participants will enhance data from the following longitudinal studies focused on Type 1 Diabetes (T1D). Participation in this challenge will be tiered based on the challenge applicants’ self-described experience with data science and analytics (i.e., beginner, intermediate, or advanced). Participants will be instructed to 1) prepare a single dataset by aggregating all data files associated with one or more longitudinal studies on T1D listed above, and 2) augment the single dataset to ensure AI-readiness. Registration deadline: November 30, 2023.

    More information: https://dknet.org/about/dknetnews/2667



    Funding Opportunities Information and Deadlines in November 2023

    Nov. 06, 2023

    NIH Funding Opportunity Letter of Intent Due: Human Islet Research Network - Consortium on Modeling Autoimmune Diabetes (HIRN-CMAD) (UG3/UH3 C linical Trial Not Allowed)

    This Notice of Funding Opportunity (NOFO) welcomes applications for the Consortium on Modeling Autoimmune Diabetes (CMAD) that supports the development of in vitro and in vivo models of type 1 diabetes (T1D) to enable studies of human T1D pathophysiology and to serve as platforms for preclinical assessments of new T1D interventions. CMAD is part of the Human Islet Research Network (HIRN). Application Due Date: March 20, 2024.

    More information: https://dknet.org/about/dknetnews/2673



    Nov. 15, 2023

    NIDDK Funding Opportunity Application Due: A Consortium for Gut-Bra in Communication in Parkinson’s Disease (U24 Clinical Trial not allowed)

    The purpose of this Notice of Funding Opportunity (NOFO) is to establish a Coordinating and Data Management Center (CDMC) that will coordinate and manage the activities of the Gastroenterology Neurology Research Centers (GNRCs), as described in the companion NOFO, RFA-DK-22-036, as part of the Gut Brain Parkinson's Disease Consortium (GBPDC).  The responsibilities of the CDMC include, but are not limited to: (1) development of study protocols and coordination of enrollment of subjects into the study; (2) management of consortium-wide meetings and conferences, and cross-consortium collaborative activities; (3) provision of statistical and computational analysis support; and (4) establishing a central data hub for data capture, curation and management, and protocol development and registration. The CDMC will manage GBPDC-wide reporting and data and specimen sharing requirements, to include coordination of distribution of blood, biopsies, and other biological samples to the GNRCs.  The CDMC will also manage the operations of the GBPDC Steering Committee and other operational committees and provide the infrastructure for the efficient design and conduct of multicenter studies and establish a repository of participant samples that may be used for ancillary studies of etiology and pathogenesis.  NIDDK encourages applications from institutions that foster a diverse research environment, (for more information, see, e.g., NOT-OD-20-031), and encourages Research on Sex/Gender Differences, Sexual and Gender Minority-Related Research and Race/Ethnic Diversity (see NOT-DK-22-003).

    More information: https://grants.nih.gov/gr ants/guide/rfa-files/rfa-dk-23-001.html



    Nov. 15, 2023

    NIDDK Funding Opportunity Application Due: A Consortium for Gut-Bra in Communication in Parkinson’s Disease (U01 Clinical Trial Not Allowed)

    This Notice of Funding Opportunity (NOFO) invites new applications to participate in the Gut-Brain Communication in Parkinson’s Disease (PD) Consortium (GBPDC). The GBPDC will consist of up to six Gastroenterology Neurology Research Centers (GNRC) and one Coordinating and Data Management Center (CDMC).  The CDMC is fully described in the companion NOFO, RFA-DK-23-001.  The GNRC will serve as sites for enrollment of PD patients with and without GI symptoms as well as those with identifiable risk factors for PD, and healthy age-matched controls.  Biological samples obtained from these participants will be used for laboratory-based studies. The overall objectives of this consortium are 1) to accelerate research on the role of gastrointestinal (GI) symptoms and changes in gut-brain communication in the initiation and pathogenesis of Parkinson’s disease; and 2) to facilitate development and validation of innovative early-phase gut-brain based diagnostic tools and biomarkers for PD.  The activities of the GBPDC will include, but are not limited to,:1) harmonize participant recruitment and use of standardized protocols to collect data and biospecimens relevant to both neurology and gastroenterology research; 2) share data, biosamples, models, reagents, resources, and methods among projects in the GBPDC; and 3) make these publicly available through the CDMC.  NIDDK encourages applications from institutions that foster a diverse research environment,  (f or more information, see, e.g., NOT-OD-20-031) , and encourage  Research on Sex/Gender Differences, Sexual and Gender Minority-Related Research and Race/Ethnic Diversity (see NOT-DK-22-003). 

    More information: https://grants.nih.gov/grants/guide/rfa-fi les/rfa-dk-22-036.html

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    The NIDDK Information Network (dkNET) serves the needs of basic and clinical investigators by providing seamless access to large pools of data and research resources relevant to the mission of The National Institute of Diabetes Digestive and Kidney Diseases (NIDDK). dkNET is hosted at University of California San Diego, and is supported by NIH NIDDK grant 2U24DK097771-09.

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