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https://www.niaid.nih.gov/diseases-conditions/coronaviruses

Information about coronaviruses, including COVID-19. NIAID provides research funding and resources for scientific community to facilitate development of vaccines, therapeutics, and diagnostics for infectious diseases, including those caused by coronaviruses.

Proper citation: NIAID Overview of Coronaviruses (RRID:SCR_018290) Copy   

•   Source: SciCrunch Registry

http://hub.docker.com/r/marchalc/hicres/

Software pipeline to estimate and predict genomic resolution of Hi-C libraries. Used for estimating and predicting HiC library resolution.

Proper citation: HiCRes (RRID:SCR_022319) Copy   

•   Source: SciCrunch Registry

https://jump-cellpainting.broadinstitute.org

Consortium is creating new data driven approach to drug discovery based on cellular imaging, image analysis, and high dimensional data analytics. Creates public data set to validate and scale up this image based drug discovery strategy. By coordinating assay procedures across partners, future created data will be well matched. Aims to make cell images as computable as genomes and transcriptomes.

Proper citation: JUMP Cell Painting Consortium (RRID:SCR_021868) Copy   

•   Source: SciCrunch Registry

https://www.nationalacademies.org/news/2020/03/standing-committee-on-emerging-infectious-diseases-provides-rapid-response-to-government-on-key-coronavirus-questions

Committee provides expert consultation on data elements and systems design for modeling and decision making for COVID-19 pandemic. Assembled at request of White House Office of Science and Technology Policy and Office of Assistant Secretary for Preparedness and Response in response to COVID-19 outbreak. Provides expert consultations on several topics, such as surface stability and incubation, social distancing, and crisis standards of care.

Proper citation: NASEM Standing Committee on Emerging Infectious Diseases and 21st Century Health Threats (RRID:SCR_018289) Copy   

•   Source: SciCrunch Registry

http://ireceptor.irmacs.sfu.ca/

Data discovery platform that facilitates curation, analysis and sharing of antibody/B-cell and T-cell receptor repertoires from multiple labs and institutions. Used to increase value of data through sharing with community. Platform for querying and analyzing antibody/B-cell and T-cell receptor repertoire data across federated repositories.

Proper citation: iReceptor (RRID:SCR_022294) Copy   

•   Source: SciCrunch Registry

https://www.lens.org

Portal to search, analyze and manage patent and scholarly data. Serves global patent and scholarly knowledge as public good to inform science and technology enabled problem solving.

Proper citation: Lens (RRID:SCR_022293) Copy   

•   Source: SciCrunch Registry

https://github.com/lufuhao/Gsnap2Augustus

Software tool to generate hints for Augustus in ab initio gene prediction using 2 step mapping by Gsnap.

Proper citation: Gsnap2Augustus (RRID:SCR_017555) Copy   

•   Source: SciCrunch Registry

https://cytotrace.stanford.edu/

Software tool that predicts differentiation state of cells from single cell RNA sequencing data. Used for predicting differentiation states from scRNA-seq data.

Proper citation: CytoTRACE (RRID:SCR_022828) Copy   

•   Source: SciCrunch Registry

https://www.vosesoftware.com/products/modelrisk/

Monte Carlo simulation software that makes quantitative risk analysis intuitive. Monte Carlo simulation Excel add-in that allows user to include uncertainty in their spreadsheet models.

Proper citation: ModelRisk (RRID:SCR_022836) Copy   

•   Source: SciCrunch Registry

https://www.palisade.com/risk/

Software is add-in tool for Microsoft Excel that computes and tracks many different possible scenarios in model using Monte Carlo simulation.Helps make better decisions through risk modeling and analysis.

Proper citation: atRISK (RRID:SCR_022837) Copy   

•   Source: SciCrunch Registry

https://huttenhower.sph.harvard.edu/picrust/

Software for predicting functional abundances based only on marker gene sequences.Used for prediction of metagenome functions. Contains updated and larger database of gene families and reference genomes, provides interoperability with any operational taxonomic unit (OTU)-picking or denoising algorithm, and enables phenotype predictions. Allows addition of custom reference databases.

Proper citation: PICRUSt2 (RRID:SCR_022647) Copy   

•   Source: SciCrunch Registry

https://commons.cri.uchicago.edu/pcdc/

PCDC brings together clinical, genomic, and imaging data from institutions around the world to transform pediatric cancer research and outcomes. Headquartered at University of Chicago, PCDC works with international leaders in pediatric cancers and National Cancer Institute to develop and apply uniform data standards that facilitate collection, combination, and analysis of data from many different sources. PCDC Consortium developes common core data dictionary and common governance structure spanning pediatric cancers neuroblastoma, soft tissue sarcoma, acute myeloid leukemia, acute lymphoblastic leukemia, germ cell tumors, bone tumors, and Hodgkin lymphoma to enable innovative cross disease research as well as set standard for future cancer data commons endeavors.

Proper citation: Pediatric Cancer Data Commons (RRID:SCR_022369) Copy   

•   Source: SciCrunch Registry

https://open-brain-consent.readthedocs.io/en/stable/

Platform for informing research participants and obtaining consent to share brain imaging data. Provides suggested wording/templates for MRI studies human participant consent forms (including GDPR version), reference of tools for data anonymization, etc to make prospective data sharing possible.

Proper citation: Open Brain Consent (RRID:SCR_022972) Copy   

•   Source: SciCrunch Registry

https://labsyspharm.github.io/jekyll-tutorial/

Website tutorial for creating Jekyll-based scientific website, including editing in GitHub, working locally with Jekyll and applying Jekyll and Markdown formatting basics, and using custom themes.

Proper citation: Jekyll Tutorial (RRID:SCR_022859) Copy   

•   Source: SciCrunch Registry

https://www.distillersr.com/products/distillersr-systematic-review-software

Literature review software by DistillerSR Inc. Automates management of literature collection, screening, and assessment using AI and intelligent workflows. From systematic literature review to rapid review to living review, makes any project simpler to manage and configure to produce transparent, audit-ready, and compliant results.

Proper citation: DistillerSR (RRID:SCR_023078) Copy   

•   Source: SciCrunch Registry

http://naturalscenesdataset.org/

Portal for large scale fMRI dataset conducted at ultra high field strength at Center of Magnetic Resonance Research at University of Minnesota. Dataset consists of whole brain, high resolution fMRI measurements of healthy adult subjects while they viewed thousands of color natural scenes over course of scan sessions. While viewing these images, subjects were engaged in continuous recognition task in which they reported whether they had seen each given image at any point in experiment. These data constitute massive benchmark dataset for computational models of visual representation and cognition, and can support wide range of scientific inquiry.

Proper citation: Natural Scenes Dataset (RRID:SCR_023648) Copy   

•   Source: SciCrunch Registry

https://www.gaain.org/

Open access integrated research platform, which links scientists, shared data, and analysis tools to accelerate Alzheimer’s disease research, disease preventions, treatments and cure. Unites diverse and geographically distributed network of data partners to foster cohort discovery, collaboration and sharing. Researchers can discover clinical, genetic, imaging and other data collected across many independent studies.

Proper citation: Global Alzheimers Association Interaction Network (RRID:SCR_023699) Copy   

•   Source: SciCrunch Registry

https://awi.cuhk.edu.cn/KinasePhos/download.html

Software tool for redesign and expansion of prediction on kinase specific phosphorylation sites. Machine learning based kinase specific phosphorylation site prediction tool.

Proper citation: KinasePhos 3.0 (RRID:SCR_023595) Copy   

•   Source: SciCrunch Registry

http://tiger.bsc.es

Resource enables integrative exploration of genetic and epigenetic basis of development of Type 2 Diabetes, together with other associated functional, molecular and clinical data, centered in biology and role of pancreatic beta cells.The gene expression regulatory variation landscape of human pancreatic islets.

Proper citation: TIGER Data Portal (RRID:SCR_023626) Copy   

•   Source: SciCrunch Registry

https://rth.dk/resources/risearch/

Software tool for prediction of RNA–RNA, RNA–DNA, and DNA–DNA interactions. Both RIsearch1 and RIsearch2 enable quick localisation of potential near complementary interactions between given query and target sequences. RIsearch1 performs computation with whole sequences. RIsearch2 focuses on perfect complementary seed regions and extends them on both ends. User defined seed and extension constraints makes RIsearch2 applicable to all kinds of interaction predictions (e.g., siRNA and Cas9–gRNA off-target predictions).

Proper citation: RIsearch (RRID:SCR_023503) Copy   

•   Source: SciCrunch Registry