Merge branch 'main' into main

Author: cstner

datasets/huj-herbarium.yaml

@@ -0,0 +1,43 @@
+Name: National Herbarium of Israel
+Description: 
+  Our collection encompasses approximately one million vascular plant specimens from the Mediterranean and Middle East biodiversity hotspot, representing flora from Israel, Jordan, Hermon, Sinai, Egypt, the Caucasus, Arabia, North Africa, and throughout the Mediterranean basin. This scientifically significant repository includes published voucher specimens, original specimens used for "Flora Palaestina" illustrations, and critical references for the Israeli gene bank collections.
+  The ongoing digitization process captures high-resolution images of each specimen while systematically incorporating label information into our computerized catalog. This virtual herbarium will democratize access to these valuable botanical resources, enabling global researchers to examine specimens in exceptional detail from anywhere in the world.
+  Beyond preservation, this digital transformation unlocks new research possibilities through computational analysis of both visual specimen characteristics and associated metadata. The dataset will serve as a foundational resource for advancing botanical research, ecological modeling, taxonomic investigation, historical analysis, and numerous other scientific disciplines concerned with plant biodiversity in this ecologically and historically significant region.
+Documentation: https://bit.ly/HUJVirtualHerbarium
+Contact: [email protected]
+ManagedBy: National Natural History Collections, The Hebrew University of Jerusalem
+UpdateFrequency: Monthly
+Tags:
+  - biology
+  - life sciences
+  - biodiversity
+  - environmental
+  - climate
+  - digital preservation
+  - imaging
+  - image processing
+  - aws-pds
+License: CC-BY-SA 4.0
+Citation: Vascular plants - Herbarium of The National Natural History Collections was accessed on DATE from https://registry.opendata.aws/huj-herbarium.
+Resources:
+  - Description: HUJ Herbarium Collection Images
+    ARN: arn:aws:s3:::hujinnhc/specify_assets/
+    Region: il-central-1
+    Type: S3 Bucket
+    Explore:
+DataAtWork:
+  Tutorials:
+    - Title: How to use AWS S3 bucket to explore our public images dataset
+      URL: https://bit.ly/HUJimages
+      NotebookURL:
+      AuthorName: Eyal Ben-Hur
+      AuthorURL:
+DeprecatedNotice:
+ADXCategories:
+  -   Healthcare & Life Sciences Data
+
+
+
+
+
+

datasets/radiant.yaml

@@ -0,0 +1,85 @@
+Name: RADIANT Public Data
+Description: >
+  The Real-time Analysis and Discovery in Integrated And Networked Technologies (RADIANT)
+  initiative seeks to develop an extensible, federated framework for rapid exchange of 
+  multimodal clinical and research data on behalf of accelerated discovery and patient impact.
+  Coordination and implementation of initial RADIANT deployments will leverage a network of 
+  more than 35 partnered health care systems and participating patient families within the 
+  Children’s Brain Tumor Network (CBTN) and the Pediatric Neuro-Oncology Consortium (PNOC). 
+  This data set is composed of public multi-modal data provisioned by RADIANT. The initial
+  bolus of data is from CBTN and consists of clinical data extracted/abstracted from 
+  electronic medical records, omic data such as genomics, transcriptomics and proteomics and
+  radiology and pathology imaging data. Data are collected or generated as part of consent-based, 
+  IRB-approved observational or interventional studies with the goal of making it available
+  globally to researchers across a broad number of disciplines. 
+Documentation: https://cbtn.org/research-resources
+Contact: [email protected]
+ManagedBy: "[The Center for Data-Driven Discovery in Biomedicine (D3b) at the Children's Hospital of Philadelphia](https://d3b.center/)"
+UpdateFrequency: |
+  Data is updated on a regular basis by the RADIANT teams to make data available as
+  rapidly as possible. 
+Tags:
+  - aws-pds
+  - life sciences
+  - cancer
+  - genetic
+  - genomic
+  - transcriptomics
+  - medical imaging
+  - radiology
+  - Homo sapiens
+  - pediatric
+  - whole genome sequencing
+License: "NIH Genomic Data Sharing Policy: https://grants.nih.gov/grants/guide/notice-files/not-od-14-124.html"
+Resources:
+- Description: "Children's Brain Tumor Network"
+  ARN: arn:aws:s3:::opendata-chop-study-us-east-1-prd-sd-bhjxbdqk
+  Region: us-east-1
+  Type: S3 Bucket
+  ControlledAccess: https://cbtn.org/
+DataAtWork:
+  Tools & Applications:
+    - Title: RADIANT Source Code
+      URL: https://github.com/radiant-network
+      AuthorName: RADIANT Team
+      AuthorURL: https://github.com/radiant-network
+    - Title: CAVATICA
+      URL: http://cavatica.org
+      AuthorName: Seven Bridges Genomics
+      AuthorURL: http://www.sevenbridges.com
+    - Title: PedcBioPortal
+      URL: https://pedcbioportal.kidsfirstdrc.org
+      AuthorName: cBioPortal
+      AuthorURL: https://www.cbioportal.org/
+    - Title: Flywheel (CHOP D3b)
+      URL: https://chop.flywheel.io
+      AuthorName: Flywheel
+      AuthorURL: https://flywheel.io/
+  Publications:
+    - Title: "The children's brain tumor network (CBTN) - Accelerating research in pediatric central nervous system tumors through collaboration and open science."
+      URL: https://pubmed.ncbi.nlm.nih.gov/36335802/
+      AuthorName: Jena V Lilly, Jo Lynne Rokita, Jennifer L Mason, et al.
+    - Title: "The landscape of primary mismatch repair deficient gliomas in children, adolescents, and young adults: a multi-cohort study"
+      URL: https://pubmed.ncbi.nlm.nih.gov/39701117/
+      AuthorName: Logine Negm, Jiil Chung, Liana Nobre, et al.
+    - Title: "Multiparametric MRI along with machine learning predicts prognosis and treatment response in pediatric low-grade glioma"
+      URL: https://pubmed.ncbi.nlm.nih.gov/39747214/
+      AuthorName: Anahita Gathi Kazerooni, Adam Kraya, Komal S Rathi, Meen Chul Kim, et al.
+    - Title: "Multi-scale signaling and tumor evolution in high-grade gliomas" 
+      URL: https://pubmed.ncbi.nlm.nih.gov/38981438/
+      AuthorName: Jingxian Liu, Song Cao, Kathleen J Imback, et al.
+    - Title: "Germline analysis of an international cohort of pediatric diffuse midline glioma patients" 
+      URL: https://pubmed.ncbi.nlm.nih.gov/40072012/
+      AuthorName: Marion K Mateos, Pamela Ajuyah, Noemi Fuentes-Bolanos, et al.
+    - Title: "A road map for the treatment of pediatric diffuse midline glioma" 
+      URL: https://pubmed.ncbi.nlm.nih.gov/38039965/
+      AuthorName: Carl Koschmann, Wajd N Al-Holou, Marta M Alonso, et al.
+    - Title: "Use of External Control Cohorts in Pediatric Brain Tumor Clinical Trials" 
+      URL: https://pubmed.ncbi.nlm.nih.gov/38394473/
+      AuthorName: Ashley S Margol, Annette M Molinaro, Arzu Onar-Thomas, et al.
+    - Title: "OpenPBTA: The Open Pediatric Brain Tumor Atlas" 
+      URL: https://pubmed.ncbi.nlm.nih.gov/37492101/
+      AuthorName: Joshua A Shapiro, Krutika S Gaonkar, Stephanie J Spielman, et al.
+    - Title: "Generation and multi-dimensional profiling of a childhood cancer cell line atlas defines new therapeutic opportunities" 
+      URL: https://pubmed.ncbi.nlm.nih.gov/37001527/
+      AuthorName: Claire Xin Sun, Paul Daniel, Gabrielle Bradshaw et al.

datasets/wis2-global-cache.yaml

@@ -23,11 +23,15 @@ Tags:
 License: There are no restrictions on the use of this data. Attribution of original source is requested.
 Resources:
   - Description: Core data as defined in the [WMO Unified Data Policy (Resolution 1 (Cg-19))](https://library.wmo.int/idurl/4/58009) and the [initial Catalogue of Core Data](http://library.wmo.int/doc_num.php?explnum_id=11001#page=139). Data covers a global extent. Data is provided in WMO approved formats - GRIB, BUFR and NetCDF. Users should subscribe to receive notification messages about newly available data. Please refer to the documentation.
-    ARN: arn:aws:s3:::wis2-global-cache
-    Region: eu-west-2
+    ARN: arn:aws:s3:::wis2globalcache
+    Region: us-east-1
     Type: S3 Bucket
     Explore: 
-    - '[Browse Bucket](https://wis2-global-cache.s3.amazonaws.com/index.html)'
+    - '[Browse Bucket](https://wis2globalcache.s3.us-east-1.amazonaws.com/index.html)'
+  - Description: Notifications for new wis2globalcache data
+    ARN: arn:aws:sns:us-east-1:211648629506:wis2globalcache-object_created
+    Region: us-east-1
+    Type: SNS Topic
 DataAtWork:
   Tutorials:
     - Title: WIS 2.0 video for 19th World Meterological Congress
@@ -42,3 +46,4 @@ DataAtWork:
       AuthorName: World Meteorological Organisation
 ADXCategories:
   - Environmental Data
+