NCBI Datasets: Easily Access and Download Sequence Data and Metadata

Effective May 2024, NCBI Datasets will replace legacy Genome and Assembly web resources  As part of our ongoing effort to enhance your experience and modernize our services, NCBI will gradually replace the legacy Genome and Assembly resources with the newly introduced NCBI Datasets resource. NCBI Datasets is a continually evolving platform designed to provide easy and intuitive … Continue reading NCBI Datasets: Easily Access and Download Sequence Data and Metadata

New & Improved NCBI Datasets Genome and Assembly Pages 

Legacy pages now redirect  Effective July 10, 2023, NCBI’s Assembly and Genome record pages now redirect to new NCBI Datasets pages. As previously announced, these updates are part of our ongoing effort to modernize and improve your user experience. NCBI Datasets is a new resource that makes it easier to find and download genome data.    The following pages have … Continue reading New & Improved NCBI Datasets Genome and Assembly Pages 

Important Update! Changes to ASSEMBLY_REPORTS and GENOME_REPORTS on FTP

Do you currently access genome assembly data through the FTP site? We are consolidating information provided in the ASSEMBLY_REPORTS and GENOME_REPORTS directories on the genomes FTP site to simplify access and ensure that you have the most accurate, up to date, and consistently reported data.   The assembly_summary files in the ASSEMBLY_REPORTS directory are gaining information … Continue reading Important Update! Changes to ASSEMBLY_REPORTS and GENOME_REPORTS on FTP

Download Assembled Genome Data Programmatically with NCBI Datasets

As previously announced, NCBI’s Assembly and Genome record pages will be redirected to new NCBI Datasets pages in June 2023. The NCBI Datasets Command Line Interface (CLI) tools provide easy, straightforward programmatic downloads of assembled genome sequence data. We invite you to check them out and let us know what you think!  Features & Benefits of NCBI … Continue reading Download Assembled Genome Data Programmatically with NCBI Datasets

New & Improved NCBI Datasets Genome and Assembly Pages

Legacy pages will be redirected effective June 2023 In June 2023, NCBI’s Assembly and Genome record pages will be redirected to new Datasets pages as part of our ongoing effort to modernize and improve your user experience. NCBI Datasets is a new resource that makes it easier to find and download genome data.   We will … Continue reading New & Improved NCBI Datasets Genome and Assembly Pages

Fungal species identification using DNA: a NCBI and USDA-APHIS collaboration with a focus on Colletotrichum

As reported in the journal Plant Disease,  a recent collaboration between National Library of Medicine’s NCBI and the U.S. Department of Agriculture’s Animal and Plant Health Inspection Service (APHIS) analyzed public sequence records for the fungal genus Colletotrichum, an important group of fungal plant pathogens that are a significant threat  to food production. Colletotrichum species … Continue reading Fungal species identification using DNA: a NCBI and USDA-APHIS collaboration with a focus on Colletotrichum

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Come see NCBI at the ASM Microbe Conference 2022

The American Society of Microbiology (ASM) Microbe conference is back, and scheduled to take place in-person, June 9th-13th in Washington, D.C. NCBI staff member Dr. Michael Feldgarden will be recognized by ASM with an award for his research. Other NCBI staff will present posters on NCBI resources and will also be available at our booth … Continue reading Come see NCBI at the ASM Microbe Conference 2022

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NCBI’s Genome Data viewer now displays both NCBI RefSeq and submitted assemblies

NCBI’s Genome Data Viewer (GDV) now supports visualization and analysis of nearly 400 submitter-annotated chromosome-level assemblies from the INSDC (GenBank/ENA/DDBJ). These submitter-annotated assemblies join more than 1,200 NCBI RefSeq-annotated assemblies available in GDV for hundreds of eukaryotes, spanning fungi, plants, fish, insects, and all major model organisms. Figure 1 shows a GenBank apple assembly (GCA_004115385) … Continue reading NCBI’s Genome Data viewer now displays both NCBI RefSeq and submitted assemblies

A new service to evaluate the quality of your assembled genome!

Are you wondering about the quality of a human, mouse or rat genome that you have assembled? We offer a new service for evaluating the completeness, correctness, and base accuracy of your human, mouse or rat genome assembly compared to a reference assembly. You simply provide NCBI with one or more assemblies in FASTA format … Continue reading A new service to evaluate the quality of your assembled genome!

Fungal Disease Awareness Week: fungal pathogen data and literature at NCBI

This post is in support of the CDC’s Fungal Disease Awareness Week — September 20-24, 2021. The impact of fungal diseases on human health has often been neglected, but increased association of fungal infections with severe illness and death during the COVID-19 pandemic has brought fungal diseases into the spotlight. According to the CDC, the … Continue reading Fungal Disease Awareness Week: fungal pathogen data and literature at NCBI