Tag: PubChem

NCBI Resources Highlighted in 2025 Nucleic Acids Research Database Issue

The 2025 Nucleic Acids Research Database Issue features papers from NCBI staff on ClinVar, PubChem, GenBank, RefSeq, and more. The citations are available in PubMed with full-text available in PubMed Central (PMC). To read an article, click on the PMCID number listed below.

Database resources of the National Center for Biotechnology Information in 2025

PMCID: PMC11701734

NCBI provides online information resources for biology, including the GenBank® nucleic acid sequence repository and the PubMed® repository of citations and abstracts published in life science journals. NCBI is currently developing the NIH Comparative Genomics Resource (CGR) to facilitate reliable comparative genomics analyses with an NCBI Toolkit and community collaboration.

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Quickly Find Chemical Information with PubChem

Did you know NCBI’s PubChem is the world’s largest collection of freely accessible chemical information? You can search chemicals by name, molecular formula, structure, and other identifiers, as well as find chemical and physical properties, biological activities, safety and toxicity information, patents, literature citations and more. We are constantly adding new data and working on improving interfaces to chemical information.

What is in PubChem?

118M Compounds
319M Substances
295M Bioactivity Assay Results
41M Literature Citations
51M Patents

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New NCBI Summer Virtual Workshop Series!

Apply to attend interactive, hands-on workshops

Calling all biology students and educators! Want to learn more about NCBI resources and how to use our high-quality data and cutting-edge tools for your research projects or curricula?

We are excited to announce our upcoming virtual workshop series for Summer 2023. Our interactive, hands-on workshops are taught by experienced NCBI Education faculty. Events are free to attend, and applications are open to the public; however, each workshop will accept a limited number of participants to facilitate the best possible educational experience. Continue reading “New NCBI Summer Virtual Workshop Series!” →

Read About NCBI Resources in 2023 Nucleic Acids Research Database Issue

The 2023 Nucleic Acids Research Database Issue features papers from NCBI staff on GenBank, Conserved Domain Database, and more. The citations are available in PubMed with full-text available in PubMed Central (PMC). To read an article, click on the PMCID number listed below. Continue reading “Read About NCBI Resources in 2023 Nucleic Acids Research Database Issue” →

Biosystems retiring March 2022 — use PubChem Pathways

The NCBI BioSystems Database will be retired in March 2022. This retirement includes the representation of BioSystems records in the NCBI Entrez system and viewers of BioSystems content.

NCBI now provides metabolic pathway and other biosystems data through the regularly updated PubChem Pathways resource that offers a fresh, extended, and more modern interface. See the PubChem blog for more details on PubChem Pathways.

Table 1 presents a snapshot of the richer and more extensive data coverage in PubChem Pathways.

Source database	BioSystems	PubChem Pathways (as of 8/10/21)
BioCyc	15,259 records	15,037 records
PlantCyc		64,851 records
Reactome	20,478 records	26,407 records
Plant Reactome		18,910 records
NCI Pathway Interaction DB	188 records	745 records
Wiki Pathways	1,478 records	1,823 records
Lipid Maps	14 records	15 records
PharmGKB		147 records
PathBank		110,315 records
COVID-19 Disease Map		20 records
INOH		511 records
GO	44,525 records
KEGG	902,026 records

Table 1: Coverage for BioSystems records in PubChem Pathways. In anticipation of retiring BioSystems, we will begin directing relevant queries to PubChem Pathways to provide users with a richer dataset and enhanced user experience.

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Webinar on current access to TOXNET resources

NLM staff will participate in the next American Chemical Society webinar for the chemical information and cheminformatics community: An Overview of NLM’s Post-TOXNET Resources. TOXNET (the TOXicology Data NETwork) was retired in December 2019 as part of the reorganization associated with the NLM Strategic Plan. Most of TOXNET’s databases have been incorporated into other NLM resources such as PubChem and Bookshelf, or continue to be available elsewhere. This webinar will show you where to go now for TOXNET information.

Date and Time: Tuesday, March 17 at 1:00pm EDT.
Register

A live Q&A session will follow the webinar.

The periodic table turns 150!

NCBI and PubChem are celebrating the 150th anniversary of the periodic table of chemical elements, one of the most recognized tools in science. The scientific community has declared 2019 to be “The International Year of the Periodic Table”. We’re celebrating by launching the PubChem Periodic Table and Element pages, where you can find chemical element data and data sources. There’s always more to learn, so check out the PubChem blog for more about this incredible old resource.

5 new videos on YouTube: Get the most out of BLAST, MedGen, PubChem and more

Here are the latest videos on our YouTube channel. Subscribe to get alerts for new videos.

NCBI Minute: Getting the Most out of Web BLAST Tabular Format

The NCBI web BLAST service has several useful download formats, including tabular formats. All formats allow you to easily save your BLAST results for processing, editing, and annotating.

This video will show you how to use basic Unix tools and EDirect to expand and enhance your tabular saved BLAST results. You will also see learn how to add useful information like taxonomy and sequence titles.

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May 9 NCBI Minute: Integrating PubChem into Your Chemistry Teaching

Next Wednesday, May 9, 2018, NCBI staff will show you how to use PubChem as a cheminformatics education resource. In addition to learning about tools and services for chemical information search, analysis, and download, you will also see examples of how instructors incorporate PubChem in Cheminformatics OLCC (On-Line Chemistry Courses), an intercollegiate hybrid course.

Date and time: Wednesday, May 9, 2018 12:00 – 12:30 PM EDT

After registering, you will receive a confirmation email with information about attending the webinar. A few days after the live presentation, you can view the recording on the NCBI YouTube channel. You can learn about future webinars on the Webinars and Courses page.

5 NCBI articles in 2018 Nucleic Acids Research database issue

The 2018 Nucleic Acids Research database issue features several papers from NCBI staff that cover the status and future of databases including CCDS, ClinVar, GenBank and RefSeq. These papers are also available on PubMed. To read an article, click on the PMID number listed below.

Continue reading “5 NCBI articles in 2018 Nucleic Acids Research database issue” →

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