---
name: "download-ncbi-data"
section: "1"
platform: "linux"
package: "ncbi-entrez-direct"
version: "24.0.20250523+dfsg-1+b1"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/download-ncbi-data"
---

# download-ncbi-data(1)

download specific data from NCBI's FTP site

## NAME

download-ncbi-data - download specific data from NCBI's FTP site

## SYNOPSIS

**download-ncbi-data** **bioconcepts**\|**generif**\|**meshtree**\|**taxnames**\|**taxoninfo**\|**serials**\|**journals**\|**nihocc**\|**pmc-oa**\|**pmc-bioc**\|**oa-list**\|**oa-book *accession***\|**carotene**\|**globin**\|**human**\|**smear**

## DESCRIPTION

**download-ncbi-data** downloads the requested data to the current directory.

## OPTIONS

- **bioconcepts**

  Download mappings from chemical, disease, and gene names to PubTatorCentral unless already present.

- **generif**

  Download GeneRif data, unless already present, and extract some summaries.

- **taxnames**

  Download a taxonomic database and produce a table summarizing correspondences between taxonomic IDs and scientific or common names.

- **taxoninfo**

  Download additional general taxonomic data.

- **serials**

  Download a database of serials indexed by NLM and extract some summaries.

- **journals**

  Download a database of journals indexed by PubMed and extract some summaries.

- **meshtree**

  Download MeSH data and extract some summaries.

- **nihocc**

  Download NIH Open Citation Collection data.

- **pmc-oa**

  Download PubMed Central open-access archives in traditional format, unless already present.

- **pmc-bioc**

  Download PubMed Central open-access archives in BioConcepts format, unless already present.

- **oa-list**

  Download a list of open access books, unless already present, and extract a summary.

- **oa-book *accession***

  Download the open access book with the specified accession. First produce a list and summary as above if necessary.

- **carotene**

  Download and unzip sample **PubmedArticleSet** XML for carotene.

- **globin**

  Download and unzip sample **INSDSet** XML for globin.

- **human**

  Download and unzip sample gene **DocumentSummarySet** XML for humans.

- **smear**

  Download and unzip sample **Seq-submit** ASN.1 for a fruit fly nucleotide-protein set with annotations from GeneMachine and BLAST.

## SEE ALSO

[**archive-pubmed**(1)](/archive-pubmed/1.md), [**archive-taxonomy**(1)](/archive-taxonomy/1.md), [**download-flatfile**(1)](/download-flatfile/1.md), [**download-ncbi-software**(1)](/download-ncbi-software/1.md), [**download-pmc**(1)](/download-pmc/1.md), [**download-pubmed**(1)](/download-pubmed/1.md), [**download-sequence**(1)](/download-sequence/1.md), [**nquire**(1)](/nquire/1.md), [**refseq-nm-cds**(1)](/refseq-nm-cds/1.md), [**xfetch**(1)](/xfetch/1.md), [**xinfo**(1)](/xinfo/1.md), [**xlink**(1)](/xlink/1.md), [**xsearch**(1)](/xsearch/1.md). [**xtract**(1)](/xtract/1.md).