NGR

The Nelore Genomic Resource contains several datasets, search tools, and visualizations to help answer your research questions.

Just use the Search box or go to the Data summary to find out.

Examples of queries

To see how many proteins, genes and transcripts were loaded click on the Data Summary
To show all the data, just leave the search box empty and hit Search
To make specific queries, fill the box with keywords, like this search example: kinase

phospho*

The search box's autocomplete will help you to find valid terms such as IDs, keywords, GO terms, InterproScan terms, QTL trait, and more. Example: GO:0031177
If you search for a SNP, QTL, or CNV, the results will also contain overlapping features such as genes, and transcripts. Example: Transcripts that overlap the 'Shear force' QTLs or Transcripts that overlap features that contain 'cnv*' in the ID or description

Release Notes

Introducing a new release of the Nelore Genomics Resources.

The reference genome ARS-UCD has been updated to version 1.3, and the UMD genome assembly has been updated to version 3.1.

Updated DIAMOND BLAST version used to 2.1.9.

Updated InterproScan used to 5.67-99.0.

Added DIAMOND BLAST v2.1.9 against the UniProt v2024_04 databases, incorporating both the Swiss-Prot and TrEMBL protein datasets.

Updated The Cattle QTL Database (QTLdb) to Release 54.

Data Summary section has been updated to include additional details.

Introducing the first release of the Nelore Genomics Resources.

This platform integrates the bovine reference genome with various biological datasets, including genes, transcripts, proteins, SNVs, QTLs and RNA-Seq. These datasets have been analyzed and indexed, offering you a user-friendly interface for efficient data exploration. For detailed information to the data sources and computational analyses, please refer to the Data Summary section.

New dataset loaded: gene annotations from publications
New feature: search by DOI

New dataset loaded: CNVs

New datasets were loaded:

Genes and transcripts IDs from Ensembl
aseQTL from the research paper 10.1038/s41598-021-86782-2
aseSNV from the research paper 10.1038/s41598-020-67089-0

This is the first draft version of the Nelore Genomic Resource.

It integrates the bovine reference genome ARS-USD1.2 with other biological datasets such as RNA-Seq, SNV, and QTL. The datasets were analyzed and indexed for you to mine in a clean interface. Detailed information related to the data sources and computational analyses can be found at Data summary.