This is a test version of Biostars. For the public version, visit https://www.biostars.org.
How to cite datasets downloaded from Ensembl?

I am using datasets available here (GFF and Gene sequences):

Could someone please let me know how I could cite the source of this data?

citation ensembl
• 2,161 views • link
updated by Astrid_Ensembl Astrid_Ensembl • written by MAPK MAPK

2 answers

Scrolling down to the website footer gives this link on "Citing Ensembl Genomes": http://ensemblgenomes.org/info/publications

Hope this helps.

• 0 views • link
written by Ram Ram

I would also include a link to the file and indicate both the version you downloaded and the date.

• 0 views • link
written by ATpoint ATpoint

The genebuild was done by JGI. Further information and the reference are here: https://plants.ensembl.org/Glycine_max/Info/Annotation/#assembly

• 0 views • link
written by Astrid_Ensembl Astrid_Ensembl

Log in to answer this question.

More posts like this
  • BiomartException: Query ERROR for existing dataset in BioMart
    written by Luqman • Luqman
    I am trying to fetch protein sequences for a list of gene IDs using from BioMart API using the Python code: def fetch_protein_sequences(gene_ids): dataset = …
  • What number to give for `-ploidy` for durum genome in GATK?
    written by xie186 • xie186
    I have some genome sequencing data from durum wheat. I'm using GATK to call variants. I got the genome sequence here: http://plants.ensembl.org/Triticum_turgidum/Info/Index Here is the …
  • GFF file for soybean RNAseq analysis
    written by MAPK MAPK
    I am trying to do RNA-seq analysis for soybean datasets. I was looking at soybase (link: https://soybase.org/dlpages/#datastore ), but couldn't find the associated gff files. …
  • Cross assembly of metagenomics
    written by MAPK MAPK
    I am working on metatranscriptomic data and wanted to use this tool available here: https://edwards.sdsu.edu/crass/# I have assembled my transcriptomic data using Trinity and have …
  • Forum: Metagenomics Tutoring Opportunity
    written by MK2000 • MK2000
    Hi all, I was wondering if there was anyone on here that could tutor in metagenomics data processing? I am very new to the field, …
  • Adaptor trimming for RNAseq
    written by MAPK MAPK
    I have a few samples of RNA-seq data. I have this adaptor sequience (`AGATCGGAAGAGCACACGTCTGAACTCCAGTCACNNNNNNATCTCGTATGCCGTCTTCTGCTTG (NNNNNN= 6 nt index)`). Can someone please tell me what `NNNNNNN …
  • How to run microsynteny plotter from McScan?
    written by MAPK MAPK
    I was trying to run microsynteny of Madbox gene family using the McScan tool's `family_circle_plotter.java` available here (https://github.com/wyp1125/MCScanX/blob/master/downstream_analyses/family_circle_plotter.java ). I followed the manual (http://chibba.pgml.uga.edu/mcscan2/documentation/manual.pdf ) …
  • How to run microsynteny using MCscan?
    written by MAPK MAPK
    I have been trying to run microsynteny for a set of MAPK genes from two plant species using http://chibba.pgml.uga.edu/mcscan2/documentation/manual.pdf. I have protein sequences of MAPK …
  • Simulated data for Structural Variants
    written by Chan • Chan
    Hi everyone, since I am new to Structural Variants, could someone please let me know how can I get access to the simulated data for …
  • Solanum tuberosum gff file
    written by agata88 agata88
    Hi all! I have a question about gff file from ENSEMBL downloaded for Solanum tuberosum (http://plants.ensembl.org/Solanum_tuberosum/Info/Index). Here I paste a fragment of this file (data …