Downloads

Here you can find the genomic and transcriptomic data derived from our research.





GENOMIC DATA




File	Reference genome	Version/Year	Downloads	Raw data	Notes
GENOME (fasta file)	Alonso et al. 2016 (CBMSO)	-/2016	DOWNLOAD	ERP002077	Updated L.major genome sequence revealing 7 new loci
CDS annotation file (GFF)	Alonso et al. 2016 (CBMSO)	v1/2016	DOWNLOAD	ERP002077	L.major CDS annotation
CDS annotation file (GFF)	Alonso et al. 2016 (CBMSO)	v1.2/2017	DOWNLOAD	-	Updated L.major CDS annotation, with some minor changes in coordenates affecting some CDSs.NEW version (24/10/2017)




TRANSCRIPTOMIC DATA




File	Reference genome	Version/Year	Downloads	Raw data	Notes
TRANSCRIPTOME annotation file (GTF)	TriTrypDB release 6 Friedlin strain	-/2013	DOWNLOAD	ERP002077	Complete transcriptome assembly based on RNA-seq from L.major axenic promastigotes. A detail description can be found in our paper (Rastrojo et al. 2013)
TRANSCRIPTOME annotation file (GTF)	Alonso et al. 2016 (CBMSO)	v1/2016	DOWNLOAD	ERP002077	Complete transcriptome of L.major
TRANSCRIPTOME annotation file (GTF)	Alonso et al. 2016 (CBMSO)	v1.2/2017	DOWNLOAD	-	Updated version of the complete transcriptome of L.major with some minor changes in coordenates affecting some transcripts.NEW version (24/10/2017)
TRANSCRIPTS (fasta file)	Alonso et al. 2016 (CBMSO)	-/2017	DOWNLOAD	ERP002077	Fasta file with L.major transcripts extracted from the transcriptome annotation file v1.2 (CBMSO)




MITOCHONDRIAL DATA




File	Reference genome	Version/Year	Downloads	Raw data	Notes
MAXICIRCLE (fasta file)	-	-/-	DOWNLOAD	LR697138	L. major maxicircle sequence (Camacho et al., 2019)
MAXICIRCLE annotation file (GFF)	-	-/-	DOWNLOAD	LR697138	L.major maxicircle annotation (Camacho et al., 2019)
MINICIRCLES (fasta file)	-	-/-	DOWNLOAD	PRJEB33887	97 L.major minicircle sequences (Camacho et al., 2019)




SIDER2 ELEMENTS




File	Reference genome	Version/Year	Downloads	Raw data	Notes
SIDER2 annotation file (GTF)	TriTrypDB release 9 Friedlin strain	-/2017	DOWNLOAD	-	A detailed catalogue of all SIDER2 elements found in the L.major genome (main paper Requena et al. 2016 and dataset Requena et al. 2017)






How to cite the articles corresponding to our studies:




• Requena et al. 2017: Requena, J. M., Rastrojo, A., Garde, E., López, M. C., Thomas, M. C., & Aguado, B. (2017). Dataset for distribution of SIDER2 elements in the Leishmania major genome and transcriptome. Data in Brief, 11, 39–43. https://doi.org/10.1016/j.dib.2017.01.001 (2017)




• Requena et al. 2016: Requena, J. M., Rastrojo, A., Garde, E., López, M. C., Thomas, M. C., & Aguado, B. Genomic cartography and proposal of nomenclature for the repeated, interspersed elements of the Leishmania major SIDER2 family and identification of SIDER2-containing transcripts. Molecular and Biochemical Parasitology, 212, 9–15. https://doi.org/10.1016/j.molbiopara.2016.12.009 (2016)




• Alonso et al. 2016: Alonso, G., Rastrojo, A., Lopez-Perez, S., Requena, J. M. & Aguado, B. Resequencing and assembly of seven complex loci to improve the Leishmania major (Friedlin strain) reference genome. Parasites & vectors 9, 74, https://doi.org/10.1186/s13071-016-1329-4 (2016)




• Rastrojo et al. 2013: Rastrojo, A., Carrasco-Ramiro, F., Martín, D., Crespillo, A., Reguera, R. M., Aguado, B., & Requena, J. M. The transcriptome of Leishmania major in the axenic promastigote stage: transcript annotation and relative expression levels by RNA-seq. BMC Genomics, 14(1), 223. https://doi.org/10.1186/1471-2164-14-223 (2013)