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Part 1: Document Description
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Citation |
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Title: |
Data generated for the publication entitled “A major quantitative trait locus affecting resistance to Tilapia lake virus in farmed Nile tilapia (Oreochromis niloticus “ |
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Identification Number: |
doi:10.7910/DVN/R12ARL |
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Distributor: |
Harvard Dataverse |
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Date of Distribution: |
2022-01-04 |
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Version: |
1 |
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Bibliographic Citation: |
Barria, Agustin; Houston, Ross; Benzie, John, 2022, "Data generated for the publication entitled “A major quantitative trait locus affecting resistance to Tilapia lake virus in farmed Nile tilapia (Oreochromis niloticus “", https://doi.org/10.7910/DVN/R12ARL, Harvard Dataverse, V1 |
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Citation |
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Title: |
Data generated for the publication entitled “A major quantitative trait locus affecting resistance to Tilapia lake virus in farmed Nile tilapia (Oreochromis niloticus “ |
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Identification Number: |
doi:10.7910/DVN/R12ARL |
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Identification Number: |
32200 |
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Authoring Entity: |
Barria, Agustin (University of Edinburgh, College of Medicine & Veterinary Medicine, The Roslin Institute - ED - CoM&VM - ROSLIN) |
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Houston, Ross (University of Edinburgh, College of Medicine & Veterinary Medicine, The Roslin Institute - ED - CoM&VM - ROSLIN) |
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Benzie, John (WorldFish) |
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Other identifications and acknowledgements: |
FISH CRP |
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Other identifications and acknowledgements: |
The Roslin Institute |
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Producer: |
University of Edinburgh, College of Medicine & Veterinary Medicine, The Roslin Institute |
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Date of Production: |
2021-12-30 |
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Software used in Production: |
The phenotypes have not been modified in any sense, and are storage in .txt format. The Raw data was generated after 2 initial quality controls (QC) to .CEL files. This QCs were done through the Axiom Analysis Suite Software v.4.2.2. Filtered genotyping data was generated after a QC done with Plink v.1.09. |
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Distributor: |
Harvard Dataverse |
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Distributor: |
WorldFish |
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Access Authority: |
Barria, Agustin |
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Date of Deposit: |
2022-01-04 |
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Holdings Information: |
https://doi.org/10.7910/DVN/R12ARL |
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Study Scope |
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Keywords: |
Medicine, Health and Life Sciences, Medicine, Health and Life Sciences, genome-wide association study, marker assisted selection (mas), disease resistance, nile tilapia, tilapia lake virus, snp array |
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Abstract: |
The following data represent all the required data and information generated for the paper published in The Heredity journal called “A major quantitative trait locus affecting resistance to Tilapia lake virus in farmed Nile tilapia (Oreochromis niloticus”. It contains how the identification of the QTL for TiLV was assessed, and all the necessary data to replicate the results. |
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Kind of Data: |
Phenotypic data from a pond outbreak to Tilapia Lake Virus (n = 1,821), The fish belongs to the Generation 16th of the GIFT strain. Data was collected between Freburary and March, 2018. Raw genotypic data (n = 1,300 fish) is also observed. This data includes fish from the generation 16, but also their parents (Generation 15). The genotyping was assessed through a 65 K SNP array and its in .vcf format. Filtered genotyping data, representing data from 950 fish, is on .bed. .fam and .bim format |
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Notes: |
Type: Dataset; Sub-type(s): Other (Genetic assessment data) |
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Methodology and Processing |
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Sources Statement |
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Data Access |
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Disclaimer: |
<P> Whilst utmost care has been taken by WorldFish and data authors while collecting and compiling the data, the data is however offered "as is" with no express or implied warranty. In no event shall the data authors, WorldFish, or relevant funding agencies be liable for any actual, incidental or consequential damages arising from use of the data. <BR/><BR/> By using the WorldFish Dataverse, the user expressly acknowledges that the Data may contain some nonconformities, defects, or errors. No warranty is given that the data will meet the user's needs or expectations or that all nonconformities, defects, or errors can or will be corrected. <BR/><BR/> The user should always verify actual data; therefore the user bears all responsibility in determining whether the data is fit for the user’s intended use. The user of the data should use the related publications as a baseline for their analysis whenever possible. Doing so will be an added safeguard against misinterpretation of the data. Related publications are listed in the metadata section of the Dataverse study. </P> |
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Notes: |
<P><a rel="license" href="http://creativecommons.org/licenses/by/4.0/" target="_blank"><img alt="Creative Commons License" style="border-width:0" src="https://i.creativecommons.org/l/by/4.0/88x31.png" /></a><br /> These data and documents are licensed under a <a href="http://creativecommons.org/licenses/by/4.0/" target="_blank"> Creative Commons Attribution 4.0 International license.</a> You may copy, distribute and transmit the data as long as you acknowledge the source through proper <a href="http://best-practices.dataverse.org/data-citation/" target="_blank">data citation</a>.</P> <Strong>Disclaimer</Strong> <P> Whilst utmost care has been taken by WorldFish and data authors while collecting and compiling the data, the data is however offered "as is" with no express or implied warranty. In no event shall the data authors, WorldFish, or relevant funding agencies be liable for any actual, incidental or consequential damages arising from use of the data. <BR/><BR/> By using the WorldFish Dataverse, the user expressly acknowledges that the Data may contain some nonconformities, defects, or errors. No warranty is given that the data will meet the user's needs or expectations or that all nonconformities, defects, or errors can or will be corrected. <BR/><BR/> The user should always verify actual data; therefore the user bears all responsibility in determining whether the data is fit for the user’s intended use. The user of the data should use the related publications as a baseline for their analysis whenever possible. Doing so will be an added safeguard against misinterpretation of the data. Related publications are listed in the metadata section of the Dataverse study. </P> |
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Other Study Description Materials |
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Related Publications |
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Citation |
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Identification Number: |
20.500.12348/4949 |
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Bibliographic Citation: |
Barría, A. Trịnh, T. Q. Mahmuddin, M. et al. A major quantitative trait locus affecting resistance to Tilapia lake virus in farmed Nile tilapia (Oreochromis niloticus). Heredity 127, 334–343 (2021). https://doi.org/10.1038/s41437-021-00447-4 |
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Label: |
950Fish.bed |
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Notes: |
application/vnd.realvnc.bed |
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Label: |
950Fish.bim |
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Notes: |
application/octet-stream |
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Label: |
950Fish.fam |
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Notes: |
application/octet-stream |
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Label: |
Axiom_Analysis_Suite_v5_1_User_Guide.pdf |
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Text: | |
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Notes: |
application/pdf |
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Label: |
Methods.docx |
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Text: | |
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Notes: |
application/vnd.openxmlformats-officedocument.wordprocessingml.document |
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Label: |
Phenotypic_Data.txt |
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Notes: |
text/plain |
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Label: |
plink_doc_1_07.pdf |
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Text: | |
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Notes: |
application/pdf |
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Label: |
Tilapia_28012020_QC93.R |
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Notes: |
type/x-r-syntax |
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Label: |
TiLV_28012020_QC93.vcf |
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Notes: |
text/x-vcard |