This codebook.txt file was generated on 2020/02/03 by wilsonkm, and updated on 2020/06/18 by collinsv

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GENERAL INFORMATION
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1. Title of Dataset
Hard fescue (Festuca brevipila) reference transcriptome generated by PabBio Isoform sequencing  

2. Author Information

  Principal Investigator Contact Information
        Name: Yinjie Qiu
           Institution: University of Minnesota
           Email: qiuxx221@umn.edu

  Associate or Co-investigator Contact Information
        Name: Ya Yang 
           Institution: University of Minnesota
           Email: yangya@umn.edu

  Associate or Co-investigator Contact Information
           Name: Cory D. Hirsch
           Institution: University of Minnesota
           Email: cdhirsch@umn.edu

  Associate or Co-investigator Contact Information
           Name: Eric Watkins
           Institution: University of Minnesota
           Email: ewatkins@umn.edu

3. Date of data collection: February
 2019
4. Geographic location of data collection: Plant Growth Facility, St. Paul, MN.
 
5. Information about funding sources that supported the collection of the data:
Sponsorship: National Institute of Food and Agriculture, U.S. Department of Agriculture, Specialty Crop Research Initiative under award number 2017-51181-27222

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SHARING/ACCESS INFORMATION
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1. Licenses/restrictions placed on the data:
Attribution 3.0 United States

2. Links to publications that cite or use the data:
https://www.biorxiv.org/content/10.1101/2020.02.26.966952v1.abstract

3. Links to other publicly accessible locations of the data:


4. Links/relationships to ancillary data sets:


5. Was data derived from another source?
           If yes, list source(s):


6. Recommended citation for the data:
 Qiu, Yinjie; Yang, Ya; Hirsch, Cory D.; Watkins, Eric. (2020). Hard fescue (Festuca brevipila) reference transcriptome generated by PabBio Isoform sequencing. Retrieved from the Data Repository for the University of Minnesota, http://hdl.handle.net/11299/211413. 

OR

Qiu, Yinjie, et al. "Building a Reference Transcriptome for the Hexaploid Hard Fescue Turfgrass (Festuca brevipila) Using a Combination of PacBio IsoSeq and Illumina Sequencing." BioRxiv (2020). bioRxiv 2020.02.26.966952; doi: https://doi.org/10.1101/2020.02.26.966952

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DATA & FILE OVERVIEW
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1. File List 
	A. Filename: F_brevipila_isoseq_reference_transcriptome.fasta       
	Short description: This is the PacBio Isoform sequencing generated reference transcriptome for the hard fescue SPHD-3.

	B. Filename: Deposit_annotation.zip
	Short description: Contains the following annotation files:
		 Filename: KEGG_Annotation.txt
		Annotation using Kyoto Encyclopedia of Genes and Genomes database 
		 NCBI_NR_Annotation.txt 
		Annotation using NCBI Non-Redundant protein database 
		 Pfam_Annotation.txt
		Annotation generated using Pfam protein database 
		 SwissProt_Annotation.txt 
		Annotation file using SwissProt protein database
		 Uniref_Annotation.out
		Annotation file using UniRef protein database 
	C. Filename: polished_mesabi2.hq.fasta.zip
	Short description: This file contains PacBio Isoform sequencing before performing reads correction and transcript collapsing. It might contains material or viral sequencing contamination as the contaminants removal was performed after reads correction. 
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METHODOLOGICAL INFORMATION
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All the information could be found in the manuscript released on bioRxiv. It is currently pending final acceptance at Crop Science Journal.