Genome-seq_RNAseq_variants
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Genome-seq_RNAseq_variants of founders lines
SEEK ID: https://datahub-test.elixir-belgium.org/studies/88
Characterisation of founders lines
Projects: Genetic properties of the MAGIC maize population
Study position:
Is ISA-JSON compliant: true
- source_plant 1.2.0 (id: 12)
- sample_collection 1.2.0 (id: 11)
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Creators and SubmitterViews: 207
Created: 8th Sep 2025 at 06:20
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Institutions: Default Institution, Vlaams Instituut voor Biotechnologie, uppsala University, ILVO
Data from Genetic properties of the MAGIC maize population: a new platform for high definition QTL mapping in Zea mays https://doi.org/10.1186/s13059-015-0716-z
Projects: Genetic properties of the MAGIC maize population
Web page: Not specified
Test for MARS
Programme: Multi-modal plant project test
Public web page: Not specified
WGS, RNAsequencing and genotyping of founders lines
Submitter: Flora D'Anna
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: Characterisation of founders lines
Study: Genome-seq_RNAseq_variants
Submitter: Flora D'Anna
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: Characterisation of founders lines
Study: Genome-seq_RNAseq_variants
Submitter: Flora D'Anna
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: Characterisation of founders lines
Study: Genome-seq_RNAseq_variants
Genomic variants
Submitter: Flora D'Anna
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: Characterisation of founders lines
Study: Genome-seq_RNAseq_variants
Submitter: Flora D'Anna
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: Characterisation of founders lines
Study: Genome-seq_RNAseq_variants
Genome assembly protocol
Creator: Flora D'Anna
Submitter: Flora D'Anna
Library preparation was done using the TruSeq RNA Sample Preparation Kit v2 (Illumina). In brief, starting from total RNA the mRNA is purified using polyA selection. Following chemically fragmentation the mRNA is converted into single-stranded cDNA using random hexamer priming. Next, double-stranded cDNA is generated and adapters are ligated.
Creator: Flora D'Anna
Submitter: Flora D'Anna
Total RNA was extracted using TriZol.
Creator: Flora D'Anna
Submitter: Flora D'Anna
The basal 5 millimeter of the fourth leaf was sampled for RNA extraction harvested two days after its appearance from the surrounding older leaves.
Creator: Flora D'Anna
Submitter: Flora D'Anna
Source Name (String) *, material type (Controlled Vocabulary - material type (free text allowed)) *, organism (Controlled Vocabulary - organism (free text allowed)) *, age (Controlled Vocabulary - age (free text allowed)) *, developmental stage (Controlled Vocabulary - developmental stage (free text allowed)) *, genetic modification (Controlled Vocabulary - genetic modification (free text allowed)) , genotype (Controlled Vocabulary - genotype (free text allowed)) *, growth condition (Controlled Vocabulary - growth condition (free text allowed)) , organism part (Controlled Vocabulary - organism part (free text allowed)) *, strain (String) , cultivar (String) *, geographic location (country and/or sea) (Controlled Vocabulary - geographic location (country and/or sea)) , tax_id (NCBI ID) , scientific_name (String)
Not specified
Input (Source Name) (Registered Sample List) *, Sample Name (String) *, material type (Controlled Vocabulary - material type (free text allowed)) *, sample collection (String) *, collection date (Text) *, replicate (Controlled Vocabulary - replicate) , sample_description (String) , organism part (Controlled Vocabulary - organism part (free text allowed))
Not specified
dissection protocol Version 1
The basal 5 millimeter of the fourth leaf was sampled for RNA extraction harvested two days after its appearance from the surrounding older leaves.
SEEK ID: https://datahub-test.elixir-belgium.org/sops/78
Link: /studies/88
Filename: TestProtocol_VIB.docx
Format: Word document
Size: 13.2 KB
