Excel template for metadata required by ENA to submit sequence data

Selected Cell

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ENA Study attributes	Format/Constrains	examle values (to replace)

alias	text	study_sc_01
status	Label/Values allowed "add, added, modify, modified, cancel, cancelled, release, released"	add
accession	text	if exist
title	text	Sequencing of yeast in heat stress conditions
study_type	Label/Values allowed "Whole Genome Sequencing,Metagenomics,Transcriptome Analysis,Resequencing,Epigenetics,Synthetic Genomics,Forensic or Paleo-genomics,Gene Regulation Study,Cancer Genomics,Population Genomics, RNASeq,Exome Sequencing,Pooled Clone Sequencing,Transcriptome Sequencing,Other"	Whole Genome Sequencing
study_abstract	text	Genome sequences are investigated in yeast submitted to heat stress
pubmed_id	web link	26978244
submission_date	date	45051

ENA Experiment(Assay) attributes	Format/Constrains	examle values (to replace)

alias		experiment_01
status	Controlled vocabulary/ Values allowed "add, added, modify, modified, cancel, cancelled, release, released"	add
accession	text
title	text	WGS of yeast samples from heat stress treatments
study_alias	text	study_sc_01
sample_alias	text	yeast_wgs_01
design_description	text	Description of the design of the experiment
library_name	text	wgs_library_1
library_strategy	Controlled vocabulary/ Values allowed "Hi-C,ATAC-seq,WCS,RAD-Seq,CLONE,POOLCLONE,AMPLICON,CLONEEND,FINISHING,ChIP-Seq,MNase-Seq,DNase-Hypersensitivity,Bisulfite-Seq,CTS,MRE-Seq,MeDIP-Seq,MBD-Seq,Tn-Seq,VALIDATION,FAIRE-seq,SELEX,RIP-Seq, ChIA-PET,Synthetic-Long-Read,Targeted-Capture,Tethered Chromatin Conformation Capture,OTHER,NOMe-Seq,ChM-Seq,GBS"	WGS
library_source	Controlled vocabulary/ Values allowed " GENOMIC,GENOMIC SINGLE CELL,TRANSCRIPTOMIC,TRANSCRIPTOMIC SINGLE CELL,METAGENOMIC,METATRANSCRIPTOMIC,SYNTHETIC,VIRAL RNA,OTHER"	GENOMIC
library_selection	Controlled vocabulary/ Values allowed "RANDOM,PCR,RANDOM PCR,RT-PCR,HMPR,MF,repeat fractionation,size fractionation,MSLL,cDNA,cDNA_randomPriming,cDNA_oligo_dT,PolyA,Oligo-dT,Inverse rRNA, Inverse rRNA selection,ChIP,ChIP-Seq,MNase,DNase,Hybrid Selection,Reduced Representation,Restriction Digest,5-methylcytidine antibody,MBD2 protein methyl-CpG binding domain, CAGE,RACE,MDA,padlock probes capture method,other,unspecified"	other
library_layout	Controlled vocabulary/ Values allowed "single, paired"	single
insert_size	text
library_construction_protocol	text	Description of the protocol for the library
platform	Controlled vocabulary/ Values allowed " LS454,ILLUMINA,HELICOS,ABI_SOLID,COMPLETE_GENOMICS,BGISEQ,OXFORD_NANOPORE,PACBIO_SMRT,ION_TORRENT,CAPILLARY,DNBSEQ"	ILLUMINA
instrument_model	Controlled vocabulary/ Values allowed "454 GS, 454 GS 20,454 GS FLX,454 GS FLX Titanium,454 GS FLX+,454 GS Junior,AB 310 Genetic Analyzer,AB 3130 Genetic Analyzer,AB 3130xL Genetic Analyzer, AB 3500 Genetic Analyzer, AB 3500xL Genetic Analyzer,AB 3730 Genetic Analyzer, AB 3730xL Genetic Analyzer,AB 5500 Genetic Analyzer,AB 5500xl Genetic Analyzer,AB 5500xl-W Genetic Analysis System, AB SOLiD 3 Plus System, AB SOLiD 4 System,AB SOLiD 4hq System, AB SOLiD PI System,AB SOLiD System,AB SOLiD System 2.0, AB SOLiD System 3.0, BGISEQ-500, Complete Genomics, DNBSEQ-G400, DNBSEQ-G400 FAST,DNBSEQ-G50,DNBSEQ-T7, GridION,Helicos HeliScope,HiSeq X Five, HiSeq X Ten,Illumina Genome Analyzer,Illumina Genome Analyzer II,Illumina Genome Analyzer IIx, Illumina HiScanSQ,Illumina HiSeq 1000, Illumina HiSeq 1500,Illumina HiSeq 2000,Illumina HiSeq 2500,Illumina HiSeq 3000,Illumina HiSeq 4000,Illumina iSeq 100,Illumina MiniSeq,Illumina MiSeq, Illumina NovaSeq 6000,Ion Torrent PGM,Ion Torrent Proton,Ion Torrent S5,Ion Torrent S5 XL,MinION,NextSeq 500,NextSeq 550,PacBio RS,PacBio RS II,PromethION,Sequel,Sequel II,unspecified"	Illumina HiSeq 4000
submission_date	Date	2023-05-05T0:0:0+0000

Run attributes ENA	Format/Constrains	examle values (to replace)

alias	text	any text
status	Controlled vocabulary/ Values allowed "add, added, modify, modified, cancel, cancelled, release, released"	add
accession	text	if exist
experiment_alias	text	experiment_02
file_name	text	file2_r1.gz
file_format	Controlled vocabulary/ Values allowed " bam,completegenomics_native,cram,fastq,oxfordnanopore_native,pacbio_hdf5,sff"	fastq
file_checksum	text	any text
submission_date	date	2023-05-05T0:0:0+0000

Sample attribute ENA	Format/Constrains	examle values (to replace)
alias	text	yeast_wgs_02
status	Controlled vocabulary/ Values allowed "add, added, modify, modified, cancel, cancelled, release, released"	add
accession	text
title	text	Yeast under heat stress
scientific_name	text
taxon_id	NCBI ID	4932
sample_description	text	Samples were cultured and isolated in laboratory conditions
cell_type	text
dev_stage	text
germline	text
tissue_lib	text
tissue_type	text
collection_date	text	2022-12-12T0:0:0+0000
isolation_source	text
lat_lon	text
collected_by	text
geographic location (country and/or sea)	text
geographic location (region and locality)	text
identified_by	text
environmental_sample	Controlled vocabulary/ Values allowed "yes, no"
mating_type	text
sex	text
lab_host	text
host scientific name	text
bio_material	text
culture_collection	text
specimen_voucher	text
cultivar	text
ecotype	text
isolate	text
sub_species	text
variety	text
sub_strain	text
cell_line	text
serotype	text
serovar	text
strain	text
submission_date	date	2022-12-12T0:0:0+0000