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Metadata sheet per SampleDescriptionExampleYour sample details
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All fields marked with * are mandatory. Enter your details in column E.
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Example values for each field is provided in column D for aid with filling the sheet.
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Make edits only in column E. Do not change the field names.
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Enter information and contact details of the lab, PI and submitter in submission information fields.
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Submission InfoPlatform*Sequencing platform
Illumina NovaSeqX 10B XP flowcell PairedEnd 150
PromethION FLO-PRO114M
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Project ID*
Unique ID associated to all the samples of this submission
Smith_rRNAPelizzola Total dRNA
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Submission date*Date when sequencing data were upload2/18/202603/15/2026
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Submission author*Person doing the submissionChristoph Dieterich / Michael JantschValeria Famà
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Submission author email*Email from person doing the submissionchristoph.dieterich@uni-heidelberg.devaleria.fama@iit.it
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Laboratory head/PI*PI's last nameDieterich / JantschPelizzola
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Contact email*PI's email or other contact emailchristoph.dieterich@uni-heidelberg.de; Michael.Jantsch@meduniwien.ac.atmattia.pelizzola@iit.it
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Sample RNASample name*
Unique sample name associated to your submission
Total_dRNA
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Sample type*RNA biotyperibo minus RNATotal RNA
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Sample description*Description of the sample being processedTotal RNA, NEB rRNA depletion kitUnprocessed
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RIN value*
RIN value of sample prior to starting library prep
9.2
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Replicate information*Replicate number (total number of replicates)Rep1 Rep1
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Enter information related to library and library preparation method.
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Library preparation
Library preparation protocol version*
NEB library preparation protocol version used
NEBNext 96 Unique Dual Index Primer Pairs UMI cat E787
RNA004 protocol
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Variations to the protocolAny variations that are not described
in the protocol version mentioned above		Maxima RT enzyme instead of SSIVNone
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Device used to measure RIN*Device used to obtain RIN valueTape station RNA high sensitivity kit
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RNA input*Input amount used to start the library300ng1037 ng
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Kit name*Library prep kitSQK-RNA004
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Multiplexing*Was your run multiplexed? (yes/no)YesNo
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Multiplexing barcodeBarcode and model used for demultiplexing
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Barcode sequence (if not standard RLA)
If any additional adapters /multiplexing adapters were used
NA
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Library mass loaded*
Amount of library loaded (based on cDNA measurement)
53 ng
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Enter information related to the sequencing instrument and read statistics.
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Sequencing SettingsSequencing run ID*Your unique runID used in MinKNOW configecd3e943-73a2-410d-be33-765c62951fae
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Instrument type*Device used for sequencing PromethION
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Flow cell type*MinION/PromethION flowcell typeFLO-MIN106DFLO-PRO004RA
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Flow cell ID*Unique flowcell IDFAK23441PBK15249
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Flowcell re-use*
Had this flowcell been previously used for another run? (yes/no)
YesNo
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Available pores at start of sequencing*
Number of pores available at start 15009013
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Sequencing script used
If any variations to MinKNOW config.toml were used
Default
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MinKNOW version*MinKNOW software version25.6.825.05.14
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Date sequenced*Sequencing start date9/24/202502/16/2026
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Sequencing run timeTime for which the sample was sequenced72h72h
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Sequencing outputNumber of raw reads of the run*Number of sequenced reads of the run100000012.85M
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Number of demuxed reads of the run*
Number of demuxed reads (for all samples in the flowcell)
990000
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Number of demuxed reads of YOUR SAMPLE*
Number of demuxed reads corresponding to THIS SAMPLE
250000
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Number of basecalled reads of YOUR SAMPLE*
Number of basecalled reads (if multiplexed, only specify basecalled
reads of your sample, not of the total run)		249000
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Median Q score*Q score of the sequencing run14.2NA
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N50*N50 value provided by MinKNOW15001.57kb
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Data analysisBasecalling software*Software used for basecallingDoradoDorado
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Basecalling software version*Version of the basecalling software5.1.01.3.2
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Basecalling software parameters*Parameters used during basecalling step-r --emit-moves --modified-bases-models --estimate-poly-a
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Demultiplexing software Software used for demultiplexiingNA
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Demultiplexing software versionVersion of the demultiplexing softwareNA
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Demultiplexing software parameters
Parameters used during demuxing stepNA
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Demultiplexing modelModel used for demuxingNA
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Mapping software*Software used for mappingDorado aligner
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Mapping software version*Version of the mapping softwaresee Dorado version
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Mapping software parameters*Parameters used during mapping step--mm2-opts "-x map-ont"
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Modification data analysis
Modification-aware model (yes/no)*
Please write YES/NO if modification-aware model was used
yes
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Dorado Modification-aware model - specify
Using the nomenclature from ONT doradorna004_130bps_sup@v5.2.0
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If other methods were used for predicting
modifications, please specify software and version
Custom software names used to detect modifications
NA
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If other modifications were predicted using
non-ONT dorado models, specify which ones		Please write the modificationsInosineNA
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Enter information about the file name and md5sum of the uploaded files.
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If more files are to be uploaded, add rows below.
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FileRaw data file name*
File name containing the raw reads in POD5 format
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Raw data MD5sum*Unique md5sum for your data to ensure that
the data upload/download is complete
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Basecalled data file name*
File name containing the basecalled reads in FASTQ.GZ format
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Basecalled data MD5sum*Unique md5sum for your data to ensure that
the data upload/download is complete
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Mapped data file name*
File name containing the mapped reads in BAM format
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Mapped data MD5sum*Unique md5sum for your data to ensure that
the data upload/download is complete
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Predicted modifications and stoichiometries*
File name containing the predicted modified sites and
stoichiometries in BEDMETHYL format, please specify the MOD TYPE in the NAME
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Predicted modifications md5sum*Unique md5sum for your data to ensure that
the data upload/download is complete
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