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On this page, we begin by defining the difference between raw data and results. Then, and then we provide a quick reference reference table for different types of data that you might be sharing, followed by a breakdown of the information that we require when uploading your data.
Raw data vs. results
From a reusability perspective, data is the most useful to future users. Both results and data can be shared, but data is more important for reproducibility and reuse.
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Assay | Preferred file formats |
RNA-seq | .fastq.gz, .bam, .cram |
microarray | platform dependent (e.g. .cel, .idat) |
whole-genome sequencing | .fastq.gz, .bam, .cram |
whole-exome sequencing | .fastq.gz, .bam, .cram (.vcf, .maf acceptable with justification) |
methylation data | Platform dependent: .idat for Illumina arrays, .fastq.gz for sequencing |
western blotting | Individual images or final figure (e.g. samp1.png or samp1.tif) |
microscopy | Microscope’s native imaging format (e.g. nd2, abi), OME-TIFF, lossless image files (e.g. .tif, .png) separated by channel |
In vitro drug screening data | A .csv/.tsv file following this template (see instructions) |
In vivo tumor growth experiments | A .csv/.tsv file following this template (see instructions) |
PK/PD data | .csv/.tsv file - no template exists |
proteomics | platform dependent |
Data upload requirements
To share your data on the NF Data Portal, we require the following information:
For individual files:
Annotations as defined in the manifest. Only files annotated with the resourceType marked as experimentalData are visible in the portal.
For any multi-file datasets:
Dataset Name: <100 characters
Summary: <1000 characters summarizing the dataset
Dataset ID: synapse ID of the dataset
Files: number of files in the dataset
Size: size of the dataset in bytes
Disease Focus: NF1, NF2 or Schwannomatosis
Manifestation: disease manifestation(s) under study - for example, the type of tumor
Funding Agency: Funding organization for the dataset
Study Name: <100 characters - same as the study name
For any publications or preprints that are linked to this study:
Pubmed ID:
DOI (if available):
Disease Focus: NF1, NF2 or Schwannomatosis
Manifestation: disease manifestation(s) under study - for example, the type of tumor
Funding Agency: Funding organization for the publication
For your study:
Note: these are already listed on the portal—please provide the following information if you’d like to modify what is already on the portal
Study Name: <100 characters
Study Status: "Active" or "Completed"
Data Status: "None," "Under Embargo," "Partially Released," or "Published"
Funding Agency: Funding organization for the study
Summary: <1000 characters summarizing the study
Study Leads: PIs and/or key personnel for the study
Institutions: institution(s) at which the work was done
Manifestation: disease manifestation(s) under study - for example, the type of tumor
Disease Focus: NF1, NF2 or Schwannomatosis
Please send this information to nf-osi@sagebionetworks.org