Cell-free DNA Fragmentomics and Second Malignant Neoplasm Risk in Patients with PTEN Hamartoma Tumor Syndrome
Authors/Creators
- 1. 0000-0002-6703-1843
- 2. 0000-0002-6389-3059
- 3. 0000-0002-5027-1277
- 4. 0000-0002-0338-5239
- 5. 0000-0002-3693-5145
Description
Supplementary dataset for manuscript:
Cell-free DNA Fragmentomics and Second Malignant Neoplasm Risk in Patients with PTEN Hamartoma Tumor Syndrome
Affiliations:
1Genomic Medicine Institute, Lerner Research Institute, Cleveland Clinic, Cleveland, OH 44195, USA
2Cleveland Clinic Lerner College of Medicine of Case Western Reserve University, Cleveland, OH 44195, USA
3Rose Ella Burkhardt Brain Tumor and Neuro-Oncology Center, Cleveland Clinic, Cleveland, OH 44195, USA
4Center for Personalized Genetic Healthcare, Medical Specialties Institute, Cleveland Clinic, Cleveland, OH 44195, USA
5Center for Immunotherapy and Precision Immuno-oncology, Cleveland Clinic, Cleveland, OH 44195, USA
6Taussig Cancer Institute, Cleveland Clinic, Cleveland, OH 44195, USA
7Department of Genetics and Genome Sciences, Case Western Reserve University School of Medicine, Cleveland, OH 44106, USA
8Germline High Risk Cancer Focus Group, Case Comprehensive Cancer Center, Case Western Reserve University, Cleveland, OH 44106, USA
Correspondence:
Darren Liu, MD, MS (https://orcid.org/0000-0002-3693-5145)
Cleveland Clinic Genomic Medicine Institute
9500 Euclid Avenue, Cleveland, OH 44195, USA
E-mail: liud5@ccf.org
Notes
Note: In previous versions of this respository, the file "cfxphts_fragfiles.tar" contained processed/filtered BED files generated from step 3 (03-filter-frags_gc.sh), rather than the intended output of step 2 (02-bamtobed.sh). This has been corrected in the current version, which now contains the appropriate BEDPE-formatted fragment files.
This approach was done because majority of patients in our study did not consent to publicly share their raw genomic data. Thus, we provided de-identified fragment files to enable reproducibility while respeecting participant privacy. We apologize for any confusion or inconvience this may have caused.
Files
phtscfx_meta.csv
Files
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Additional details
Related works
- Is described by
- Journal article: 10.1016/j.xpro.2024.103357 (DOI)
- Is supplement to
- Journal article: 10.1016/j.xcrm.2023.101384 (DOI)