دورية أكاديمية
A compilation of fecal microbiome shotgun metagenomics from hematopoietic cell transplantation patients.
العنوان: | A compilation of fecal microbiome shotgun metagenomics from hematopoietic cell transplantation patients. |
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المؤلفون: | Yan J; Program for Computational and Systems Biology, Memorial Sloan-Kettering Cancer Center, New York, NY, USA. yanj2@mskcc.org., Liao C; Program for Computational and Systems Biology, Memorial Sloan-Kettering Cancer Center, New York, NY, USA., Taylor BP; Center for Communicable Disease Dynamics, Department of Epidemiology, Harvard T.H. Chan School of Public Health, Boston, MA, USA., Fontana E; Infectious Disease Service, Department of Medicine, and Immunology Program, Sloan Kettering Institute, New York, NY, USA., Amoretti LA; Infectious Disease Service, Department of Medicine, and Immunology Program, Sloan Kettering Institute, New York, NY, USA., Wright RJ; Infectious Disease Service, Department of Medicine, and Immunology Program, Sloan Kettering Institute, New York, NY, USA., Littmann ER; Duchossois Family Institute, University of Chicago, Chicago, IL, USA., Dai A; Adult Bone Marrow Transplantation Service, Department of Medicine, Memorial Sloan Kettering Cancer Center, New York, NY, USA., Waters N; Adult Bone Marrow Transplantation Service, Department of Medicine, Memorial Sloan Kettering Cancer Center, New York, NY, USA., Peled JU; Adult Bone Marrow Transplantation Service, Department of Medicine, Memorial Sloan Kettering Cancer Center, New York, NY, USA.; Weill Cornell Medical College, New York, NY, USA., Taur Y; Infectious Disease Service, Department of Medicine, and Immunology Program, Sloan Kettering Institute, New York, NY, USA., Perales MA; Adult Bone Marrow Transplantation Service, Department of Medicine, Memorial Sloan Kettering Cancer Center, New York, NY, USA.; Weill Cornell Medical College, New York, NY, USA., Siranosian BA; Department of Genetics, Stanford University, Stanford, CA, USA., Bhatt AS; Department of Genetics, Stanford University, Stanford, CA, USA.; Department of Medicine, Division of Hematology, Stanford University, Stanford, CA, USA.; Department of Medicine, Division of Blood and Marrow Transplantation and Cellular Therapy, Stanford University School of Medicine, Stanford, CA, USA., van den Brink MRM; Adult Bone Marrow Transplantation Service, Department of Medicine, Memorial Sloan Kettering Cancer Center, New York, NY, USA.; Weill Cornell Medical College, New York, NY, USA., Pamer EG; Duchossois Family Institute, University of Chicago, Chicago, IL, USA., Schluter J; Institute for Computational Medicine, Department of Microbiology, New York University, New York, NY, USA., Xavier JB; Program for Computational and Systems Biology, Memorial Sloan-Kettering Cancer Center, New York, NY, USA. xavierj@mskcc.org. |
المصدر: | Scientific data [Sci Data] 2022 May 18; Vol. 9 (1), pp. 219. Date of Electronic Publication: 2022 May 18. |
نوع المنشور: | Dataset; Journal Article |
اللغة: | English |
بيانات الدورية: | Publisher: Nature Publishing Group Country of Publication: England NLM ID: 101640192 Publication Model: Electronic Cited Medium: Internet ISSN: 2052-4463 (Electronic) Linking ISSN: 20524463 NLM ISO Abbreviation: Sci Data Subsets: MEDLINE |
أسماء مطبوعة: | Original Publication: London : Nature Publishing Group, 2014- |
مواضيع طبية MeSH: | Feces*/microbiology , Hematopoietic Stem Cell Transplantation* , Microbiota*/genetics, Humans ; Metagenomics ; RNA, Ribosomal, 16S/genetics |
مستخلص: | Hospitalized patients receiving hematopoietic cell transplants provide a unique opportunity to study the human gut microbiome. We previously compiled a large-scale longitudinal dataset of fecal microbiota and associated metadata, but we had limited that analysis to taxonomic composition of bacteria from 16S rRNA gene sequencing. Here we augment those data with shotgun metagenomics. The compilation amounts to a nested subset of 395 samples compiled from different studies at Memorial Sloan Kettering. Shotgun metagenomics describes the microbiome at the functional level, particularly in antimicrobial resistances and virulence factors. We provide accession numbers that link each sample to the paired-end sequencing files deposited in a public repository, which can be directly accessed by the online services of PATRIC to be analyzed without the users having to download or transfer the files. Then, we show how shotgun sequencing enables the assembly of genomes from metagenomic data. The new data, combined with the metadata published previously, enables new functional studies of the microbiomes of patients with cancer receiving bone marrow transplantation. (© 2022. The Author(s).) |
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معلومات مُعتمدة: | U01 AI124275 United States AI NIAID NIH HHS; P30 CA008748 United States CA NCI NIH HHS; R56 AI137269 United States AI NIAID NIH HHS; K08 HL143189 United States HL NHLBI NIH HHS; R01 AI137269 United States AI NIAID NIH HHS |
المشرفين على المادة: | 0 (RNA, Ribosomal, 16S) |
تواريخ الأحداث: | Date Created: 20220518 Date Completed: 20220520 Latest Revision: 20240514 |
رمز التحديث: | 20240514 |
مُعرف محوري في PubMed: | PMC9117330 |
DOI: | 10.1038/s41597-022-01302-9 |
PMID: | 35585088 |
قاعدة البيانات: | MEDLINE |
تدمد: | 2052-4463 |
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DOI: | 10.1038/s41597-022-01302-9 |