{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Yu Chen"],"organism":["mixed sample"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-15179"],"description":["Metagenome sequencing  All specimens were collected and immediately stored in a -80 freezer. All BALF  samples were subjected to MS. DNA was extracted from BALF using the TIANamp  Micro DNA kit (DP316, Tiangen Biotech). DNA libraries were constructed with the  end-repair method and then sequenced on the BGI Sequencer platform (BGI Genomics,  Shenzhen, China).  Bioinformatic pipeline analysis  Low-quality and short (<35 bp) reads were removed from raw data using fastp  [10]. Remaining reads were mapped to the human reference genome (hg19) using the  Burrows-Wheeler method to remove sequences of human origin. Filtered reads were  classified with RefSeq, downloaded from NCBI (ftp://ftp.ncbi.nlm.nih.gov/genomes/)."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Sample Collection - Bronchoalveolar lavage fluid (BALF) was collected and stored at -80°C","Sequencing - Low-quality and short (<35 bp) reads were removed from raw data using fastp","Nucleic Acid Extraction - DNA was extracted from BALF using the TIANamp  Micro DNA kit (DP316, Tiangen Biotech).","Library Construction - DNA libraries were constructed with the  end-repair method and then sequenced on the BGI Sequencer platform (BGI Genomics,  Shenzhen, China)"],"figure_sub":["Organization","MINSEQE Score","Assays and Data","Processed Data","MAGE-TAB Files"],"data_protocol":["Data Transformation - All specimens were collected and immediately stored in a -80 freezer. All BALF  samples were subjected to MS. DNA was extracted from BALF using the TIANamp  Micro DNA kit (DP316, Tiangen Biotech). DNA libraries were constructed with the  end-repair method and then sequenced on the BGI Sequencer platform (BGI Genomics,  Shenzhen, China).  Bioinformatic pipeline analysis  Low-quality and short (<35 bp) reads were removed from raw data using fastp  [10]. Remaining reads were mapped to the human reference genome (hg19) using the  Burrows-Wheeler method to remove sequences of human origin. Filtered reads were  classified with RefSeq, downloaded from NCBI (ftp://ftp.ncbi.nlm.nih.gov/genomes/)."],"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["BGISEQ-500"],"study_type":["DNA-seq"],"species":["mixed sample"],"pubmed_authors":["Yu Chen"],"additional_accession":[]},"is_claimable":false,"name":"Four groups of distinct lung microbiota in pulmonary diseases","description":"Metagenome sequencing  All specimens were collected and immediately stored in a -80 freezer. All BALF  samples were subjected to MS. DNA was extracted from BALF using the TIANamp  Micro DNA kit (DP316, Tiangen Biotech). DNA libraries were constructed with the  end-repair method and then sequenced on the BGI Sequencer platform (BGI Genomics,  Shenzhen, China).  Bioinformatic pipeline analysis  Low-quality and short (<35 bp) reads were removed from raw data using fastp  [10]. Remaining reads were mapped to the human reference genome (hg19) using the  Burrows-Wheeler method to remove sequences of human origin. Filtered reads were  classified with RefSeq, downloaded from NCBI (ftp://ftp.ncbi.nlm.nih.gov/genomes/).","dates":{"release":"2026-06-30T00:00:00Z","modification":"2026-06-30T01:00:55.03Z","creation":"2025-05-29T10:54:16.185Z"},"accession":"E-MTAB-15179","cross_references":{"ENA":["ERP173003"],"EFO":["EFO_0002944","EFO_0004170","EFO_0002693","EFO_0005518","EFO_0003816","EFO_0004184"]}}