Published December 7, 2020 | Version 1.0
Dataset Open

Quantitative sequencing clarifies the role of disruptor taxa, the oral microbiome, and strict anaerobes in the human small-intestine microbiome

Barlow, Jacob1 ORCID icon
Leite, Gabriela2
Romano, Anna1
Rezaie, Ali2
Mathur, Ruchi2
Pimentel, Mark2
Ismagilov, Rustem1
Rashin Sedighi2
Christine Chang2
Shreya Celly2
  • 1. ROR icon California Institute of Technology
  • 2. ROR icon Cedars-Sinai Medical Center

Description

Raw data and processing scripts for manuscript. All processing scripts are python jupyter notebooks. Unzip data file folders and keep the folder hierarchy as is or alter path locations in jupyter notebooks.

Files

Metadata_Exploration_SFig1_2_8_9_11.ipynb
Files (148.8 MB)
Name Size
Metadata_Exploration_SFig1_2_8_9_11.ipynb
md5:ddb29d040ca8dae77b7baacd6c1c413d
544.8 kB Preview Download
Disruptor_Analysis_Fig4_5_SFig5_6_7_10.ipynb
md5:fb269350f600288dbbec82429765a96e
347.1 kB Preview Download
Klebsiella_Analysis_FigS4.ipynb
md5:7e3524a21f262b25ac6b404182643a56
57.7 kB Preview Download
Metadata_Compilation.ipynb
md5:87c1914135719f8d2a6098cddf6d1a6b
20.1 kB Preview Download
Aerobe_Anaerobe_Fig4.ipynb
md5:a139bac18dfb8f23b03dc52546a94286
89.1 kB Preview Download
PCA_Analysis_Fig4_5.ipynb
md5:898322626c3aa4e3822d1851e3cea595
473.2 kB Preview Download
Alpha_diversity_Fig4.ipynb
md5:2b2ca1184316ca1e812c5c0049a4e3d2
75.7 kB Preview Download
Correlation_Analysis_Fig1_3_STable4.ipynb
md5:5ae1dc298b7168e8ed9da08d3c498bd5
1.2 MB Preview Download
SIBO_Analysis_Fig5.ipynb
md5:d08c7e05edc7a5af7099f6549246b147
50.6 kB Preview Download
Culture_v_total_load_SFig3.ipynb
md5:724339933ee22c40c1bf655ac1b4f484
87.8 kB Preview Download
Data_Processing_Duodenum.ipynb
md5:4669eabc84447c01397401ac035d30dc
278.0 kB Preview Download
Saliva_Comparisons_Fig2.ipynb
md5:671f6e270480e9d4b7bc9c5af8750a00
65.8 kB Preview Download
Data_Processing_Paired.ipynb
md5:bc1bfec04aeab3cee4b1c4d3511d5496
511.0 kB Preview Download
Saliva_SI_Transmission_Fig2.ipynb
md5:d7ba426c492e74529279ede29d119c10
122.5 kB Preview Download
dPCR data.zip
md5:6a8cd992757283ff45315a4773bc2d6d
143.2 MB Preview Download
data_files.zip
md5:b842a1427803af4809b31a6bd448ffd6
368.2 kB Preview Download
pickle_files.zip
md5:cc0e097382344e78b89ef2545c0b2ffe
1.3 MB Preview Download

Additional details

Identifiers
Created:
September 8, 2022
Modified:
November 18, 2022