Study Data


MS Study

Project uploaded by: Vineet K.
Project ID: IMP_100008
Title: The unique composition of Indian gut microbiome, gene catalogue and associated faecal metabolome deciphered using multi-omics approaches
Project Description: Metagenomic studies carried out in the past decade have led to an enhanced understanding of the gut microbiome in human health, however, the Indian gut microbiome is not well explored yet. We analysed the gut microbiome of 110 healthy individuals from two distinct locations (North-Central and Southern) in India using multi-omics approaches, including 16S rRNA gene amplicon sequencing, whole genome shotgun metagenomic sequencing, and metabolomic profiling of faecal and serum samples.
Research Area: Biological Sciences
Funding Source: Intramural funds from IISER Bhopal
Project Contributors: Darshan B. Dhakan, Abhijit Maji, Rituja Saxena, Vineet K. Sharma

Study uploaded by: Vineet K.
Study ID: IMS_100008
Title: The unique composition of Indian gut microbiome, gene catalogue and associated faecal metabolome deciphered using multi-omics approaches
Summary: Metagenomic studies carried out in the past decade have led to an enhanced understanding of the gut microbiome in human health, however, the Indian gut microbiome is not well explored yet. We analysed the gut microbiome of 110 healthy individuals from two distinct locations (North-Central and Southern) in India using multi-omics approaches, including 16S rRNA gene amplicon sequencing, whole genome shotgun metagenomic sequencing, and metabolomic profiling of faecal and serum samples.
Publication: https://doi.org/10.1093/gigascience/giz004
Release Date: May 14, 2024
Study Type: Mass Spectrometry (MS)
Data Type: Untargeted
IEC/IBSC Approval Number :

Sr.No Sample ID Sample Name Organism Source Sample Preparation Protocol Sample Type Experimental Condition Time of treatment Variant/Variety Gender Age Replicates Storage Conditions Extraction Protocol Number of files per sample
41 IMSM_100349 HZ Homo sapiens | 9606 Feces N/A Healthy NA 29 NA NA

NA
42 IMSM_100350 C10 Homo sapiens | 9606 Feces N/A Healthy NA 7 NA NA

NA
43 IMSM_100351 C13 Homo sapiens | 9606 Feces N/A Healthy NA 11 NA NA

NA
44 IMSM_100352 C14 Homo sapiens | 9606 Feces N/A Healthy NA 12 NA NA

NA
45 IMSM_100353 C15 Homo sapiens | 9606 Feces N/A Healthy NA 11 NA NA

NA
46 IMSM_100354 C16 Homo sapiens | 9606 Feces N/A Healthy NA 16 NA NA

NA
47 IMSM_100355 C18 Homo sapiens | 9606 Feces N/A Healthy NA 10 NA NA

NA
48 IMSM_100356 C19 Homo sapiens | 9606 Feces N/A Healthy NA 9 NA NA

NA
49 IMSM_100357 C2 Homo sapiens | 9606 Feces N/A Healthy NA 12 NA NA

NA
50 IMSM_100358 C3 Homo sapiens | 9606 Feces N/A Healthy NA 12 NA NA

NA

Sr.No MS Exp ID Sample Name/ID Mass Spectrometer Type MS Instrument Name MS Instrument type MS Ionization Method Ion Mode/Scan Polarity Data Transformation (Software/s Used)
61 IME_100327 HCH / IMSM_100389 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
62 IME_100328 HCF / IMSM_100388 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
63 IME_100329 HCD / IMSM_100387 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
64 IME_100330 HBZ / IMSM_100386 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
65 IME_100331 HBY / IMSM_100385 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
66 IME_100332 HBW / IMSM_100384 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
67 IME_100333 HBV / IMSM_100383 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
68 IME_100334 HBR / IMSM_100382 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
69 IME_100335 HBM / IMSM_100381 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
70 IME_100336 HBL / IMSM_100380 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A

Sr.No First name Last name Email Organization Designation
1 Vineet K. Sharma vineetks@iiserb.ac.in Indian Institute of Science Education and Research, Bhopal principal_investigator
2 Rituja Saxena ritujaritu@gmail.com Indian Institute of Science Education and Research, Bhopal research_scholar
3 Abhijit Maji abhi71084@gmail.com Indian Institute of Science Education and Research, Bhopal postdoctoral_researcher
4 Darshan B. Dhakan dardhakkan@gmail.com Indian Institute of Science Education and Research, Bhopal research_scholar

Sr.No ftprun ID MS Exp ID MS Data Files
71 IMR_100936 IME_100337 SAMN07449054.CDF
72 IMR_100937 IME_100338 SAMN07449053.CDF
73 IMR_100938 IME_100339 SAMN07449052.CDF
74 IMR_100939 IME_100340 SAMN07449051.CDF
75 IMR_100940 IME_100341 SAMN07449050.CDF
76 IMR_100941 IME_100342 SAMN07449049.CDF
77 IMR_100942 IME_100343 SAMN07449048.CDF
78 IMR_100943 IME_100344 SAMN07449047.CDF
79 IMR_100944 IME_100345 SAMN07449046.CDF
80 IMR_100945 IME_100346 SAMN07449045.CDF

Download Metabolite/Compound

Sr.No Structure Details
1 Molecular Structure

Glycine

CHEBI ID: CHEBI:15428

PubChem ID: 750

Chemical Formula: C2H5NO2

Smiles: NCC(O)=O

InChI: InChI=1S/C2H5NO2/c3-1-2(4)5/h1,3H2,(H,4,5)

Mass to charge: 174.1

Retention Time: 536
2 Molecular Structure

Mannose

CHEBI ID: CHEBI:37684

PubChem ID: 18950

Chemical Formula: C6H12O6

Smiles: C([C@@H]1[C@H]([C@@H]([C@@H](C(O1)O)O)O)O)O

InChI: InChI=1S/C6H12O6/c7-1-2-3(8)4(9)5(10)6(11)12-2/h2-11H,1H2/t2-,3-,4+,5+,6?/m1/s1

Mass to charge: 173.0

Retention Time: 976
3 Molecular Structure

Glucose

CHEBI ID: CHEBI:17234

PubChem ID: 5793

Chemical Formula: C6H12O6

Smiles: C([C@@H]1[C@H]([C@@H]([C@H](C(O1)O)O)O)O)O

InChI: InChI=1S/C6H12O6/c7-1-2-3(8)4(9)5(10)6(11)12-2/h2-11H,1H2/t2-,3-,4+,5-,6?/m1/s1

Mass to charge: 173.0

Retention Time: 976
4 Molecular Structure

Palmitic acid

CHEBI ID: CHEBI:15756

PubChem ID: 985

Chemical Formula: C16H32O2

Smiles: CCCCCCCCCCCCCCCC(O)=O

InChI: InChI=1S/C16H32O2/c1-2-3-4-5-6-7-8-9-10-11-12-13-14-15-16(17)18/h2-15H2,1H3,(H,17,18)

Mass to charge: 313.2

Retention Time: 1045
5 Molecular Structure

Stearic acid

CHEBI ID: CHEBI:28842

PubChem ID: 5281

Chemical Formula: C18H36O2

Smiles: C(CCCCCCCCCC)CCCCCCC(=O)O

InChI: InChI=1S/C18H36O2/c1-2-3-4-5-6-7-8-9-10-11-12-13-14-15-16-17-18(19)20/h2-17H2,1H3,(H,19,20)

Mass to charge: 117.0

Retention Time: 1155
6 Molecular Structure

Valeric acid

CHEBI ID: CHEBI:17418

PubChem ID: 10449

Chemical Formula: C5H10O2

Smiles: CCCCC(O)=O

InChI: InChI=1S/C5H10O2/c1-2-3-4-5(6)7/h2-4H2,1H3,(H,6,7)

Mass to charge: 159.1

Retention Time: 268
7 Molecular Structure

beta-Hydroxy butyric acid

CHEBI ID: CHEBI:20067

PubChem ID: 441

Chemical Formula: C4H8O3

Smiles: CC(O)CC(O)=O

InChI: InChI=1S/C4H8O3/c1-3(5)2-4(6)7/h3,5H,2H2,1H3,(H,6,7)

Mass to charge: 117.1

Retention Time: 328
8 Molecular Structure

Alanine

CHEBI ID: CHEBI:16449

PubChem ID: 5950

Chemical Formula: C3H7NO2

Smiles: CC(N)C(O)=O

InChI: InChI=1S/C3H7NO2/c1-2(4)3(5)6/h2H,4H2,1H3,(H,5,6)

Mass to charge: 101.8

Retention Time: 363
9 Molecular Structure

Valine

CHEBI ID: CHEBI:27266

PubChem ID: 6287

Chemical Formula: C5H11NO2

Smiles: CC(C)C(N)C(O)=O

InChI: InChI=1S/C5H11NO2/c1-3(2)4(6)5(7)8/h3-4H,6H2,1-2H3,(H,7,8)

Mass to charge: 144.1

Retention Time: 458
10 Molecular Structure

L-Leucine

CHEBI ID: CHEBI:15603

PubChem ID: 6106

Chemical Formula: C6H13NO2

Smiles: CC(C)C[C@H](N)C(O)=O

InChI: InChI=1S/C6H13NO2/c1-4(2)3-5(7)6(8)9/h4-5H,3,7H2,1-2H3,(H,8,9)/t5-/m0/s1

Mass to charge: 159.1

Retention Time: 505
11 Molecular Structure

L-isoleucine

CHEBI ID: CHEBI:17191

PubChem ID: 6306

Chemical Formula: C6H13NO2

Smiles: CC[C@H](C)[C@H](N)C(O)=O

InChI: InChI=1S/C6H13NO2/c1-3-4(2)5(7)6(8)9/h4-5H,3,7H2,1-2H3,(H,8,9)/t4-,5-/m0/s1

Mass to charge: 158.1

Retention Time: 524