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
141 IMSM_100449 HCW_S Homo sapiens | 9606 Feces N/A Healthy NA 21 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)
11 IME_100277 HBD_S / IMSM_100439 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
12 IME_100278 HBC_S / IMSM_100438 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
13 IME_100279 HBB_S / IMSM_100437 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
14 IME_100280 HBA_S / IMSM_100436 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
15 IME_100281 HAZ_S / IMSM_100435 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
16 IME_100282 HAX_S / IMSM_100434 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
17 IME_100283 HAV_S / IMSM_100433 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
18 IME_100284 HF_S / IMSM_100432 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
19 IME_100285 HE_S / IMSM_100431 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
20 IME_100286 HD_S / IMSM_100430 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
41 IMR_100906 IME_100307 SAMN07448997.CDF
42 IMR_100907 IME_100308 SAMN07448996.CDF
43 IMR_100908 IME_100309 SAMN07448995.CDF
44 IMR_100909 IME_100310 SAMN07448994.CDF
45 IMR_100910 IME_100311 SAMN07448993.CDF
46 IMR_100911 IME_100312 SAMN07448992.CDF
47 IMR_100912 IME_100313 SAMN07448991.CDF
48 IMR_100913 IME_100314 SAMN07448990.CDF
49 IMR_100914 IME_100315 SAMN07448989.CDF
50 IMR_100915 IME_100316 SAMN07449077.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