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
1 IMSM_100201 HA Homo sapiens | 9606 Feces N/A Healthy NA 26 NA NA

NA
2 IMSM_100310 HAA Homo sapiens | 9606 Feces N/A Healthy NA 27 NA NA

NA
3 IMSM_100311 HAB Homo sapiens | 9606 Feces N/A Healthy NA 28 NA NA

NA
4 IMSM_100312 HAC Homo sapiens | 9606 Feces N/A Healthy NA 21 NA NA

NA
5 IMSM_100313 HAD Homo sapiens | 9606 Feces N/A Healthy NA 27 NA NA

NA
6 IMSM_100314 HAE Homo sapiens | 9606 Feces N/A Healthy NA 21 NA NA

NA
7 IMSM_100315 HAF Homo sapiens | 9606 Feces N/A Healthy NA 21 NA NA

NA
8 IMSM_100316 HAG Homo sapiens | 9606 Feces N/A Healthy NA 23 NA NA

NA
9 IMSM_100317 HAH Homo sapiens | 9606 Feces N/A Healthy NA 25 NA NA

NA
10 IMSM_100318 HAI Homo sapiens | 9606 Feces N/A Healthy NA 24 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)
31 IME_100297 HAC_S / IMSM_100419 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
32 IME_100298 HAB_S / IMSM_100418 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
33 IME_100299 HAA_S / IMSM_100417 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
34 IME_100300 HC / IMSM_100416 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
35 IME_100301 C25 / IMSM_100415 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
36 IME_100302 C24 / IMSM_100414 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
37 IME_100303 C23 / IMSM_100413 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
38 IME_100304 C22 / IMSM_100412 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
39 IME_100305 HCV / IMSM_100411 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
40 IME_100306 HCU / IMSM_100410 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
101 IMR_100966 IME_100367 SAMN07449020.CDF
102 IMR_100967 IME_100368 SAMN07449019.CDF
103 IMR_100968 IME_100369 SAMN07449018.CDF
104 IMR_100969 IME_100370 SAMN07449017.CDF
105 IMR_100970 IME_100371 SAMN07449016.CDF
106 IMR_100971 IME_100372 SAMN07449015.CDF
107 IMR_100972 IME_100373 SAMN07449014.CDF
108 IMR_100973 IME_100374 SAMN07449013.CDF
109 IMR_100974 IME_100375 SAMN07449012.CDF
110 IMR_100975 IME_100376 SAMN07449011.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