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)
41 IME_100307 HCT / IMSM_100409 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
42 IME_100308 HCS / IMSM_100408 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
43 IME_100309 HCR / IMSM_100407 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
44 IME_100310 HCQ / IMSM_100406 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
45 IME_100311 HCP / IMSM_100405 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
46 IME_100312 HCO / IMSM_100404 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
47 IME_100313 HCN / IMSM_100403 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
48 IME_100314 HCM / IMSM_100402 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
49 IME_100315 HCL / IMSM_100401 GCMS (Gas Chromatography -Mass Spectrometry) Agilent 5975C Single quadrupole Electron Ionization - EI Positive N/A
50 IME_100316 HDF / IMSM_100400 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
131 IMR_100996 IME_100397 SAMN07448978.CDF
132 IMR_100997 IME_100398 SAMN07448977.CDF
133 IMR_100998 IME_100399 SAMN07448976.CDF
134 IMR_100999 IME_100400 SAMN07448975.CDF
135 IMR_101000 IME_100401 SAMN07448974.CDF
136 IMR_101001 IME_100402 SAMN07448973.CDF
137 IMR_101002 IME_100403 SAMN07448972.CDF
138 IMR_101003 IME_100404 SAMN07448971.CDF
139 IMR_101004 IME_100405 SAMN07448970.CDF
140 IMR_101005 IME_100406 SAMN07448969.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