Manna Omics Solutions | From Atoms to Systems

About Us

From Molecules to Microbiomes

Manna Omics Solutions is a specialized bioinformatics and computational biology consultancy led by Dr. Bharat Manna, operating as a collaborative network of domain specialists. We integrate molecular dynamics simulations, AI/ML-assisted structural biology, and genome-resolved multi-omics analysis to address complex biological questions across scales, from atomic interactions to microbial ecosystem dynamics. Our clients include academic research groups and industry partners seeking rigorous, publication-quality computational insights.

27+ Peer-reviewed publications

450+ Citations

14 h-index

8+ International conferences

Services

What We Do

Specialized computational services spanning molecular, genomic, and systems scales, designed for research groups and industry teams who need rigorous, reproducible, and publication-ready outputs.

Molecular Dynamics Simulations

All-atom and coarse-grained MD simulations of proteins, enzymes, and complex biomolecular systems including industrial polymers. Services include conformational dynamics, free energy perturbation, substrate/inhibitor binding analysis, and structure-function characterization, integrated with AI-assisted structure prediction where applicable.

Protein Structure-Function Analysis

Computational investigation of how sequence variants, mutations, and structural perturbations affect protein function, stability, and molecular interactions. Combines homology modeling, AI-assisted structure prediction, and MD-based validation for rational protein engineering.

(Meta)genomics & Multi-Omics

Comprehensive multi-omics services including 16S/ITS amplicon profiling, whole-genome shotgun sequencing, (meta)transcriptomics, (meta)proteomics, and metabolomics. Core capabilities include genome assembly, MAG reconstruction, taxonomic and functional annotation, metabolic pathway reconstruction, and cross-omics network analysis. Data analyzed individually or integrated for systems-level biological interpretation.

Resistome & AMR Profiling

Comprehensive antimicrobial resistance gene profiling, mobile genetic element tracking, and resistome dynamics characterization across environmental, clinical, and agricultural samples. Applied within a One Health framework linking microbial ecology to public health.

Scientific Writing & Grant Support

End-to-end manuscript support, including results interpretation, statistical analysis, scientific figure preparation, and writing for peer-reviewed high-impact journals. We also assist with research grant proposal development, specific aims drafting, and computational methods sections for funding applications.

Training & Workshops

Hands-on training in bioinformatics, metagenomics analysis, R programming, and molecular simulation workflows. Designed for research groups, graduate students, and professionals from non-computational backgrounds. Available as one-day workshops or structured multi-session courses, delivered remotely or on-site.

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Technical Expertise

Our work is grounded in industry-standard and cutting-edge computational platforms, ensuring reproducibility, scalability, and methodological rigor across every project.

Molecular Simulation Suite

End-to-end MD simulation workflows, from system preparation and force field parameterization to production runs and thermodynamic analysis.

AMBERGROMACSNAMDCHARMM PackmolAutoDockCPPTRAJ VMDPyMOL

AI/ML & Structural Biology

Integrating state-of-the-art AI-driven tools for protein structure prediction, molecular design, and generative biology pipelines.

AlphaFoldESM-2RFdiffusionBoltz-2BoltzGen DiffDockREINVENT4

Genomics & Metagenomic Assembly

Genome-resolved metagenomics from raw sequencing data to binning, taxonomy, and functional annotation at population scale.

SqueezeMetaMEGAHITBowtie2breseqsnippy ProdigalDIAMONDMaxBin MetaBAT2CONCOCTCheckM GTDB-TkKraken2MetaPhlAn HUMAnNQIIME2

Multi-Omics Integration

Cross-platform integration of metaproteomics, metabolomics, and transcriptomics data for systems-level biological interpretation.

DIA-NNMetaboAnalystMS-DIAL mixOmics

Resistome & AMR Analytics

Antimicrobial resistance gene detection, mobile genetic element tracking, and horizontal gene transfer analysis across environmental and clinical datasets.

CARD-RGIAMRFinderPlusMetaCHIPResFinder

Computing & Workflow Automation

Scalable, reproducible pipelines built for HPC environments with version-controlled, documented workflows.

RPythonBash LinuxSLURM / HPCGit

Selected Publications

Recent Research Highlights

A selection from 27+ peer-reviewed publications.

Water Research (IF: 12.4)

ROS-Induced Oxidative Stress Causes Enrichment and Emergence of Antibacterial Resistance in Conventional Activated Sludge Process

Manna B, Zhou X, Singhal N. (2025)

Water Research (IF: 12.4)

L-norepinephrine Induces Community Shift, Oxidative Stress Response, Metabolic Reprogramming, and Virulence Potential in Wastewater Microbiomes

Bains A*, Dahal S*, Manna B*, Lyte M, Yang L, Singhal N. (2025)

J. Phys. Chem. B (IF: 3.3)

Elucidating the Ionic Liquid Induced Mixed Inhibition of GH1 Beta-Glucosidase H0HC94

Manna B*, Chanda P*, Datta S, Ghosh A. (2023)

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Founder

The Scientist Behind the Science

Dr. Bharat Manna

Founder & Principal Scientist

Dr. Bharat Manna is a computational biologist with a Ph.D. from IIT Kharagpur and postdoctoral training at the University of Auckland, New Zealand, where his research focused on the intersection of oxidative stress, microbial ecology, and antimicrobial resistance, a body of work increasingly relevant to global One Health challenges.

His expertise spans two scales: atomistic molecular dynamics simulations of protein systems, and genome-resolved multi-omics analysis of complex environmental microbiomes. This dual fluency, from force fields to metagenomes, is the foundation on which Manna Omics Solutions was built.

With 27+ peer-reviewed publications in journals including Water Research, ACS Sustainable Chemistry & Engineering, and Journal of Physical Chemistry B, and research presented across four continents, Dr. Manna brings both scientific depth and international perspective to every engagement.

Gold Medalist, M.Tech Bioinformatics. Winner, SAMHAR-COVID19 Hackathon (C-DAC, DST, NVIDIA).

Google Scholar ORCID ResearchGate LinkedIn

From Atoms to Systems