Bioinformatics & Data Science Consultancy

From raw sequencing data to clear scientific decisions.

Empowering biotech and research teams to unlock the full potential of their data through advanced NGS analytics, single-cell and spatial biology, and machine learning driven multi-omics integration.

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12+Years Experience

30+Publications

6+R Packages & Tools

Your embedded scientific partner

Analysis that stands up to reviewers—and scales beyond one project.

ATGC Bioinformatics is an independent consulting practice specializing in next-generation sequencing, multi-omics integration, and computational biology. We partner with academic research groups, hospitals, and biotech companies to design, execute, and interpret complex genomic analyses.

Founded by Ashish Jain, PhD, a computational biologist with over a decade of experience at institutions including Boston Children's Hospital, the Frederick National Laboratory for Cancer Research (NIH/NCI), and Takeda Pharmaceuticals, ATGC brings publication grade rigor and deep technical expertise to every engagement.

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Core services

Specialized support across the omics lifecycle

Single-Cell & Spatial Transcriptomics

End to end scRNA-seq (10X Genomics, Smart-Seq2) and spatial transcriptomics (10X Visium/VisiumHD, MERFISH) analysis including quality control, integration, cell type annotation, trajectory analysis, cell-cell communication, and multi sample integration.

scRNA-seqSeuratSpatialMonocle3CellChat

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Bulk RNAseq Data Analysis

Comprehensive bulk RNASeq data analysis, from raw sequencing reads to actionable biological insights, including quality control, differential expression, co-expression networks, and pathway interpretation.

RNA-seqWGCNAPPIGSEA

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Whole Exome and Genome Data Analysis

Advanced whole genome and exome sequencing analysis, from raw data processing to accurate variant detection, annotation, and interpretation, enabling meaningful clinical and research insights.

WGS/WESSNVCNVGWAS

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Proteomics & OLINK Data Analysis

Turn high-dimensional protein measurements into clear biological findings through assay and sample quality control, differential protein abundance testing, pathway analysis, biomarker evaluation, and integration with clinical or other omics data.

OLINKProteomicsBiomarkersPathway Analysis

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ChIP-Seq Data Analysis

Map transcription-factor binding and histone modifications with a reproducible workflow covering read quality control, alignment, enrichment assessment, peak calling, differential binding, motif discovery, and regulatory interpretation.

ChIP-SeqPeak CallingMotifsEpigenomics

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DNA Methylation Array Analysis

Analyze Illumina EPIC and 450K methylation arrays from raw IDAT files through sample and probe quality control, normalization, batch assessment, differential methylation, region analysis, and pathway interpretation.

EPIC Array450KDMP/DMREpigenetics

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Selected work