Powering insights

across the life sciences

If it involves biology and big data, Watershed is the solution. With 100+ unique data analysis templates, customizable workflows, and a dedicated team of bioinformaticians, no analysis is too complex.

Schedule Demo

Explore applications

Lorem ipsum dolor sit amet, consectetur adipiscing elit.

Genomics
Template link
Get Started
Thank you! Your submission has been received!
Oops! Something went wrong while submitting the form.

Variant Calling

Compare WGS and WES data to reference genomes to identify and quantify variations.

Long-read sequencing

Perform phase-aware analyses of long-read data from PacBio or Oxford Nanopore.

Gene editing

Analyze data from BLISS, GUIDE-Seq, CRISPResso, Digenome-Seq, and other techniques to characterize on-target efficacy and off-target profiles.

Public datasets

Effectively utilize data from public sources like Open Targets, Genebass, gnomAD, CCLE, and dbSNP.

Whole Genome Sequencing (WGS) & Whole Exome Sequencing (WES)

Variant Calling

Long-Read Sequencing

Gene Editing

Public Datasets

Mendelian Randomization

Perform phase-aware analyses of long-read data from PacBio or Oxford Nanopore.

ChIP-Seq

Map DNA-binding proteins and histone modifications to understand epigenetics' role in health and disease.

Single Cell RNA-Seq

Access comprehensive interpretation of scRNAseq data, including robust QC, multi-sample comparison, cell annotation, RNA velocity analysis, and more.

Public Datasets

Effectively utilize data from public sources like recount3.

Geneformer

Make tissue-specific predictions of the effects of gene perturbation.

Spatial Sequencing

Analyze spatially-resolved data from platforms like 10X’s Visium and NanoString's GeoMx or CosMx.

Immune Repertoire Sequencing

Analyze spaStudy the full set of T and B cell clonotypes to understand the immune system's role in health and disease.tially-resolved data from platforms like 10X’s Visium and NanoString's GeoMx or CosMx.

Whole Genome Sequencing (WGS) & Whole Exome Sequencing (WES)

Variant Calling

Long-Read Sequencing

Gene Editing

Public Datasets

Olink

Analyze multiplexed protein expression from Olink® assay kits.

AlphaFold2

Predict the 3D structures of proteins from their amino acid sequences.

Public Datasets

Effectively leverage data from public sources like gnomAD, CCLE, ClinVar, recount3, and many more.

Cellranger

Profile combined transcript- or probe-based gene expression, immune repertoire characterization, and/or surface protein tags.

de novo Assembly

Assemble and annotate completely novel genomes with tools like SPAdes, Trinity, and other state-of-the-art assemblers.

de novo Assembly

Assemble and annotate completely novel genomes with tools like SPAdes, Trinity, and other state-of-the-art assemblers.

Metatranscriptomics

Understand a microbial community's complete expression profile.

Read the latest insights

Learn about new research, best data practices, and more.

Blog

Science Chat with Dr. Alisa Vershinina

Dr. Alisa Vershinina is a Senior Scientist in Bioinformatics at SalioGen Therapeutics. We spoke to Dr. Vershinina about her fascinating background in paleogenomics and her journey from entomology in Russia to biotech in the U.S.

Read More

Blog

Science Chat with Dr. Paola Moreno-Roman

In our new Science Chat, we speak to professor and STEM outreach expert Dr. Paola Moreno-Roman about how her communities in both her native Peru and the U.S. shaped her research career & advocacy work.

Read More

Blog

CPTAC and the Impact of Proteogenomics on Cancer Research

By applying novel proteogenomic data analysis tools to datasets like the Clinical Proteomic Tumor Analysis Consortium (CPTAC), researchers are rapidly advancing our understanding of cancer.

Read More

Blog

Science Chat with Dr. Mallori Upshaw

Dr. Mallori Upshaw is the Director of Business Insights and Strategy at AstraZeneca, focusing on COVID-19 vaccines and immunotherapies. We spoke with Dr. Upshaw about her unique scientific journey and her experiences as a Black woman in STEM.

Read More

Blog

Large Language Models in Biology

Popularly used in chat interfaces like ChatGPT, Large Language Models (LLMs) are also being used to decode the various languages of biology.

Read More

News

Dr. Stefanie Morgan's SciMed Podcast

Hear our own Stefanie Morgan's discussion with Adam Stasio and SciMed on Streamlining Bioinformatics.

Read More

Blog

Science Chat with Dr. Miranda Stratton

Check out our new series, “Science Chats”, with our first guest - Dr. Miranda Stratton!

Read More

Case Study

Developing a Next-Generation Gene Editing Platform with Watershed

A privately-held biotechnology company is developing a new category of gene therapies.

Read More

Webinar

The Future of Human Gene Editing

Coming on 3/7, Watershed has the honor of hosting a webinar by groundbreaking genetics researcher Nancy L. Craig.

Read More

Case Study

How Violet Therapeutics Scaled Their Target Discovery Platform with Watershed

Violet Therapeutics is a pre-clinical stage company leveraging their first-in-class platform, based on RABID-seq technology, to map and mine the cellular connectome at scale.

Read More

Blog

Geneformer: Powering Drug Target Discovery with Network Biology

Geneformer is a tool developed by Theodoris et al. (Nature 2023) to predict tissue-specific gene network dynamics from single-cell transcriptomic data.

Read More

News

New Automation Features for Streamlined Data Processing and Analysis

Our new workflow automation features help you accelerate high-volume data processing from upload to output.

Read More

Blog

AlphaFold: Applications for Biomedical Research

AlphaFold2 predictions have been used to probe questions at the heart of biomedical research, like how to design superior drugs, and how protein structure impacts disease.

Read More

News

Watershed's 2023 Year In Review

From closing Series A to processing over a petabyte of data, 2023 was a pivotal year in Watershed's growth. Check out this collection of some of our top highlights from this year.

Read More

Blog

Nobel Prize Day 2023: The Road to mRNA Vaccines

Drs. Karikó and Weissman’s research into mRNA and the immune system enabled the rapid development of vaccines against the SARS-CoV-2 virus.

Read More

Webinar

Advances in Big Data for Immuno-Oncology

Watch our webinar with cancer researcher Dr. Michelle Atallah to learn about the latest challenges and opportunities towards realizing the potential of big data in immunology and proteomics.

Read More

White Paper

Accelerating Multi-omics Analysis

Download our white paper to learn how Watershed is revolutionizing the use of big data in biology.

Read More

News

Watershed Secures $14.5M Series A to Help Scientists Unlock Multi-Omic Insights for Drug Discovery

Financing will accelerate commercial roll-out of the company's cloud-based platform that provides a unified workspace for data-intensive biomedical research accessible by both biologists and bioinformaticians

Read More

Blog

Cell Painting with Watershed

The JUMP-Cell Painting Consortium combines images from nearly 120,000 chemical and 18,000 genetic perturbations with high-dimensional data analytics to streamline the drug discovery process.

Read More

Blog

Leveraging Public Datasets for Drug Discovery

The amount of public biological data available to researchers has exploded – but garnering insights requires appropriate infrastructure, expertise, and resources.

Read More

Blog

Variant Calling for Disease-Causing Mutations: The state-of-art process

Explore important considerations for effective and accurate variant calling in WGS/WES data.

Read More

Blog

Unlock the Power of Genomics Data Analysis: Watershed's Seamless Cloud Computing Solution

Dr. Tommy Tang reviews the challenges with cloud computing in biotech, with an emphasis on concerns facing startups.

Read More

Blog

Watershed Informatics: The First Omics Bench for Modern Researchers

Watershed was founded to empower the world’s scientists to transform today’s big data into tomorrow’s precision medicines.

Read More

Case Study

Building an Innovative Drug Discovery Platform with Watershed

Learn how a pre-clinical stage company is using Watershed to develop a novel approach to small molecule drug discovery.

Read More

Blog

Using gnomAD to Drive Insights in Precision Medicine

The Genome Aggregation Database (gnomAD) is a collaborative effort to make data from large-scale sequencing projects publicly available for scientific use. Learn how to leverage the latest updates to the database, including new data from more than 700k individuals.

Read More

Blog

Science Chat with Dr. Alisa Vershinina

Dr. Alisa Vershinina is a Senior Scientist in Bioinformatics at SalioGen Therapeutics. We spoke to Dr. Vershinina about her fascinating background in paleogenomics and her journey from entomology in Russia to biotech in the U.S.

Read More

Blog

Science Chat with Dr. Miranda Stratton

Check out our new series, “Science Chats”, with our first guest - Dr. Miranda Stratton!

Read More

Blog

Science Chat with Dr. Mallori Upshaw

Dr. Mallori Upshaw is the Director of Business Insights and Strategy at AstraZeneca, focusing on COVID-19 vaccines and immunotherapies. We spoke with Dr. Upshaw about her unique scientific journey and her experiences as a Black woman in STEM.

Read More

Blog

Science Chat with Dr. Paola Moreno-Roman

In our new Science Chat, we speak to professor and STEM outreach expert Dr. Paola Moreno-Roman about how her communities in both her native Peru and the U.S. shaped her research career & advocacy work.

Read More

Public datasets

Violet Logo
MIT Logo
MGH Logo
MGB eye and ear logo
MIT Logo
MGH Logo

Ready to get started?

Thank you! Your submission has been received!
Oops! Something went wrong while submitting the form.