Senior Manager of EMR Integrations and Interoperability

BillionToOne

Job Overview

Location

Remote

Salary

USD 168,961 - 195,361 yearly

Employment Type

Full-time

Work Arrangement

Remote

Sector

Information Technology & Software

Experience Level

Senior (5-8 years)

Application Deadline

March 12, 2026

About the Company

BillionToOne is a pioneering molecular diagnostics company dedicated to making advanced diagnostic tests accessible to everyone. Leveraging their groundbreaking QCT molecular counting technology, they achieve unparalleled resolution in disease detection using cell-free DNA, having already positively impacted over half a million patients globally.

The company has developed transformative diagnostic solutions, including Unity Complete™, the only non-invasive prenatal screen for recessive conditions and aneuploidies, and Northstar®, a liquid biopsy test for precise cancer treatment selection and monitoring. In just four years, BillionToOne has achieved remarkable growth, reaching $125 million in Annual Recurring Revenue and securing nearly $400 million in funding, including a $130 million Series D round in June 2024, valuing the company at over $1 billion.

Recognized as one of America's Best Startup Employers for 2025 by Forbes and certified as a Great Place to Work in 2024, BillionToOne fosters an exceptional culture of collaboration, transparency, and innovation. Headquartered in Menlo Park with facilities in Union City, California, they are committed to pushing the boundaries of molecular diagnostics and improving patient lives.

Job Description

BillionToOne is seeking a dynamic Senior Manager of EMR Integrations and Interoperability to lead the strategic direction and operational execution of our EMR connectivity initiatives. This role is crucial for building a robust EMR function, developing a high-performing team, and standardizing integration processes to ensure reliable, compliant, and scalable solutions that enhance provider workflows and drive business growth.

You will be responsible for defining and implementing the enterprise EMR interoperability strategy, establishing operational models and standards for integration delivery, and creating a scalable roadmap to increase throughput while reducing implementation times. Developing executive-level metrics for EMR performance, leading end-to-end integration execution, and managing the intake and prioritization of new requests will be key aspects of this role. Furthermore, you will ensure the reliability of order and result transmissions, oversee HL7/FHIR connectivity, and manage vendor relationships to optimize integration capabilities and customer experience.

This position requires strong cross-functional leadership, serving as the primary point of contact for EMR interoperability across various departments. You will partner with Sales and Customer Success for smooth onboarding and collaborate with Product and Engineering to influence platform investments that enhance scalability and tooling. Building and mentoring a high-performing EMR team, establishing clear career paths, and driving continuous improvement will be essential for scaling operations and maintaining quality.

To apply for this role, click the Apply button on this page and follow the instructions.

Required Skills

EMR IntegrationsInteroperabilityHL7FHIRHealthcare ITProgram ManagementTeam LeadershipVendor ManagementHIPAAEpicCernerAthenahealtheClinicalWorksNextGenRedox

Key Responsibilities

Define and execute BillionToOne’s enterprise EMR interoperability strategy.
Establish the operating model, standards, and processes for EMR delivery.
Build a scalable roadmap to increase integration throughput and reduce time-to-go-live.
Develop executive-level metrics and reporting for EMR performance.
Lead end-to-end execution of EMR integrations, ensuring predictable delivery.
Own intake and prioritization of new integration requests.
Standardize project governance across integrations.
Drive adoption of repeatable integration patterns to scale delivery.
Ensure accurate and timely transmission of orders and results.
Oversee HL7/FHIR connectivity via Redox and other vendors.
Own triage and resolution processes for integration issues.
Reduce manual touchpoints through automation and continuous process improvement.
Manage strategic relationships with EMR vendors and integration partners.
Negotiate and manage vendor performance against SLAs.
Partner directly with customer hospital/clinic IT teams to accelerate implementation.
Serve as the executive point of contact for EMR interoperability across IT, Engineering, Product, Sales, Legal, and CS.
Partner with Sales and Customer Success to ensure smooth onboarding.
Collaborate with Product and Engineering to influence platform investments.
Ensure documentation, playbooks, and training are consistently maintained and adopted.
Build, mentor, and lead a high-performing EMR team.
Establish clear roles, career paths, performance expectations, and operating rhythms.
Drive continuous improvement across people, process, and technology.

Qualifications

7+ years of experience in EMR integrations, interoperability, healthcare IT, lab systems, or related domains.
5+ years leading teams and scaling cross-functional programs.
Deep hands-on expertise with HL7 v2, FHIR, and integration engines/platforms (e.g., Redox, Mirth, etc.).
Proven track record delivering and scaling multiple EMR integrations (Epic Aura, Cerner/Oracle, Athenahealth, eClinicalWorks, NextGen, etc.) with measurable operational and business impact.
Strong program management skills: prioritization, governance, stakeholder communication, risk management, and execution at scale.
Experience partnering with Engineering/Product teams on integration tooling, automation, monitoring, and scalability improvements.
Strong understanding of privacy/security requirements in healthcare (HIPAA; preferred familiarity with SOC 2 and audit-ready processes).
Bachelor’s degree in Health Informatics, Information Systems, Engineering, or related field preferred (Master’s a plus).

Benefits & Perks

Working alongside brilliant, kind, passionate and dedicated colleagues in an empowering environment.
Open, transparent culture with weekly Town Hall meetings.
The ability to change the lives of hundreds of thousands of patients.
Multiple medical benefit options; employee premiums paid 100% of select plans, dependents covered up to 80%.
Extremely generous Family Bonding Leave for new parents (16 weeks, paid at 100%).
Supplemental fertility benefits coverage.
Retirement savings program including a 4% Company match.
Increased paid time off with increased tenure.
Latest and greatest hardware (laptop, lab equipment, facilities).
Competitive base pay.
Opportunity for professional growth.
Industry-leading company benefits (free healthcare options, 401k match, very generous fully paid parental leave etc.).