Clinical System Administrator

Alpharus Health; Chicago (IL); Hybrid; USD 80,000 - 97,000; Full time

Job summary

Alpharus Health is seeking a Clinical System Administrator to manage the EHR platform across multiple sites. The role emphasizes configuration, maintenance, data integrity, and alignment with clinical workflows in a hybrid work setting in Chicago, IL.

The candidate will handle user access, system monitoring, and vendor coordination while supporting reporting and data exchange efforts within a behavioral health environment.

Qualifications

• 3+ years of experience supporting an EHR for a behavioral health provider.
• Experience in healthcare with behavioral health workflows preferred.
• Hands-on experience with EHR configuration and user administration.
• Reporting tools (SQL, built-in reporting modules, or Power BI).
• Active Directory/MS Entra ID experience; ITIL framework familiarity.

Responsibilities

• Administer, configure, and maintain the EHR platform and ancillary tools.
• Manage user access, roles, permissions, and security controls.
• Monitor system performance, uptime, and interface integrations.
• Serve as first point of contact for EHR-related issues across domains.
• Translate workflows into EHR configurations and collaborate with vendors.
• Develop and maintain standard and ad hoc reports, including state reporting extracts.
• Support interfaces with labs, billing, HIEs, telehealth, etc.
• Coordinate testing, training, and deployment of new functionality.
• Lead change management and application governance practices.

Skills

Healthcare experience

Behavioral health workflows

Analytical problem-solving

Effective communication

Education

Bachelor's degree in IT/CS or related field

Tools

SQL

Power BI

Active Directory/MS Entra ID

Job description

Clinical System Administrator

Post Date: Sep 10, 2026

Location: Chicago, IL, US, 60607

Position Type: Full Time

Requisition Number: 34223

Work Schedule: Hybrid (In Office 3X's per week)

Who is Alpharus Health?

Alpharus Health is a national nonprofit behavioral health provider dedicated to helping people build healthier lives. For nearly 60 years, we have provided substance use and mental health treatment that helps individuals, families, and communities find healing, hope, and lasting wellbeing. Our mission is simple: We help people build healthier lives. By combining clinical expertise with a person-centered approach, we help people build the skills, resilience, and support systems needed to create meaningful, lasting change.

Why join us?

Discover a rewarding career where you can find both personal and professional fulfillment while aligning your values with your work. You'll have the opportunity to make a meaningful impact by aiding individuals in overcoming addiction. We pride ourselves on being an organization that values you and strives to be an employer of choice, fostering a vibrant culture that promotes teamwork and professional growth. Your voice matters here; we actively listen to and value our employees' thoughts, allowing you to be part of organizational decisions. Join Alpharus Health today and become part of a team dedicated to making a positive difference in the lives of others.

Location: 315 North Racine Avenue Chicago, IL 60607

Work Schedule: Monday through Friday, normal business hours

• This position offers a hybrid based model of 2 days remote and 3 days onsite

Job Summary

The System Administrator - Clinical Systems is responsible for the configuration, maintenance, optimization, and support of the organization's clinical systems, including the Electronic Health Record (EHR) platform. This role ensures system reliability, data integrity, and alignment with clinical and operational workflows across a multi-site/state behavioral health environment.

Job Responsibilities

System Administration & Support

1. Administer, configure, and maintain the EHR platform and ancillary tools.
2. Manage user access, roles, permissions, and security controls.
3. Monitor system performance, uptime, and interface integrations; proactively resolve issues.
4. Serve as initial point of contact for EHR-related support issues across all system domains.

System Configuration

1. Translate clinical and operational workflows into EHR and other application configurations.
2. Collaborate with Business Analyst(s) and/or Vendor to design and maintain templates, forms, assessments, documentation, etc....
3. Support efforts to reduce administrative burden and improve patient experience through system optimization.

Data Management & Reporting

1. Ensure data accuracy, consistency, and integrity across clinical platforms.
2. Develop and maintain standard and ad hoc reports including state reporting extracts.
3. Support regulatory reporting, audits, and quality initiatives.

Integration & Interoperability

1. Support interfaces with external systems (labs, billing, HIEs, telehealth, etc.).
2. Troubleshoot and maintain data exchange processes (HL7, APIs, flat files).
3. Coordinate with vendors and internal teams on integration design and issue resolution.

Release Management & Vendor Coordination

1. Manage system updates, patches, and new feature releases.
2. Evaluate vendor enhancements and determine organizational impact.
3. Coordinate testing, training, and deployment of new functionality.
4. Serve as primary point of contact for clinical system vendor support and escalation.
5. Supports and adheres to change management and application governance best practices.

Training and Change Management

1. Support end-user training programs and onboarding.
2. Develop documentation, job aids, and system guides.
3. Supports adoption of new features and workflow changes through structured change management.
4. Maintains a strong knowledge of business needs associated to supported system(s) to engage effectively in driving system enhancements, support resolution(s), enhancements, project work, etc.
5. Invests in personal training to maintain expertise within applicable application(s), functionality and behavioral health clinical and technology standards.

Requirements

• Bachelor's degree in Information Technology, Computer Science, Business Administration or related field.
• 3 or more years of experience supporting an Electronic Health Record (EHR) for a behavioral health provider. Prior experience in EHR implementation project(s) preferred.
• Experience in healthcare; strong understanding of behavioral health workflows preferred.
• Hands-on experience with:
  1. EHR configuration and user administration
  2. Reporting tools (SQL, built-in reporting modules, or Power BI preferred)
  3. Active Directory/MS Entra ID
  4. System troubleshooting and issue resolution
• Proven experience in a support capacity adhering to SLAs and operating within an ITIL framework.
• Advanced analytical and problem-solving skills.
• Exceptional communication skills. Proficient in verbal and written communication.
• Demonstrated interpersonal skills to collaborate with business stakeholders, manage difficult situations and engage a team in pursuit of objectives.
• Effective organization skills to ensure deadlines are met across multiple concurrent projects, ability to lead initiatives and small projects as well as engage as a project team member.
• Technical expertise in:
  1. Behavioral health EHR vendors/systems
  2. Crystal Reporting, SQL and BI tools
  3. System integrations and interoperability standards (APIs, middleware, file-based data exchanges, HL7/FHIR, HIEs, etc.)
  4. Microsoft 365 and collaboration platforms
  5. Artificial Intelligence, including but not limited to applications within behavioral health applications and workflows
  6. Active Directory/MS Entra ID

Physical Requirements

• Prolonged use of a computer and standard office equipment.
• Occasional standing, walking, and light lifting (up to 20 pounds).
• The ability to communicate effectively and visually review information is necessary.

Compensation (based on experience and credentials)

• $80,000 - 97,000 annually
• Alpharus Health conducts annual reviews including merit increases

Benefits at Alpharus Health

Health and Wellness:

• Medical, dental, and vision insurance for employees and dependents
• Employee wellness program promoting health and fitness and offering cash-saving premiums
• Employee assistance programs focused on mental health

Financial wellbeing:

• 403(b) Retirement Plan with 3% employer match
• Short-term and Long-term Disability and Life and AD&D Insurance paid for by Alpharus
• Flexible Spending Accounts for medical and dependent care
• Public Service Loan Forgiveness (PSLF)

Flexibility and time off:

• 18 paid time off days per year - accrual rates increase with years of service
• 9 paid company holidays
• Work-life-balance

Personal Development:

• Training & Development Programs
• Tuition Reimbursement - up to $5,250 per calendar year
• eLearning access to online courses that provide CEU's and job-related training
• Clinical Supervision: Formal and informal guidance

Alpharus Health is an Equal Opportunity Employer: Race/Color/Sex/Sexual Orientation/ Gender Identity/Religion/National Origin/Disability/Vets. Please view Equal Employment Opportunity Posters provided by OFCCP here.

Nearest Major Market

Chicago