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EHR Certified Application Analyst II Salary in the United States

How much does an EHR Certified Application Analyst II make in the United States?

As of August 01, 2026, the average salary for an EHR Certified Application Analyst II in the United States is $99,468 per year, which breaks down to an hourly rate of $48.

However, an EHR Certified Application Analyst II's salary can vary significantly. Here’s a look at the typical salary range:

  • Top Earners (90th percentile): $112,721
  • Majority Range (25th-75th percentile): $89,938 to $106,405
  • Entry-Level (10th percentile): $81,261
Salary Factors Salary-Boosting Skills Salary by Experience Related Job Salaries Top Paying Cities Explore Related Jobs

Key Factors That Influence EHR Certified Application Analyst II Salaries

An EHR Certified Application Analyst II's salary isn't a fixed number. It's shaped by several important factors. Below, we'll explore how your years of experience, geographic location and company size can directly affect your earning potential.

How Experience Level Affects EHR Certified Application Analyst II Salaries?

Experience is a primary driver of an EHR Certified Application Analyst II's salary. As you build your skills and take on more complex tasks, your compensation generally increases. Here's how the average salary grows at different career stages:

  • EHR Certified Application Analyst I (0-2 years): $84,172
  • EHR Certified Application Analyst II (2-4 years): $99,468
  • EHR Certified Application Analyst III (4-7 years): $120,550
Job Role Years of Experience Average Salary
EHR Certified Application Analyst I0-2 years$84,172
EHR Certified Application Analyst II2-4 years$99,468
EHR Certified Application Analyst III4-7 years$120,550
View as Graph

How Do EHR Certified Application Analyst IIs Salaries Vary from State to State?

Your salary can change significantly depending on where you work. States with a higher cost of living and strong industrial sectors often pay more to attract EHR Certified Application Analyst IIs. For example, consider the average annual salaries in these key locations:
  • District of Columbia: $110,131.
  • California: $109,713.
  • Massachusetts: $108,251.

Top Paying Cities for EHR Certified Application Analyst II

Salaries can also vary between different cities. Major metropolitan areas or cities with a high demand for technicians often offer more competitive pay. Here are a few examples of average annual salaries in different U.S. cities:

  • San Jose: $125,459
  • San Francisco: $124,085
  • Oakland: $121,470

What Skills Can Increase an EHR Certified Application Analyst II's Salary?

Demanded Skills for the Role:

  • Analysis (Mentioned in 8.9% Job Postings): Analysis is the process of considering something carefully or using statistical methods in order to understand it or explain it.
  • Process Analysis (Mentioned in 2.37% Job Postings): Process analysis is a form of technical writing and expository writing "designed to convey to the reader how a change takes place through a series of stages". While the traditional process analysis and a set of instructions are both organized chronologically, the reader of a process analysis is typically interested in understanding the chronological components of a system that operates largely without the reader's direct actions (such as how the body digests an apple), while the reader of a set of instructions intends to use the instructions in order to accomplish a specific, limited task (such as how to bake an apple pie). By contrast, the reader of a mechanism description is more interested in an object in space (such as the form and nutritional value of a particular kind of apple).
  • Health Information Technology (Mentioned in 1.78% Job Postings): Health information technology is health technology, particularly information technology, applied to health and health care
Skills Demand Percentage
Analysis 8.9%
Process Analysis 2.37%
Health Information Technology 1.78%
See More Skills

What skills can make your compensation higher?

Mastering certain specialized skills can lead to a significant increase in pay. Here are examples of skills and the potential impact they can have on an EHR Certified Application Analyst II's salary.

  • Integrated Care: Can increase your salary by up to 18%.
  • Ambulatory Care: Can increase your salary by up to 12%.
  • Taking Ownership: Can increase your salary by up to 12%.
Skill Salary Salary % Increase
Integrated Care $117,372
18%
Ambulatory Care $111,404
12%
Taking Ownership $111,404
12%
Get Latest Data

EHR Certified Application Analyst II Salary by Company Size: Startups vs. Enterprise

EHR Certified Application Analyst II salary potential scales significantly with company size. Data shows that Enterprise companies (5,000+ employees) pay the highest average salary at around $106,057. While startup companies pay approximate $90,227.

EHR Certified Application Analyst II Salary by Company Size

Company Size Employees Average Salary
Startup 1~50 $90,227
Growth Stage 51~500 $95,293
Established 501~5000 $102,548
Enterprise 5000+ $106,057

EHR Certified Application Analyst II Salary by Industry: Top Paying Sectors

For EHR Certified Application Analyst II roles, the industry you choose can impact your earning potential by as much as 40% (the gap between the highest and lowest paying industries). Data shows that the highest-paying industry, Business Services, offers compensation 20% above the average. Conversely, EHR Certified Application Analyst positions in Edu., Gov't. & Nonprofit typically offer lower base pay, as this sector often view EHR Certified Application Analyst II as a support function rather than a direct revenue driver.

The top paying industry for an EHR Certified Application Analyst II

Industry Sector Average Annual Salary Average Hourly Rate Pay vs.Avg
Business Services$119,362$57.020%

EHR Certified Application Analyst II Salary: Hourly Rate, Weekly Pay, and Monthly Pay

Understanding how an EHR Certified Application Analyst II's annual salary breaks down can help with budgeting. Below, you can see the average hourly rate, weekly pay, and monthly pay for this role. Use the buttons to switch between different pay periods.

Last Updated on August 01, 2026
$89,938
Average $99,468/year
$106,405
$7,495
Average $8,289/month
$8,867
$1,730
Average $1,913/week
$2,046
$43
Average $48/hour
$51
Annual Salary Monthly Pay Weekly Pay Hourly Wage
75th Percentile $106,405 $8,867 $2,046 $51
Average $99,468 $8,289 $1,913 $48
25th Percentile $89,938 $7,495 $1,730 $43

EHR Certified Application Analyst II Salary Growth & Career Path

EHR Certified Application Analyst II

Next Role

Advancement

Promotions are the fastest way to increase your earnings. As an EHR Certified Application Analyst II, you have the following paths for advancement. The table below compares the salary raises for common next-step roles. By comparing these figures, you can choose the career path that best meets your financial goals.

Next Step Role Estimate Salary Projected Raise
EHR Certified Application Analyst III $120,550 21%
Clinical Programmer III $107,709 8%

Most common benefits for EHR Certified Application Analyst II

  • Social Security
  • 401 (k)
  • Disability
  • Healthcare
  • Pension
  • Time Off (days)

Common company salaries for EHR Certified Application Analyst II

Here are companies hiring for EHR Certified Application Analyst II and their salaries, click below for more details.

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FAQ about EHR Certified Application Analyst II

1. Where can an EHR Certified Application Analyst II earn the most?

An EHR Certified Application Analyst II's earning potential can vary widely depending on several factors, including location, industry, experience, education, and the specific employer. According to the latest salary data by Salary.com, an EHR Certified Application Analyst II earns the most in San Jose, CA, where the annual salary of an EHR Certified Application Analyst II is $125,459.

2. What is the highest pay for EHR Certified Application Analyst II?

The highest pay for EHR Certified Application Analyst II is $112,721.

3. What is the lowest pay for EHR Certified Application Analyst II?

The lowest pay for EHR Certified Application Analyst II is $81,261.

4. What are the responsibilities of EHR Certified Application Analyst II?

Plans, analyzes, designs and modifies EHR (electronic health record) software applications, including encoding, testing, debugging and installing to support the implementation of one or more software modules. Consults with users to identify current operating procedures and to clarify program objectives. May be expected to write documentation describing program development, logic, coding, and corrections. Typically requires a bachelor's degree. Requires certification in one or more dedicated modules, such as Scheduling, Emergency Room, Patient Registration, or other medical specialty. Typically reports to a manager. Occasionally directed in several aspects of the work. Gaining exposure to some of the complex tasks within the job function. Typically requires 2-4 years of related experience.

5. What industry pays the highest salary for EHR Certified Application Analyst II?

The Business Services industry offers the highest average compensation for EHR Certified Application Analyst II roles, with salaries approximately 20% above the market median.

Where Does Our Salary Data Come From?

Salary.com provides salary estimates, histograms, trends, and comparisons using data from employer job postings and third-party sources.

We offer detailed salary information across multiple percentiles for your reference. (Click here to learn Why the Salary Midpoint Formula Is Crucial for Achieving Pay Equity.)

With the most extensive online, real-time compensation data available, Salary.com helps you pinpoint your exact pay target.

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