What if…you could join an organization that creates, resources, and builds life science bioplatform companies that invent breakthrough technologies to transform human health and sustainability?

Flagship Pioneering has conceived of and created companies such as Moderna Therapeutics (NASDAQ: MRNA), Editas Medicine (NASDAQ: EDIT), Omega Therapeutics (NASDAQ: OMGA), Seres Therapeutics (NASDAQ: MCRB), and Indigo Agriculture. Since its launch in 2000, Flagship has applied its unique hypothesis-driven innovation process to originate and foster more than 100 scientific ventures. In 2021, Flagship Pioneering was ranked 12th globally on Fortune’s “Change the World” list, an annual ranking of companies that have made a positive social and environmental impact through activities that are part of their core business strategies.


Flagship Pioneering is looking for a Payroll Manager to administer the activities relating to the company payroll processing, benefits processing including developing, implementing, and monitoring (e.g., performing internal audit and control procedures to ensure that all wages and taxes are accurate). The individual will be the company’s subject matter expert with all semi-monthly payrolls, and 401(k) administration.

Here’s What You’ll Do: 


  • Process payrolls for hourly, salaried, and temporary employees; including reviewing, administering regulatory requirements, and other adjustments to pay as necessary.
  • Implement and maintain payroll best practices to improve efficiency and consult with HRBP team to improve payroll and 401(k) administration processes.
  • Process employee onboarding tasks.
  • Maintain employee records in payroll/401(k) systems.
  • Produces scheduled and ad-hoc ADP WFN custom reports pertaining to payroll and human resources requirements.


  • Administer employee 401(k)benefits including enrollments, terminations, and some
  • Coordinates and conducts the new hire employee onboarding process and presents benefit orientations to ensure employees gain an understanding of benefit plans and enrollment provisions.
  • Assists with administrative leave of absences.
  • Assists with annual open enrollment period. This includes preparation (or revision) and distribution of materials, conducting meetings to communicate changes to employees.
  • Reports results of audits to ensure all enrollments are accurate and that dependent information is correct for each employee and assists with quarterly and year end audits for year-end processing (payroll, 401k, benefits).

Here’s what you will bring to the table:

  • Bachelor’s degree or equivalent Payroll/Benefits experience preferred.
  • Experience with ADP, WFN Payroll/Benefit system preferred or other outsourcing payroll systems
  • Experience with employee multi state tax set up and employee state requirements
  • Extremely detail oriented with a proven track record for accuracy.
  • 5+ years of experience in a diverse payroll position
  • Ability to handle confidential information
  • Certified Payroll Professional is a plus
  • Certified Equity Professional is a plus
  • Strong capabilities to multi-task
  • Strong communication skills and ability to work with senior leaders and partners

Joining Flagship Pioneering will allow you to: 

  • Make an impact as part of a Fortune “Change the World” company 
  • Be energized by an exciting startup culture
  • Surround yourself with inspirational colleagues and leaders 
  • Support innovative breakthroughs in health care and sustainability 
  • Expand your horizons with opportunities for professional growth 
  • Enjoy unparalleled employee benefits and rewards programs

Flagship Pioneering and our ecosystem companies are committed to equal employment opportunity regardless of race, color, ancestry, religion, sex, national origin, sexual orientation, age, citizenship, marital status, disability, gender identity or Veteran status.

Recruitment & Staffing Agencies: Flagship Pioneering and its affiliated Flagship Lab companies (collectively, “FSP”) do not accept unsolicited resumes from any source other than candidates. The submission of unsolicited resumes by recruitment or staffing agencies to FSP or its employees is strictly prohibited unless contacted directly by Flagship Pioneering’s internal Talent Acquisition team. Any resume submitted by an agency in the absence of a signed agreement will automatically become the property of FSP, and FSP will not owe any referral or other fees with respect thereto.

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