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Seeking a Research Scientist (IMS103-2201)


Laboratory for Genome Information Analysis
RIKEN Center for Integrative Medical Sciences
(Team Leader:Chung Chau Hon)

Research Field

Our mission is to understand the origins and functions of non-coding transcription in human genome, with a focus on long non-coding RNAs and enhancer RNAs. We have been at the forefront of annotating these non-coding RNAs using large-scale in-house transcriptomic datasets (e.g. FANTOM consortium). We also integrate our in-house datasets with public epigenomic and genetic (e.g. GWAS and eQTL) datasets to gain insights into the roles of non-coding RNAs in human diseases. Our team is primarily composed of bioinformatic analysts specialized in transcriptomics, but we are working closely with experimental biologists to provide bioinformatics support on technology development (e.g. single-cell transcriptomics), as well as participating other collaborative projects (e.g. Human Cell Atlas).

Our research focuses on the following areas: 1) Integrating genetic data with population-scale single-cell and bulk transcriptomic/epigenomic data (i.e. GWAS and eQTL) to gain insights into human diseases; 2) In vitro modeling neurodegeneration using patient derived iPSC at population-scale; 3) Investigating the roles of non-coding transcriptions in aging (mouse models);

Job Title and Job Description

Position available

One opening for a Research Scientist

Job Description

The successful candidate will be responsible for analyzing the population-scale single-cell transcriptomic and epigenomic datasets generated from neurodegeneration cohorts (in vitro / in vivo) or from aging samples of model organisms (e.g. mouse). These analyses include but not limit to unsupervised cell clustering, cell-types annotation, single-cell eQTL, cell-type specific enrichment of GWAS signal, gene co-expression network and beyond. These projects highlight the integration of genetic data with single-cell RNA-Seq/ATAC-Seq data to identify active functional non-coding elements across cell-types, aiming 1) to elucidate the roles of non-coding elements in aging/neurodegeneration, and 2) to facilitate the interpretation of causality of non-coding variants in human disease predisposition. The candidate is expected to apply the most cutting-edge computational and statistical methods for single-cell omics and genetics to construct personalized (based on genetic variations) gene regulatory networks, which would ultimately provide guidance for precision medicine in the future. Candidates with interests in single-cell omics, human genetics, aging and neurodegeneration are encouraged to apply.

  • *Research Scientist: Carries out research and other work in accordance with lab’s research themes.


  • 1.A doctoral degree awarded at least 3 years ago in a field related to the [Job Description].
  • 2.Should have an experience and knowledge in bioinformatics.
  • 3.Should have solid programming skills (Perl, Python and/or R) and acquaintance with Unix/Linux.
  • 4.Should be familiar with genomics technologies, in particular those relevant to applications to next generation sequencing (e.g. RNA-seq, ChIP-seq, CAGE, etc.).
  • 5.Should have an experience and knowledge in analyses of next-generation sequencing transcriptomic and epigenomic datasets.
  • 6.Additional experience and knowledge in machine learning and artificial intelligence are meritorious, but not required.
  • 7.Should be highly motivated with competence in running projects independently.
  • 8.Should have excellent communication skills and be able to engage in research in a coordinated manner in order to complete the assigned tasks with the members of mixed nationalities.
  • 9.Comfortable with English as a professional language for scientific discussion and publication (Japanese language skills are NOT required)

Work Location

RIKEN Center for Integrative Medical Sciences
1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa 230-0045, Japan

RIKEN has implemented a work-from-home system. Employees can work from home in accordance with the prescribed procedures.

Salary and Benefits

Terms of contract

  • 1.A one-year fixed-term employment contract, renewable based on evaluation, to a maximum of the end of the fiscal year (March 31) in which the employee completes 7 years of employment.
  • 2.RIKEN may adjust the above maximum period of renewability based on a) the employee’s abilities, workload at the time of contract completion, performance and work attitude and b) the continuation of the employee’s center, laboratory or project and RIKEN’s management situation and budget at the time. In principle, employment contracts will not be renewed for individuals older than 65 years.


There will be a trial period of employment (in principle, 2 months).
Salary will be an annual salary based on experience, ability, and performance, and will consist of a base salary and a variable salary. The variable salary will be determined each fiscal year based on experience, ability, and performance. The monthly base salary and variable salary are subject to change due to amendments to RIKEN regulations. Discretionary work, commuting and housing allowances will be provided. Social insurance will be applied.

The approximate amount of annual salary at the time of employment:
For a candidate who finished their PhD approximately 5 years ago and has the appropriate experience, skills and track record, the annual pay at hire (including the Discretionary Work Allowance) will be approximately 5.5 million yen/year.

Discretionary work, commuting and housing allowances will be provided in accordance with RIKEN regulations and social insurance applies (health insurance, pension insurance, worker’s accident compensation insurance, unemployment insurance, etc.).

Mandatory membership in the RIKEN Mutual Benefit Society (RIKEN Kyosaikai).
This position falls under the specialized duties discretionary work system; one working day will be calculated as 7 hours and 30 minutes.


Saturdays and Sundays, Japanese national holidays, New Year holidays (Dec.29-Jan.3), and RIKEN Foundation Day (4th Monday in October).
Paid leave includes annual paid leave (up to 20 days depending on the month of employment), special paid leave (childcare, family nursing care, etc.), and work life balance holidays (up to 7 days depending on the month of employment).
There are also additional leave systems such as maternity leave, childcare leave, and family nursing care leave.

Other provisions

Smoking is not permitted on site except in designated smoking areas. Smoking will be entirely prohibited on site from April 2024.

The Yokohama Campus has an on-site daycare, RIKEN Kids Yokohama. For details, please send an email to the HR at kids-yk-hr [at] ml.riken.jp.

These and other provisions are in accordance with RIKEN regulations.
RIKEN is actively undertaking initiatives to promote gender equality and diversity, and moving forward with the establishment of a diverse and vibrant research environment. If multiple candidates are found to have the same aptitude following a fair assessment, active efforts will be made to recruit female candidates.

Also, eligible for an exemption from repayment for category 1 scholarship loans provided by the Japan Student Services Organization before fiscal year 2003, and eligible applying for the MEXT Grants-in-Aid for Scientific Research (Kakenhi).

Application and required documents

Prepare the documents below as PDF files and follow the instructions in [How to Apply] to submit them. Incomplete applications will not be considered.

Documents to submit

  • 1.CV or CV with photograph attached
    • *download and use the RIKEN format CV
    • *indicate the desired position (e.g. Research Scientist) and the open call ID [IMS 103-2201] in the upper right corner of the CV.
    • *Please fill in your e-mail address.
  • 2.List of publications (articles, reviews and books), presentations, etc. in past 5 years.
  • 3.Brief description of previous research and achievements, and future research plans (within two A4-size pages).
  • 4.Recommendation Letter (1)
    • -The signature (or seal) of the person providing the recommendation is required. In the case of scanned or digital signature or an email letter of recommendation, please be sure to include contact information.
    • -If it is difficult to obtain a recommendation letter from the current supervisor, a recommendation from a third party will be accepted. The letter of recommendation should be addressed to the “Director of the Center for Integrative Medical Sciences.”
  • 5.PhD/Master’s degree diploma
  • 6.List of competitive external funds obtained (e.g., Grants-in-Aid for Scientific Research [Kakenhi]; indicate whether you are the representative researcher or the collaborator)
  • 7.Consent form for handling personal information based on GDPR
    If you are a resident of the European Economic Area (EEA), you are required to submit the document, "Consent form for handling personal information based on GDPR" with your signature.

    *You will find detailed information about General Data Protection Regulation (GDPR) on the following website:
    Data protection | European Commission

How to apply

The above documents except the recommendation letters should be converted to PDF and uploaded to the following website after these files are combined into a single ZIP file:

RIKEN/IMS Application Box
The file name of each PDF file: IMS103-2201_Research Scientist_Applicant’s name_submitted document No.

When you upload your application documents by a ZIP file via BOX, please make sure to input your contact email address.

Recommendation letters must be directly submitted from the referees to the following website with the subject line "IMS103-2201_[applicant’s name] ". Please specify the applicant's name, referee's name and contact information in the recommendation letter. Also, the referees need to input own contact email address when they upload their recommendation letters to the below URL. Please request your referees to confirm their recommendation letters are addressed to “Director of the Center for Integrative Medical Sciences” before uploading.

RIKEN/IMS Submission Box


Until the position is filled

  • *Note: Application documents will not be returned.
  • *Note: Only shortlisted candidates will be contacted via email after document screening.

Handling of personal data

Submitted documents are strictly protected under the RIKEN Privacy Policy and used only for the purpose of applicant screening and hiring. Personal information will not be disclosed, transferred or loaned to a third party under any circumstances.

Selection Process

Only persons who pass the application screening will be interviewed. (face-to-face or remote interview)
Note: RIKEN will not cover interview travel expenses.

Start of Employment


Contact Information

For application documents and general questions

Recruiting staff for RIKEN Center for Integrative Medical Sciences
Administrative Division, RIKEN Yokohama Branch
Email: IMS-recruit [at] riken.jp

Any questions about this position and research contents

RIKEN Center for Integrative Medical Sciences
Laboratory for Genome Information Analysis
Team Leader: Dr. Chung Chau Hon
Email: chungchau.hon [at] riken.jp

  • *Please sent the questions by Email to either of above
  • *Please write "Open call (IMS103-2201) Laboratory for Genome Information Analysis, IMS" in the subject line.


  • Updated as of Nov. 9, 2022: "Salary and benefits"
  • Updated as of June. 13, 2023: "Work location", "Salary and benefits"