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Seeking a Research Scientist or Postdoctoral Researcher (IMS103-2101)

Laboratory

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) Improving the annotation of non-coding RNAs in human and mouse genome by integration of transcriptomic data in large-scale; 2) Integrating genetic data with single-cell and bulk transcriptomic/epigenomic data (i.e. GWAS and eQTL) to gain insights into human diseases; 3) Functional characterization of non-coding RNAs in human diseases, through in vitro disease modeling and genome editing.

Relevant publications:

  • Hon CC et al, An atlas of human long non-coding RNAs with accurate 5’ ends. Nature (2017)
  • Hon CC et al, The Human Cell Atlas: Technical approaches and challenges. Briefings in Functional Genomics (2018)
  • Kouno et al, C1 CAGE detects transcription start sites and enhancer activity at single-cell resolution. Nature Communications (2019)
  • van der Wijst et al, Single-cell eQTLGen Consortium: a personalized understanding of disease. Elife (2020)

Job Title and Job Description

Job title

One opening for a Research Scientist or Postdoctoral Researcher

Job Description

The successful candidate will be responsible for analyzing the population-scale single-cell transcriptomic and epigenomic datasets generated within the Human Cell Atlas consortium and single-cell eQTL consortium (see above references). These analyses include but not limit to basic processing of single-cell data, unsupervised cell clustering, automated cell-types annotation, single-cell eQTL identification, cell-type specific enrichment of GWAS signal, polygenic risk scores, single-cell gene co-expression network and beyond. The project highlights the integration of genetic data with single-cell RNA-Seq/ATAC-Seq data to identify active functional non-coding elements across cell-types, aiming 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 either single-cell omics or human genetics are encouraged to apply.

The difference in positions is as follows:

  • *Research Scientist: Carries out research and other work in accordance with lab’s research themes.
  • *Postdoctoral Researcher: Carries out research and other work in accordance with lab’s research themes under the mentorship and training of supervisors.

Qualifications

  • 1.PhD holder in fields indicated under [Job description]. Candidates with less than three years postdoctoral experience will be considered for the position of Postdoctoral Researcher.
  • 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 in, or adequate knowledge of, either single-cell omics (e.g. scRNA-Seq) or human genetics (e.g. GWAS or eQTL).
  • 6.Should have an experience and knowledge in analyses of next-generation sequencing transcriptomic and epigenomic datasets.
  • 7.Should have deep interests in human genetics.
  • 8.Additional experience and knowledge in machine learning and artificial intelligence are meritorious, but not required.
  • 9.Should be highly motivated with competence in running projects independently.
  • 10.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.
  • 11.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

Salary and Benefits

Terms of contract

Research Scientist

  • 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, work load 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.
  • 3.The employee’s period of fixed-term employment cannot exceed 10 years from the initial date of hire (or 10 years from April 1, 2013 for fixed-term employees already at RIKEN prior to this date).

Postdoctoral Researcher

  • 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 3 years of employment.
  • 2.RIKEN may adjust the above maximum period of renewability based on a) the employee’s abilities, work load 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.
  • 3.The employee’s period of fixed-term employment cannot exceed 10 years from the initial date of hire (or 10 years from April 1, 2013 for fixed-term employees already at RIKEN prior to this date).

In principle, the first two months of employment is considered a trial period.

Salary will be commensurate with qualifications and experience. Commuting and housing allowances will be provided. Social insurance will be applied. 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.

Days off include public holidays, New Year's holidays (Dec. 29 - Jan 3), and RIKEN Foundation Day.
RIKEN has introduced telework as a temporary and special measure to prevent the spread of COVID-19. You may be asked to work from home according to the instructions of the institute. You can also choose to work from home with the permission of your supervisor.
No smoking on site (designated smoking areas available).
These and other provisions are in accordance with RIKEN regulations.

RIKEN is promoting a Gender Equality Program by taking various measures to create a workplace where both men and women are able to give full rein to their talents and abilities. When applicants are judged to be equally qualified on the basis of fair and impartial criteria, women applicants will be given preference.

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 send them to IMS-recruit [at] riken.jp

*Write “Application Documents; [IMS103-2101] Laboratory for Genome Information Analysis with your desired position (e.g. Research Scientist)” in the subject line.

  • 1.CV or CV
    with photograph and e-mail address (Please indicate the desired position (e.g. Research Scientist) and the open call ID [IMS103-2101] in the upper right corner of the CV.)
    • *Using the RIKEN format above is appreciated.
  • 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.”
    • *If the person providing the recommendation will send the letter directly, please send it to the address indicated in [Contact Information] below.
  • 5.PhD/Master degree diploma
    • *This document can be sent anytime up until the day of final interview.
  • 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

*Note: Application documents will not be returned.

Deadline

Until the position is filled

Handling 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 without just cause.

Selection Process

Only persons who pass the application screening will be interviewed. (Remote or face-to-face)

Start of Employment

Earliest date possible (negotiable)

Contact Information / Send application to

Any questions about this position should be sent to the email address given below. Please write “Open call (IMS103-2101) Laboratory for Genome Information Analysis, IMS” in the subject line.

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

For research-related questions

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

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