Bioinformatics Postdoc – Gencode Project (NIH-NHGRI)

The Institute



The Centre for Genomic Regulation (CRG) is an international biomedical research institute of excellence, based in Barcelona, Spain, with more than 400 scientists from 44 countries. The CRG is composed by an interdisciplinary, motivated and creative scientific team which is supported both by a flexible and efficient administration and by high-end and innovative technologies.

In April 2021, the Centre for Genomic Regulation (CRG) received the renewal of the 'HR Excellence in Research' Award from the European Commission. This is a recognition of the Institute's commitment to developing an HR Strategy for Researchers, designed to bring the practices and procedures in line with the principles of the European Charter for Researchers and the Code of Conduct for the Recruitment of Researchers (Charter and Code).



Please, check out our Recruitment Policy



The role



Our group is involved in the GENCODE project (www.gencodegenes.org), which aims to provide a high-quality, comprehensive map of genes and regulatory elements in the human and mouse genomes. Within this framework, the Guigó lab is responsible for producing high-quality transcriptome sequencing data for the consortium, with the goal of improving the annotation of long noncoding RNA (lncRNA) genes. To achieve this, our experimental group applies cutting-edge targeted long-read RNA sequencing methods such as CLS (Capture Long-Seq), a technique we developed at the CRG (doi: 10.1038/ng.3988).



We are searching for a talented post-doctoral researcher with a strong computational background to join the group. Your role will be to collaborate closely with our experimental team to help optimize protocols, conduct quality control, and develop analysis pipelines. Additionally, a significant component of the post-doc's role will involve tackling fundamental biological questions related to the role of lncRNAs in mammalian biology. Specifically, we are interested in the discovery and characterization of novel transcriptional elements that have previously escaped detection but can be accessed through CLS.



About the lab



The overarching theme of the research in our lab is the understanding of the information encoded in genomic sequences, and how this information is processed in the pathway leading from DNA to RNA and protein sequences. More specifically, we are interested in the epigenetic regulation of gene expression and RNA processing, the relationship between molecular phenotypes and higher-order endophenotypes and organismal phenotypes, and the identification of functional regions on the genome of all living beings. Our group is mostly computational, and we do both large scale data analysis and development of methods, but it has also an important experimental component. We are past and current members of many large scale international functional genomics projects, such as ENCODE, GTEx, BluePrint and others.



Whom would we like to hire?



Professional experience



Must Have

- Broad experience in writing, testing and deploying computational pipelines/workflows

- Solid experience working with high-throughput transcriptome sequencing data

- Experience in large-scale statistical analysis of data

- Background/experience in building statistical and/or machine learning methods, in particular for data integration tasks, would be a plus

- Experience in the development and/or implementation of algorithms and/or computational pipelines, would be a plus



Desirable but not required/ Nice to have

- Experience with long-read technologies (e.g. Pacific Biosciences, Oxford Nanopore Technologies)

- You have been part of a team involved in the GENCODE or ENCODE project

- Experience in genome annotation



Education and training

- PhD in Bioinformatics or related field (with more than 5 years’ experience)



Languages

- Highly proficient in both spoken and written English



Technical skills

- Experience in large-scale statistical analysis of data

- Data visualisation

- Good knowledge of Linux systems, command line tools and scripting languages such as Bash, Awk and Perl

- Excellent coding abilities in Python and R

- Bash scripting in a Linux environment, ideally tailored to an HPC infrastructure

- Containerized workflows and DSLs, e.g.: Nextflow, SnakeMake

- Broad knowledge of mammalian transcriptomics, including relevant laboratory techniques

- Version control tools, e.g.: Git



Competences

- You have highly developed organization skills

- You have the capacity to work both independently and within a team, particularly with experimentalists

- You are excellence driven



The Offer – Working Conditions



- Contract duration: Technical and scientific activities contract linked to the project (estimated one-year contact with the possibility of extension)

- Estimated annual gross salary: Salary is commensurate with qualifications and consistent with our pay scales 

- Target start date: As soon as possible.



We provide a highly stimulating environment with state-of-the-art infrastructures, and unique professional career development opportunities. To check out our training and development portfolio, please visit our website in the training section.

We offer and promote a diverse and inclusive environment and welcomes applicants regardless of age, disability, gender, nationality, ethnicity, religion, sexual orientation or gender identity.

The CRG is committed to reconcile a work and family life of its employees and are offering extended vacation period and the possibility to benefit from flexible working hours.

Application Procedure


All applications must include:



1. A motivation letter addressed to Dr Roderic Guigó

2. A complete CV including contact details.

3. Contact details of two referees.



All applications must be addressed to Dr. Roderic Guigó and be submitted online on the CRG Career site - http://www.crg.eu/en/content/careers/job-opportunities



Selection Process



- Pre-selection: The pre-selection process will be based on qualifications and expertise reflected on the candidates CVS. It will be merit-based.

- Interview: Preselected candidates will be interviewed by the Hiring Manager of the position and a selection panel if required.

- Offer Letter: Once the successful candidate is identified the People department will send a Job Offer, specifying the start day, salary, working conditions, among other important details.



Deadline: Please submit your application by June 15th, 2024.



Text BoxDeadline: The CRG believes in ongoing improvement and promotes a culture of feedback. This is one of the reasons we have in place, at your disposal as a candidate, a mechanism to gather your suggestions/complaints concerning your candidate experience in our recruitment processes. Your feedback really matters to us in our aim at creating a positive candidate journey. You can make a difference and help us improve by letting us know your suggestions through the following form.




Supported by the National Human Genome Research Institute of the National Institutes of Health under Award Number U24 HG007234-09