Connectionists: Research Engineer Position: NLP applied to biomedicine and biomaterials at BSC, Barcelona, Spain

[Martin Krallinger]

Dear all,

We are looking for motivated candidates to work on biomedical text mining
and NLP at my group, mainly on topics related to biomedical NLP
(biomaterials) in the context of two large Horizon Europe
international projects which enable direct collaboration with clinical
sites, research groups as well as technological partners.


*Reference:* 273_22_LS_TM_RE2

*Job title:* Research Engineer - Text Mining (RE2)

*Applications procedure and process**:*
https://www.bsc.es/join-us/job-opportunities/27322lstmre2




*Context And Mission*



The Text Mining Unit (PI Martin Krallinger) has several research lines
related to biomedical and clinical NLP and Text Mining activities with
particular interest in implementing advanced deep learning/transformer
based approaches as well as building and exploiting domain specific
language models.



Through collaboration with research groups, hospitals as well as project
partners (Horizon Projects) our aim is to develop real world applications
related to semantic annotation (NER) components, entity linking, semantic
text similarity, building and exploiting text-derived knowledge graph as
well as domain specific machine translation technologies.



We search for a Research Engineer in text mining / Natural Language
Processing (NLP), medical informatics, computational linguistics or
language engineering with a strong background in Machine Learning (ML), who
will be responsible for the implementation of text mining tools for the
Horizon BIOMATDB (https://biomatdb.eu) project.



*Key Duties*



   - Design, implementation, and evaluation of text mining, NLP, deep
   learning and ML tools and models applied to the biomaterials, chemistry,
   biology and biomedical application domain.
   - Coordination and organization of shared tasks and evaluation campaigns
   (like BioASQ, IberLEF,..).
   - Technical coordination and supervision of annotation projects to
   generate high-quality text corpora.
   - Integration of results and components into a biomaterials
   knowledgebase.



*Requirements*



Education

   - University degree in computer science, mathematics, statistics,
   Chemical engineering, materials engineering, data scientist, physics,
   bioinformatics, telecommunications, electrical engineering or equivalent.



Essential Knowledge and Professional Experience

   - Experience with Deep Learning and statistical data mining frameworks:
   Keras, Tensorflow, PySpark, PyTorch, Spacy, etc.
   - Experience with ML algorithms and techniques: LDA, Topic Modelling,
   LSTM, KNN, SVM, Decision Trees, Clustering, Word Embeddings, etc.
   - Experience in the development or management of software
   resources/tools, Github + Github projects.
   - Experience with NLP components and platforms.
   - Experience with named entity recognition and entity linking
   methodologies.



Additional Knowledge and Professional Experience

   - Strong programming skills in at least one of the following languages:
   Python, C++, Scala, R, Java.
   - Experience and skills related to bash, Docker, Kubernetes, Unity
   testing, Collab



Competences

   - Interest in biomaterial sciences, biomedicine and related application
   domains
   - Good communication and presentation skills.
   - Strong technical writing skills.
   - Ability to work both independently and within a team.
   - Used to work under pressure under strict deadlines



*Conditions*



   - The position will be located at BSC within the Life Sciences Department
   - We offer a full-time contract, a good working environment, a highly
   stimulating environment with state-of-the-art infrastructure, flexible
   working hours, extensive training plan, tickets restaurant, private health
   insurance, fully support to the relocation procedures
   - Duration: Open-ended contract due to technical and scientific
   activities linked to the project and budget duration
   - Salary: we offer a competitive salary commensurate with the
   qualifications and experience of the candidate and according to the cost of
   living in Barcelona
   - Starting date: ASAP






*About BSC*

The Barcelona Supercomputing Center - Centro Nacional de Supercomputación
(BSC-CNS) is the leading supercomputing center in Spain. It houses
MareNostrum, one of the most powerful supercomputers in Europe, and is a
hosting member of the PRACE European distributed supercomputing
infrastructure. The mission of BSC is to research, develop and manage
information technologies in order to facilitate scientific progress. BSC
combines HPC service provision and R&D into both computer and computational
science (life, earth and engineering sciences) under one roof, and
currently has over 770 staff from 55 countries.


-- 
=======================================
Martin Krallinger, Dr.
Head of Biological Text Mining Unit
Barcelona Supercomputing Center (BSC-CNS)
https://www.linkedin.com/in/martin-krallinger-85495920/
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