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Postdoctoral fellow.

The Sikora Lab at the University of Colorado Denver l Anschutz Medical Campus welcomes applications for a Postdoctoral Fellow.

Dr. Sikora’s lab is at the forefront of advancing artificial intelligence to enhance medication management in the intensive care unit. By developing foundational technologies and conducting cutting-edge research in natural language processing (NLP) and machine learning (ML) with innovative artificial intelligence (AI), the lab is dedicated to creating powerful tools that tackle critical healthcare challenges and integrate seamlessly into healthcare systems. We are seeking passionate individuals who are driven to significantly impact the field through groundbreaking research and inventive solutions.

Responsibilities also include contributing to the ideation and design of new studies, managing data cleaning and wrangling efforts, and preparing scientific communications such as abstracts, oral and poster presentations, scientific manuscripts, and research grant proposals. The projects within the lab aim to transform healthcare through AI by improving medication use.

The postdoc and PI will jointly envision projects tailored to the fellow’s skillset and long-term career goals. Postdocs will be expected to carry out computational research, analyze data, and disseminate their findings, software, and data to the biomedical community. The postdoc will also join a highly interactive, supportive, and interdisciplinary group of faculty, staff scientists, postdoctoral fellows, engineers, and students in Department for Biomedical Informatics. They will enjoy access to state-of-the-art equipment and facilities on the Anschutz Medical Campus.

The Department of Biomedical Informatics fosters a thriving community of researchers at the University of Colorado School of Medicine who are inventing and deploying advanced analytics and knowledge integration approaches. The goal of building this community is to make the Anschutz Medical Campus a leader in translating data into advances in research practice, health care delivery, and population health and in scaling these to provide nationwide benefit through innovative technologies.

Key Responsibilities:

Research (65%)

  • Investigate literatures to identify existing solutions and the problem

  • Develop and apply state-of-the-art natural language processing algorithms and models to multimodal data (unstructured and structured text, knowledge graph, etc)

  • Design and conduct experiments to test hypotheses with applied statistics

  • Analyze and interpret results, present research progress to meetings with PIs, and publish results to peer-reviewed manuscripts in conference proceedings and journals 

  • Assist PI with grant writing

 

Communication (15%)

  • Present research progress at lab meeting and project meetings with collaborators

  • Prepare abstract/manuscripts for journal and conference paper submission, present at the local and international conferences.

 

Mentoring and collaboration (10%)

  • Mentor and train other group members, such as graduate and undergraduate students.

  • Pursue computational, experimental, and clinical collaborations.

 

Career development (5%)

  • Work with the PI to develop and progress the candidate’s career goals.

  • Attend career development seminars and networking events.

 

Administrative Duties (5%)

  • Complete required research training.

  • Perform general administrative duties as requested by the PI.

Minimum Qualifications:

 

  • PhD in Computer Science, Artificial Intelligence, Data Science, Computational Linguistics, Machine learning, Biomedical Informatics or related fields

 

Applicants must meet minimum qualifications at the time of hire.

 

Preferred Qualifications:

  • Experience in developing and training NLP/deep learning models on GPUs (with framework such as PyTorch, tensorflow)

  • Experience performing large-scale data analysis, such as data-wrangling, statistics, or machine learning.

  • Demonstrated experience with NLP state-of-the-art models (Llama, Mistral, GPT-4, BERT etc)

  • Publications on workshop, conferences, and journals in NLP/AI such as ACL, EMNLP, COLING, AAAI 

  • Experience with high-performance computing environments or cloud computing.

  • Experience with biomedical dataset and electronic health record is preferred, but not a must

 

Knowledge, Skills and Abilities:

  • Demonstrated commitment to promoting inclusion in the workplace.

  • Proficiency in scientific communication as evidenced by peer-reviewed conference proceedings (journals) manuscripts and presentations at national or international conferences.

 

For full consideration, please submit the following document(s):

  1. A letter of interest describing relevant job experiences as they relate to listed job qualifications and interest in the position

  2. Curriculum vitae / Resume

  3. Five professional references including name, address, phone number (mobile number if appropriate), and email address

Applications are accepted electronically ONLY at www.cu.edu/cu-careers.

Questions should be directed to: andrea.sikora [at] cuanschutz [dot] edu

Postdoctoral pharmacy fellow.

The Sikora Lab at the University of Colorado Denver l Anschutz Medical Campus welcomes applications for a Postdoctoral Pharmacy Fellow.

Fellowship Purpose:  The purpose of the Critical Care Pharmacy Research Fellowship is to provide a clinical pharmacist with the essential research training and experience to become independent, established, and ethical clinician-scientists.

Learning Objectives: Fellowship learning activities will be divided among research, teaching, and service. This is proposed criteria is based on a 12-month program; however, a 24-month program that includes a certificate program and expanded manuscript/grant expectations may be planned on based on interest and availability. Options to complete a masters degree, submit for federal funding, and clinical service are available.

Dr. Sikora’s lab is at the forefront of advancing artificial intelligence to enhance medication management in the intensive care unit. By developing foundational technologies and conducting cutting-edge research in natural language processing (NLP) and machine learning (ML) with innovative artificial intelligence (AI), the lab is dedicated to creating powerful tools that tackle critical healthcare challenges and integrate seamlessly into healthcare systems. We are seeking passionate individuals who are driven to significantly impact the field through groundbreaking research and inventive solutions.

Responsibilities also include contributing to the ideation and design of new studies, managing data cleaning and wrangling efforts, and preparing scientific communications such as abstracts, oral and poster presentations, scientific manuscripts, and research grant proposals. The projects within the lab aim to transform healthcare through AI by improving medication use.

The postdoc and PI will jointly envision projects tailored to the fellow’s skillset and long-term career goals. Postdocs will be expected to carry out computational research, analyze data, and disseminate their findings, software, and data to the biomedical community. The postdoc will also join a highly interactive, supportive, and interdisciplinary group of faculty, staff scientists, postdoctoral fellows, engineers, and students in Department for Biomedical Informatics. They will enjoy access to state-of-the-art equipment and facilities on the Anschutz Medical Campus.

The Department of Biomedical Informatics fosters a thriving community of researchers at the University of Colorado School of Medicine who are inventing and deploying advanced analytics and knowledge integration approaches. The goal of building this community is to make the Anschutz Medical Campus a leader in translating data into advances in research practice, health care delivery, and population health and in scaling these to provide nationwide benefit through innovative technologies.

Key Responsibilities:

Research (60%)

  • Investigate literature to identify existing solutions and the problem

  • Design and conduct experiments to test hypotheses with applied statistics

  • Analyze and interpret results, present research progress to meetings with PIs, and publish results to peer-reviewed manuscripts in conference proceedings and journals 

  • Assist PI with grant writing

 

Communication (10%)

  • Present research progress at lab meeting and project meetings with collaborators

  • Prepare abstract/manuscripts for journal and conference paper submission, present at the local and international conferences.

 

Mentoring and collaboration (5%)

  • Mentor and train other group members, such as graduate and undergraduate students.

  • Pursue computational, experimental, and clinical collaborations.

 

Career development (5%)

  • Work with the PI to develop and progress the candidate’s career goals.

  • Attend career development seminars and networking events.

 

Clinical service (20%)

  • Serve as a clinical pharmacist

Administrative Duties (5%)

  • Complete required research training.

  • Perform general administrative duties as requested by the PI.

 

Minimum Qualifications:

  • Doctor of Pharmacy (PharmD)

  • Post-graduate year one (PGY1) pharmacy residency

  • Demonstrated interest/aptitude for a career in clinical pharmacy conducting research

 

Applicants must meet minimum qualifications at the time of hire.

 

Preferred Qualifications:

  • Post-graduate year two (PGY2) in critical care, cardiology, internal medicine, pharmacotherapy, or emergency medicine (or commensurate experience)

 

Knowledge, Skills and Abilities:

  • Demonstrated commitment to promoting inclusion in the workplace.

  • Proficiency in scientific communication as evidenced by peer-reviewed conference proceedings (journals) manuscripts and presentations at national or international conferences.

 

For full consideration, please submit the following document(s):

  1. A letter of interest describing relevant job experiences as they relate to listed job qualifications and interest in the position

  2. Curriculum vitae / Resume

  3. Five professional references including name, address, phone number (mobile number if appropriate), and email address

Applications are accepted electronically ONLY at www.cu.edu/cu-careers.

Questions should be directed to: Yanjun Gao, yanjun.gao@cuanschutz.edu

Applications are accepted electronically ONLY at www.cu.edu/cu-careers.

Questions should be directed to: andrea.sikora [at] cuanschutz [dot] edu

Data Scientist (Open Rank)

Join Dr. Sikora’s lab at the forefront of developing and integrating cutting-edge natural language processing (NLP) and artificial intelligence (AI) to revolutionize real-world applications in medicine and health. This role offers a unique opportunity to be part of a pioneering team that develops advanced AI solutions to tackle some of the most pressing challenges in healthcare. As a Data Scientist (NLP/AI) in our lab, you will be instrumental in advancing language technologies that improve the accuracy and efficiency of medical diagnostics and patient care documentation. This position not only allows you to contribute to meaningful and transformative projects but also to grow professionally in a dynamic, interdisciplinary environment.

Day-to-day, you will be immersed in a variety of exciting projects, such as enhancing and evaluating large language models (LLMs) for diagnostic decision-making, optimizing LLM training for low-resource environments, and assessing model explainability. You'll work closely with a team of graduate students, postdocs, and other collaborators to develop innovative AI models, create software tools, and establish robust data processing pipelines. Your contributions will directly impact our ongoing efforts to transform healthcare through AI, making this role crucial to the success of our department and the broader university community.

 

Key Responsibilities:

  • Conduct comprehensive literature reviews to identify existing solutions and their limitations and develop advanced NLP algorithms for multimodal data.

  • Design and conduct experiments to validate hypotheses using applied statistics, clean and preprocess data for model training, and debug code to analyze complex datasets.

  • Develop reproducible research pipelines and maintain thorough documentation on GitHub.

  • Assist the Principal Investigator (PI) with grant writing and the development of research proposals.

  • Present research findings and progress at lab and collaborative meetings, also prepare and submit manuscripts and abstracts for publication in scientific journals and conferences.

  • Support lab members and collaborators with research tasks and manage lab logistics, including the lab website and server infrastructure.

  • Adhere to responsible conduct of research guidelines, participate in ethics training sessions, and monitor compliance with research ethics.

Minimum Qualifications:

Entry Professional:

  • Bachelor's degree in Computer Sciences, Data Science or related field.

    • A combination of education and related technical/paraprofessional experience may be substituted for the bachelor’s degree on a year for year basis.

 

Intermediate Level:

  • Bachelor's degree in Computer Sciences, Data Science or related field.

    • A combination of education and related technical/paraprofessional experience may be substituted for the bachelor’s degree on a year for year basis.

  • One (1) year of related natural language processing and artificial intelligence experience.

  • One (1) year of experience with NLP/deep learning frameworks such as PyTorch and TensorFlow.

  • One (1) year of experience with NLP state-of-the-art models (BERT, Llama, Mistral, etc.).

  • One (1) year of experience with training models on GPUs.

  • One (1) year of experience working with Unix and/or Linux, including shell scripting.

 

Senior Level: 

  • Bachelor's degree in Computer Sciences, Data Science or related field.

    • A combination of education and related technical/paraprofessional experience may be substituted for the bachelor’s degree on a year for year basis.

  • Two (2) years of related natural language processing and artificial intelligence experience.

  • Two (2) years of experience with NLP/deep learning frameworks such as PyTorch and TensorFlow.

  • Two (2) years of experience with NLP state-of-the-art models (BERT, Llama, Mistral, etc.).

  • Two (2) years of experience with training models on GPUs.

  • Two (2) years of experience working with Unix and/or Linux, including shell scripting.

 

Principal Level:

  • Bachelor's degree in related Computer Sciences, Data Science or related field.

    • A combination of education and related technical/paraprofessional experience may be substituted for the bachelor’s degree on a year for year basis.

  • Three (3) years of related natural language processing and artificial intelligence experience.

  • Three (3) years of experience with NLP/deep learning frameworks such as PyTorch and TensorFlow.

  • Three (3) years of experience with NLP state-of-the-art models (BERT, Llama, Mistral, etc.).

  • Three (3) years of experience with training models on GPUs.

  • Three (3) years of experience working with Unix and/or Linux, including shell scripting.

 

Applicants must meet minimum qualifications at the time of hire.

 

Preferred Qualifications:

  • Documented opensource contributions.

  • Experience with biomedical data.

  • One (1) to four (4) years of experience with cloud-based computing solutions (AWS, Google Cloud Platform, etc.).

  • One (1) to four (4) years of experience developing NLP/deep learning frameworks such as PyTorch and TensorFlow.

  • One (1) to four (4) years of experience with NLP state-of-the-art models (BERT, Llama, Mistral, etc.).

  • One (1) to four (4) years of experience implementing NLP/AI algorithms and models for real-world applications.

 

Knowledge, Skills, and Abilities:

  • Ability to communicate effectively, both in writing and orally.

  • Ability to establish and maintain effective working relationships with employees at all levels throughout the institution and with geographically distributed collaborators.

  • Demonstrated commitment and leadership ability to advance diversity and inclusion.

  • Advanced knowledge of NLP and AI principles, including concept in computational linguistics, neural networks, deep learning, searching algorithms.

  • Advanced knowledge of basic statistical principles relevant in medical research.

  • Ability to clearly document code.

  • Ability to analyze and solve complex problems and apply quantitative analytical approaches.

  • Demonstrated proficiency in Python, with a focus on NLP frameworks such as Transformers, spaCy, and expertise in training large language models (LLMs) on GPUs, including skills of prompting, fine-tuning methodologies such as full fine-tuning, using Adapters, and applying LoRa.

  • Ability to interact with people of varying technical levels to gather requirements and understand existing systems relevant to the challenges at hand.

  • Ability to interact effectively and respectfully in a team with complementary competencies.

 

For full consideration, please submit the following document(s):

 

  1. Curriculum vitae / Resume

  2. Links to 1-3 source code repositories with open source contributions, if applicable. 

  3. Three to five professional references, including name, address, phone number (mobile number if appropriate), and email address.

Graduate Student

​​We are looking for talented and motivated individuals to join the Sikora Lab as graduate students. If you're interested, please apply to one of the graduate programs we are affiliated with the Computational Biosciences Program. You will be a great fit if you have a background in bioinformatics, computational biology, genetics, statistics, computer science, machine learning, or other closely related fields. Having healthcare and programming experience in Python and/or R are big advantages.

 

What will you get

  • Our goal is to help our students to develop both a skillset in healthcare based informatics methodology.

  • We are committed to providing extensive research training through group meetings, individual meetings, peer-to-peer support, collaborative research, journal clubs, technical workshops, and national/international conferences.

  • Our students will get to work with a bunch of really smart and fun colleagues in a friendly and supportive environment.

  • In addition to being your scientific mentor, my primary responsibility is to help your personal and professional growth. I am passionate about the role of mentorship in career development. You will always find in me an audience to discuss opportunities and challenges and a strong advocate for your interests.

 

Find out more​

If you are already at CU, please e-mail me to set up a time to discuss your interests.

If you are elsewhere and interested in joining the lab, please e-mail me with your CV and a cover letter that (briefly, in three paragraphs):

  • summarizes your preparation (academics, work experience),

  • notes some highlights: particularly tough courses you took, research experience in an academic/industry/healthcare setting, any publications you have co-authored, etc.

  • explains what you know of our work

For any inquiries or collaborations, please fill out the contact form below and we will get back to you as soon as possible:

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