Universitat Internacional de Catalunya

Artificial Intelligence II

Artificial Intelligence II
4
14874
4
Second semester
op
Main language of instruction: English

Other languages of instruction: Catalan, Spanish

Teaching staff


Dra. ÁLVAREZ DE LA CAMPA CRESPO, Elena - ealvarezdelacampa@uic.es

Introduction

This second part of the course offers a deep dive into the application of Artificial Intelligence (AI) techniques in the field of biomedicine. 

Throughout the programme, students will learn to implement and evaluate AI models in a real biomedical context, addressing everything from predicting drug sensitivities to interpreting genetic variants and recognising biomedical images using convolutional neural networks.

Pre-course requirements

It is recommended to have completed and passed:

  • Introduction to Bioinformatics
  • Biological Databases

It is recommended to take in parallel:

  • Artificial Intelligence I
  • Programming Knowledge

Objectives

  • Understand and apply AI techniques in biomedicine.
  • Develop practical skills in cleaning and preparing biomedical data.
  • Learn to build and evaluate classification and regression models to solve real problems in biomedicine.
  • Explore the application of advanced algorithms, such as convolutional neural networks, in the analysis of biomedical images.

Competences/Learning outcomes of the degree programme

  • CB01 - Students must demonstrate that they have and understand knowledge in an area of study that is based on general secondary education, and it tends to be found at a level that, although it is based on advanced textbooks, also includes some aspects that involve knowledge from the cutting-edge of their field of study.
  • CB03 - Students must have the ability to bring together and interpret significant data (normally within their area of study) to issue judgements that include a reflection on significant issues of a social, scientific and ethical nature.
  • CB04 - That students can transmit information, ideas, problems and solutions to specialist and non-specialist audiences.
  • CB05 - That students have developed the necessary learning skills to undertake subsequent studies with a high degree of autonomy.
  • CE07 - To apply statistical tools to Health Science studies.
  • CE19 - To be aware of the principles of biomedical science related to health and learn how to work in any field of Biomedical Sciences (biomedical companies, bioinformatics laboratories, research laboratories, clinical analysis companies, etc.).
  • CG07 - To incorporate basic concepts related to the field of biomedicine both at a theoretical and an experimental level.
  • CG10 - To design, write up and execute projects connected to the field of Biomedical Sciences.
  • CG11 - To be aware of basic concepts from different fields connected to biomedical sciences.
  • CT01 - To develop the organisational and planning skills that are suitable in each moment.
  • CT02 - To develop the ability to resolve problems.
  • CT03 - To develop analytical and summarising skills.
  • CT04 - To interpret experimental results and identify consistent and inconsistent elements.
  • CT05 - To use the internet as a means of communication and a source of information.
  • CT06 - To know how to communicate, give presentations and write up scientific reports.
  • CT07 - To be capable of working in a team.
  • CT08 - To reason and evaluate situations and results from a critical and constructive point of view.
  • CT09 - To have the ability to develop interpersonal skills.
  • CT10 - To be capable of autonomous learning.
  • CT11 - To apply theoretical knowledge to practice.
  • CT12 - To apply scientific method.
  • CT13 - To be aware of the general and specific aspects related to the field of nutrition and ageing.
  • CT14 - To respect the fundamental rights of equality between men and women, and the promotion of human rights and the values that are specific to a culture of peace and democratic values.

Learning outcomes of the subject

  • Theoretical Understanding and Practical Application of AI in Biomedicine:
    • Acquire a deep understanding of the role of AI in biomedicine.
    • Apply AI in biomedical contexts, such as in drug discovery and genetic analysis.
  • Skills in Handling and Analyzing Biomedical Data:
    • Develop practical skills in cleaning, preparing, and analyzing biomedical data.
    • Interpret genetic and molecular data in clinical and research contexts.
  • Development and Evaluation of Classification and Regression Models:
    • Build and evaluate classification and regression models in biomedicine.
    • Understand and apply advanced techniques like convolutional neural networks in the analysis of biomedical images.
  • Critical Evaluation and Research Strategies:
    • Analyse and critically evaluate the results of AI models.
    • Propose research strategies and clinical applications based on AI.
  • Professional Development and Career Guidance:
    • Gain insight into the opportunities and challenges in careers related to bioinformatics and biomedicine.
    • Develop communication and presentation skills for AI topics in biomedicine.

Syllabus

  1. Introduction (2h): The Growing Role of Artificial Intelligence in Healthcare. An overview of how AI is transforming the field of health and biomedicine.
  2. Classification Models in Biomedicine (20h):
    • AI in Drug Discovery.
    • Implementation of a classification pipeline from scratch: data cleaning, preprocessing, and result evaluation. Focus on the application of AI in drug discovery from a biomedical perspective.
      • Theory and practice on data preparation and data splitting, using gene expression data and drug sensitivity.
      • Training and evaluation of a Random Forest classifier, addressing issues such as class imbalance and feature selection.
      • Focus on predicting the sensitivity of chemical compounds to specific cell lines, including representation of chemical fingerprints and adapting the pipeline to predict off-target toxicity.
      • Overview of Deep Learning in drug discovery and discussion about applications and career paths in bioinformatics and biomedicine.
  3. Regression Models in Biomedicine (8h):
    • Focus on predicting the molecular impact of genetic variants using regression models.
      • Theory and exercises on molecular impact of variants and building regression models.
      • Binarization of regression models, comparison with classifiers, and analysis of in silico tools.
  4. Convolutional Neural Networks in Biomedicine (10h):
    • Application of CNNs in the analysis of biomedical images.
      • Introduction to CNNs and preparation of biomedical image data.
      • CNN architectures and model optimization in biomedicine.
      • Model evaluation and analysis of results in biomedical AI projects.

Teaching and learning activities

In person



  • Lectures in blocks of between 15 and 50 minutes on a theoretical topic to be developed by the professor.
  • Clinical cases or case methods (CM): Presentation of a real or imaginary situation. Students work on the questions formulated in small groups or in active interaction with the teacher and the answers are discussed. The teacher intervenes actively and, if necessary, contributes new knowledge.
  • Virtual education (VE): Online material that students can consult from any computer at any time and that will contribute to self-learning of concepts related to the course.

Evaluation systems and criteria

In person



  • Students in the first call:
    • Continuous Assessment (35%): Includes practical exercises and short tests. 
    • Final Theoretical Exam (65%): Assessment of theoretical knowledge and understanding of the AI II concepts applied to biomedicine covered during the course. 
    • Subjective Component (up to 10%): Up to 10% of the final grade may be allocated based on subjective criteria such as engagement, participation, and adherence to rules, to encourage an active and committed attitude in the classroom. 
  • Students in the second or subsequent call: The Continuous Assessment grade is retained, and the final exam will account for 75% of the final grade. 

General points to consider about the evaluation system:

  • To calculate an average grade, a minimum score of 5 is required in the final exam. 
  • In addition to the above, to pass the course, the average of all grades must be 5 or higher. 
  • The ongoing nature of this assessment means that it is not possible to evaluate the subject if participation in 75% of the hours has not been achieved. 
  • Misuse of electronic devices (such as recording and distributing content of students or teachers during sessions, as well as using these devices for non-educational purposes) can lead to expulsion from the class.

Evaluation period

E: exam date | R: revision date | 1: first session | 2: second session:
  • E2 27/06/2024 A04 18:00h
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