Lectures related to Sequence Alignment: Implementation and Submission

Needleman-Wunsch Algorithm: Sequence Alignment

Covers the Needleman-Wunsch algorithm for optimal protein sequence alignment using dynamic programming and scoring methods.

Understanding Generative Models of Protein Sequences

Explores a unified framework for understanding and evaluating generative sequence models of DNA/RNA or Protein, covering topics like coevolution, conservation, and different models such as GREMLIN and BERT.

Protein Residue Coevolution Analysis

Delves into analyzing residue coevolution in protein families to capture native contacts and predict spatial proximity and protein interactions.

Genetic Distance Calculation

Explores DNA sequence alignment, genetic distance calculation, and the impact of incorrect alignments during meiosis.

Protein Structure Prediction

Delves into predicting protein structure through amino acid contact analysis and advanced computational methods.

Genetic Distance Calculation

Explores genetic distance calculation, sequence alignment, and the impact of friction.

Biological structure and function emerge from unsupervised learning

Delves into how biological structure and function are decoded through unsupervised learning of protein sequences.

Protein Structure Prediction: AlphaFold Evolution and OpenFold Insights

Explores the evolution of protein structure prediction with AlphaFold models and introduces OpenFold insights.

Protein Folding: From DCA to AlphaFold

Explores the evolution of protein folding techniques, from DCA to AlphaFold.

Logistics Elements: Project Implementation and Code Provided

Covers the logistics elements of a mini-project and the implementation of provided code.

Protein Co-evolution Analysis

Delves into protein co-evolution analysis, covering discoveries, residue contacts, and direct coupling analysis.

Genome Sequencing and Autism Neurobiology

Covers the process of library preparation and data processing in genome sequencing, and discusses a large-scale study on autism neurobiology.

State Space Models: Expressivity of Transformers

Covers state space models and the expressivity of transformers in sequence copying tasks.

Automation in Protein Identification: Techniques and Workflows

Covers the automation of protein identification using liquid chromatography and mass spectrometry techniques.

Constructing Phylogenetic Trees: UPGMA Algorithm

Covers the UPGMA algorithm for constructing phylogenetic trees and understanding genetic relationships.

Protein Design: Structure and Function

Covers protein design fundamentals, including secondary structures, amino acid propensity, loops, and computational methods.

Protein Hydropathy Analysis

Explores protein hydropathy analysis using ProtScale tool for human beta globin and aquaporin 1.