BSBT4001 · workspace

Algorithmic Bioinformatics

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Weekly outline

Syllabus

Week topics from the course map

00W00

Topic

Incomplete

01W01

Why computational biology?

Incomplete

02W02

Where in the Genome Does DNA Replication Begin? - Algorithmic warmup (frequent exact/inexact k-mers in a string).

Incomplete

03W03

Which DNA Patterns Play the Role of Molecular Clocks? - Randomized Algorithms (randomized motif search, Gibbs sampling).

Incomplete

04W04

How Do We Assemble Genomes? - Graph Algorithms (Eulerian paths, de Bruijn graphs).

Incomplete

05W05

How Do We Compare Biological Sequences? - Dynamic Programming (edit distance, single/multiple sequence alignment).

Incomplete

06W06

Which Animal Gave Us SARS? - Evolutionary Tree Reconstruction (distance-based phylogeny, neighbor-joining algorithm).

Incomplete

07W07

How Did Yeast Become a Winemaker? - Clustering Algorithms (hard and soft k-means).

Incomplete

08W08

How Do We Locate Disease-Causing Mutations? - Combinatorial Pattern Matching (suffix trees/arrays, Burrows-Wheeler transform).

Incomplete

09W09

Why Have Biologists Still Not Developed an HIV Vaccine? - Hidden Markov Models (Viterbi and forward–backward algorithms).

Incomplete

010W10

Was T. rex Just a Big Chicken? - Computational Proteomics (peptide identification and spectral match).

Incomplete

011W11

Which Motifs Are Hidden in a Biological Network? - Randomized Algorithms (colour coding for long paths in graphs).

Incomplete

Study tools

Memorize first

Compact recall strip

Open notes

1 min

Learning Objectives

Open this first for the core logic and traps.

Dive in

2 min

Learning Objectives

Open this first for the core logic and traps.

Dive in

2 min

Learning Objectives

Open this first for the core logic and traps.

Dive in

Practice Dock

One drill at a time, with Theo hints, teacher lanes, and a replay queue.

Use this when the theory is already clear and the goal is fast, clean retrieval under pressure. Mark weak questions, copy a revision pack, and move on.

TheoTeacherTextbookSpeedrun

Ask less. Recall more.

Open Practice Dock

SM-2 Active

Spaced Repetition

Flashcards

Spaced repetition engine for long-term retention of core concepts.

Start session

Not Available

Interactive Simulations

Visual Labs

Exam Mode

Adaptive Practice

Mock Exam

Set paper

Code Protocol

OPPE Simulator

Secure Comm-Link Terminal

Secure Comm-Link // @IITMadrasBSDegreeProgramme

Uplink 12ms

Syllabus Synchronization: Active

Open current cue

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Foundational

Diploma

BSc Degree

BS Degree

PG / MTech

BSBT4001

BS Degree

4 Credits

Algorithmic Thinking in Bioinformatics

To prepare students to develop an algorithmic thinking to address key data science challenges in bioinformatics, to acquire knowledge of various pr...

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Execution Protocol

Module 0

Topic

Module 1

Why computational biology?

Module 2

Where in the Genome Does DNA Replication Begin? - Algorithmic warmup (frequent exact/inexact k-mers in a string).

Module 3

Which DNA Patterns Play the Role of Molecular Clocks? - Randomized Algorithms (randomized motif search, Gibbs sampling).

Module 4

How Do We Assemble Genomes? - Graph Algorithms (Eulerian paths, de Bruijn graphs).

Module 5

How Do We Compare Biological Sequences? - Dynamic Programming (edit distance, single/multiple sequence alignment).

Module 6

Which Animal Gave Us SARS? - Evolutionary Tree Reconstruction (distance-based phylogeny, neighbor-joining algorithm).

Module 7

How Did Yeast Become a Winemaker? - Clustering Algorithms (hard and soft k-means).

Module 8

How Do We Locate Disease-Causing Mutations? - Combinatorial Pattern Matching (suffix trees/arrays, Burrows-Wheeler transform).

Module 9

Why Have Biologists Still Not Developed an HIV Vaccine? - Hidden Markov Models (Viterbi and forward–backward algorithms).

Module 10

Was T. rex Just a Big Chicken? - Computational Proteomics (peptide identification and spectral match).

Module 11

Syllabus

Topic

Why computational biology?

Where in the Genome Does DNA Replication Begin? - Algorithmic warmup (frequent exact/inexact k-mers in a string).

Which DNA Patterns Play the Role of Molecular Clocks? - Randomized Algorithms (randomized motif search, Gibbs sampling).

How Do We Assemble Genomes? - Graph Algorithms (Eulerian paths, de Bruijn graphs).

How Do We Compare Biological Sequences? - Dynamic Programming (edit distance, single/multiple sequence alignment).

Which Animal Gave Us SARS? - Evolutionary Tree Reconstruction (distance-based phylogeny, neighbor-joining algorithm).

How Did Yeast Become a Winemaker? - Clustering Algorithms (hard and soft k-means).

How Do We Locate Disease-Causing Mutations? - Combinatorial Pattern Matching (suffix trees/arrays, Burrows-Wheeler transform).

Why Have Biologists Still Not Developed an HIV Vaccine? - Hidden Markov Models (Viterbi and forward–backward algorithms).

Was T. rex Just a Big Chicken? - Computational Proteomics (peptide identification and spectral match).

Which Motifs Are Hidden in a Biological Network? - Randomized Algorithms (colour coding for long paths in graphs).

Compact recall strip

One drill at a time, with Theo hints, teacher lanes, and a replay queue.

Flashcards

Visual Labs

Mock Exam

OPPE Simulator

Secure Comm-Link Terminal

Syllabus Matrix Registry

Master Registry

Foundational

Diploma

BSc Degree

BS Degree

PG / MTech

Algorithmic Thinking in Bioinformatics

Execution Protocol

Topic

Why computational biology?

Where in the Genome Does DNA Replication Begin? - Algorithmic warmup (frequent exact/inexact k-mers in a string).

Which DNA Patterns Play the Role of Molecular Clocks? - Randomized Algorithms (randomized motif search, Gibbs sampling).

How Do We Assemble Genomes? - Graph Algorithms (Eulerian paths, de Bruijn graphs).

How Do We Compare Biological Sequences? - Dynamic Programming (edit distance, single/multiple sequence alignment).

Which Animal Gave Us SARS? - Evolutionary Tree Reconstruction (distance-based phylogeny, neighbor-joining algorithm).

How Did Yeast Become a Winemaker? - Clustering Algorithms (hard and soft k-means).

How Do We Locate Disease-Causing Mutations? - Combinatorial Pattern Matching (suffix trees/arrays, Burrows-Wheeler transform).

Why Have Biologists Still Not Developed an HIV Vaccine? - Hidden Markov Models (Viterbi and forward–backward algorithms).

Was T. rex Just a Big Chicken? - Computational Proteomics (peptide identification and spectral match).

Which Motifs Are Hidden in a Biological Network? - Randomized Algorithms (colour coding for long paths in graphs).

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