Free energy calculation by LIE Method using BFEER
Scribbles in Bioinformatics
Free energy calculation by LIE Method using BFEER
14:39
Download and install BFEER on your PC
Scribbles in Bioinformatics
Download and install BFEER on your PC
4:46
Performing MMPBSA using VMD Plugin BFEER
Scribbles in Bioinformatics
Performing MMPBSA using VMD Plugin BFEER
11:54
Day5: Cluster analysis 2, MMPBSA, Linear Interaction Energy (LIE) Free energy estimation
Scribbles in Bioinformatics
Day5: Cluster analysis 2, MMPBSA, Linear Interaction Energy (LIE) Free energy estimation
1:29:47
Day4: Cluster Analysis part 1 (shifting from NAMD to Gromacs)
Scribbles in Bioinformatics
Day4: Cluster Analysis part 1 (shifting from NAMD to Gromacs)
46:47
Day3: Trajectory formatting, analysis (RMSD, RMSF, RG, Hydrogen bonding, salt bridges) and Movies
Scribbles in Bioinformatics
Day3: Trajectory formatting, analysis (RMSD, RMSF, RG, Hydrogen bonding, salt bridges) and Movies
2:13:54
Day2: Protein ligand simulation (parameterization, setting up and running the simulation)
Scribbles in Bioinformatics
Day2: Protein ligand simulation (parameterization, setting up and running the simulation)
1:29:26
Day1: NAMD installation, setting up and Running protein in water simulation
Scribbles in Bioinformatics
Day1: NAMD installation, setting up and Running protein in water simulation
2:34:03
Performing MD simulations on cloud platform - Google Colab and NAMD
Scribbles in Bioinformatics
Performing MD simulations on cloud platform - Google Colab and NAMD
35:09
AutoDock Parser- A tool for processing AutoDock output files
Scribbles in Bioinformatics
AutoDock Parser- A tool for processing AutoDock output files
16:54
Practical 1 Intro to Systems Biology
Scribbles in Bioinformatics
Practical 1 Intro to Systems Biology
1:06:09
T Coffee and DALIGN-2
Scribbles in Bioinformatics
T Coffee and DALIGN-2
17:10
T Coffee and DALIGN-1
Scribbles in Bioinformatics
T Coffee and DALIGN-1
57:58
Interpro 1
Scribbles in Bioinformatics
Interpro 1
50:19
Interpro 2
Scribbles in Bioinformatics
Interpro 2
44:12
Med chem lecture 9 Scoring functions and limitations
Scribbles in Bioinformatics
Med chem lecture 9 Scoring functions and limitations
1:10:07
Med Chem Lecture 8
Scribbles in Bioinformatics
Med Chem Lecture 8
30:31
Med Chem Lecture 7
Scribbles in Bioinformatics
Med Chem Lecture 7
42:06
Med Chem Lecture 6
Scribbles in Bioinformatics
Med Chem Lecture 6
39:08
Med Chem Lecture 5
Scribbles in Bioinformatics
Med Chem Lecture 5
30:27
Med chem Lecture 4
Scribbles in Bioinformatics
Med chem Lecture 4
48:36
Med chem Lecture 3
Scribbles in Bioinformatics
Med chem Lecture 3
56:30
Med Chem lecture 2
Scribbles in Bioinformatics
Med Chem lecture 2
58:12
Med chem Lecture 1
Scribbles in Bioinformatics
Med chem Lecture 1
1:08:37
Malaria 3- Control measures of Malaria
Scribbles in Bioinformatics
Malaria 3- Control measures of Malaria
23:59
Malaria 2- Erythrocytic Schizogony and stages in mosquito
Scribbles in Bioinformatics
Malaria 2- Erythrocytic Schizogony and stages in mosquito
53:58
Malaria 1- Exoerythrocytic Cycle
Scribbles in Bioinformatics
Malaria 1- Exoerythrocytic Cycle
1:08:43
Clustering Algorithms in phylogeny -WPGMA
Scribbles in Bioinformatics
Clustering Algorithms in phylogeny -WPGMA
52:39
Testing Additive And Ultrametric Trees
Scribbles in Bioinformatics
Testing Additive And Ultrametric Trees
1:12:33
Ab initio Structure Prediction 3
Scribbles in Bioinformatics
Ab initio Structure Prediction 3
38:38
Ab initio Structure Prediction 2
Scribbles in Bioinformatics
Ab initio Structure Prediction 2
49:35
Ab initio Structure Prediction 1
Scribbles in Bioinformatics
Ab initio Structure Prediction 1
42:42
RNA structure prediction- nussinov jacobson algorithm
Scribbles in Bioinformatics
RNA structure prediction- nussinov jacobson algorithm
1:46:55
RNA structure Prediction Practical Demo
Scribbles in Bioinformatics
RNA structure Prediction Practical Demo
21:20
Selecting the best evolutionary model for your sequence data
Scribbles in Bioinformatics
Selecting the best evolutionary model for your sequence data
56:07
Evolutionary models in nucleotide substitution
Scribbles in Bioinformatics
Evolutionary models in nucleotide substitution
58:48
Observed Distances and Evolutionary Distances
Scribbles in Bioinformatics
Observed Distances and Evolutionary Distances
58:11
Download Install and Use Gromacs on Windows
Scribbles in Bioinformatics
Download Install and Use Gromacs on Windows
18:43
Phylogeny 3 Demo on the Phylogenetic Reconstructions
Scribbles in Bioinformatics
Phylogeny 3 Demo on the Phylogenetic Reconstructions
1:33:32
Phylogeny 2 Tree Reconstruction Methods
Scribbles in Bioinformatics
Phylogeny 2 Tree Reconstruction Methods
52:36
Phylogeny 1 Basic terminologies
Scribbles in Bioinformatics
Phylogeny 1 Basic terminologies
36:51
Multiple Sequence alignment 2
Scribbles in Bioinformatics
Multiple Sequence alignment 2
42:34
Multiple Sequence Alignments 1
Scribbles in Bioinformatics
Multiple Sequence Alignments 1
44:35
Lecture 7 RMS Fit of conformers 2
Scribbles in Bioinformatics
Lecture 7 RMS Fit of conformers 2
49:52
Lecture 6 RMS Fit of Conformers 1
Scribbles in Bioinformatics
Lecture 6 RMS Fit of Conformers 1
56:03
Lecture 4 Mapping properties onto the surface
Scribbles in Bioinformatics
Lecture 4 Mapping properties onto the surface
57:00
Lecture 3 Protein Structure Visualization Hydrogen bonds and types
Scribbles in Bioinformatics
Lecture 3 Protein Structure Visualization Hydrogen bonds and types
1:07:22
Lecture 2 PDB Flat file Format
Scribbles in Bioinformatics
Lecture 2 PDB Flat file Format
1:19:07
Practical 9 Analyzing surface of the protein
Scribbles in Bioinformatics
Practical 9 Analyzing surface of the protein
57:00
Practical 8 Identifying apolar interactions and salt bridges
Scribbles in Bioinformatics
Practical 8 Identifying apolar interactions and salt bridges
48:41
Practical 7 Performing “In Silico” Mutagenesis in protein structure and analyzing Side chain conform
Scribbles in Bioinformatics
Practical 7 Performing “In Silico” Mutagenesis in protein structure and analyzing Side chain conform
40:18
Practical 6 Fitting monomers or Building up Symmetry
Scribbles in Bioinformatics
Practical 6 Fitting monomers or Building up Symmetry
1:01:53
Practical 5 Comparing Conformations Deoxyhemoglobin AND Oxyhemoglobin
Scribbles in Bioinformatics
Practical 5 Comparing Conformations Deoxyhemoglobin AND Oxyhemoglobin
40:34
Practical 4 Basic Exercise in protein structure visualization Part 2
Scribbles in Bioinformatics
Practical 4 Basic Exercise in protein structure visualization Part 2
1:12:16
Practical 3 Basic Exercise in protein structure visualization Part 1
Scribbles in Bioinformatics
Practical 3 Basic Exercise in protein structure visualization Part 1
1:36:55
Practical 2 PDB Flat file Format
Scribbles in Bioinformatics
Practical 2 PDB Flat file Format
1:19:07
Practical 1 Basic Orientation on Protein Structures
Scribbles in Bioinformatics
Practical 1 Basic Orientation on Protein Structures
1:02:01
Practical Demo on Workflows in Bioinformatics
Scribbles in Bioinformatics
Practical Demo on Workflows in Bioinformatics
46:30
Workflows in Bioinformatics 2: Known workflow environments
Scribbles in Bioinformatics
Workflows in Bioinformatics 2: Known workflow environments
14:04
Workflows in Bioinformatics 1: An introduction
Scribbles in Bioinformatics
Workflows in Bioinformatics 1: An introduction
15:25
Lecture 1 Basic Orientation on Protein Structures
Scribbles in Bioinformatics
Lecture 1 Basic Orientation on Protein Structures
1:02:01
Practical on Phylogenetic Analysis
Scribbles in Bioinformatics
Practical on Phylogenetic Analysis
1:33:32
Practical on Multiple Sequence alignment
Scribbles in Bioinformatics
Practical on Multiple Sequence alignment
42:34
Phylogeny 2 - Tree Reconstruction Methods
Scribbles in Bioinformatics
Phylogeny 2 - Tree Reconstruction Methods
52:36
Phylogeny 1 - Basic terminologies
Scribbles in Bioinformatics
Phylogeny 1 - Basic terminologies
36:51
Multiple Sequence Alignments
Scribbles in Bioinformatics
Multiple Sequence Alignments
44:35
Needleman Wunsch Algorithm Part 2
Scribbles in Bioinformatics
Needleman Wunsch Algorithm Part 2
42:31
Needleman Wunsch Algorithm Part 1
Scribbles in Bioinformatics
Needleman Wunsch Algorithm Part 1
48:28
PAM and BLOSUM scoring Matrices
Scribbles in Bioinformatics
PAM and BLOSUM scoring Matrices
29:52
Scoring Schemes in Pairwise Alignments
Scribbles in Bioinformatics
Scoring Schemes in Pairwise Alignments
25:00
Methods for Pairwise Sequence Alignments
Scribbles in Bioinformatics
Methods for Pairwise Sequence Alignments
46:16
Biomolecular sequence analysis: Overview and Concepts
Scribbles in Bioinformatics
Biomolecular sequence analysis: Overview and Concepts
42:47
Comparing Conformations Deoxyhemoglobin AND Oxyhemoglobin
Scribbles in Bioinformatics
Comparing Conformations Deoxyhemoglobin AND Oxyhemoglobin
40:34
Basic Exercise in protein structure visualization Part 2
Scribbles in Bioinformatics
Basic Exercise in protein structure visualization Part 2
1:12:16
7 Failsafe measures
Scribbles in Bioinformatics
7 Failsafe measures
47:41
8 Preparing Publication quality Images using Pymol
Scribbles in Bioinformatics
8 Preparing Publication quality Images using Pymol
1:15:59
6 Obtaining the complexes and Interaction Analysis using LigPlot+
Scribbles in Bioinformatics
6 Obtaining the complexes and Interaction Analysis using LigPlot+
1:02:44
5 Docking Validation and virtual Screening
Scribbles in Bioinformatics
5 Docking Validation and virtual Screening
1:16:19
4 Preparing your compound library 2
Scribbles in Bioinformatics
4 Preparing your compound library 2
40:55
3 Preparing your compound library 1
Scribbles in Bioinformatics
3 Preparing your compound library 1
56:04
2 Setting up your system part 2
Scribbles in Bioinformatics
2 Setting up your system part 2
14:34
1 Setting up your system Part 1
Scribbles in Bioinformatics
1 Setting up your system Part 1
35:09
Basic Exercise in protein structure visualization Part 1
Scribbles in Bioinformatics
Basic Exercise in protein structure visualization Part 1
1:36:55
The PDB Flat file Format
Scribbles in Bioinformatics
The PDB Flat file Format
1:19:07
Basic Orientation on Protein Structures
Scribbles in Bioinformatics
Basic Orientation on Protein Structures
1:02:01
Molecular Dynamics 4 Initial Conditions and the Maxwell Boltzmann Distribution
Scribbles in Bioinformatics
Molecular Dynamics 4 Initial Conditions and the Maxwell Boltzmann Distribution
1:21:29
Molecular Dynamics 3 Taylor Series and Velocity Verlet Algorithm
Scribbles in Bioinformatics
Molecular Dynamics 3 Taylor Series and Velocity Verlet Algorithm
1:31:42
Molecular Dynamics 2 Obtaining the Hamiltonian Equations
Scribbles in Bioinformatics
Molecular Dynamics 2 Obtaining the Hamiltonian Equations
47:29
Molecular Dynamics 1 Classical equations of Motion
Scribbles in Bioinformatics
Molecular Dynamics 1 Classical equations of Motion
53:35
Introduction to MD simulations Part 3
Scribbles in Bioinformatics
Introduction to MD simulations Part 3
52:36
Introduction to MD simulations Part 2
Scribbles in Bioinformatics
Introduction to MD simulations Part 2
29:42
Introduction to MD simulations Part 1
Scribbles in Bioinformatics
Introduction to MD simulations Part 1
57:44