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1. Homology inference - Role of synteny
1. Homology inference - Role of synteny
Pipeline for GenFamClust
Pipeline for GenFamClust
The pipeline of the synteny aware method I and my collaborators have proposed for inferring homology.
Accuracy of GenFamClust (GFC)
Accuracy of GenFamClust (GFC)
When compared with other existing homology inferring software on a benchmark homology dataset, GFC is certainly the BEST!
2. Markov chain Monte Carlo (MCMC) tree analysis
2. Markov chain Monte Carlo (MCMC) tree analysis
Post-processing the results of Bayesian phylogeny
Post-processing the results of Bayesian phylogeny
When a standard run of Bayesian phylogeny (containing around a million samples) needs to be processed within a few seconds, whose convergence needs to be assured before any analysis, whose mixing is an enigma for all and whose results need to be summed up as a single tree out of a million trees, VMCMC comes to your rescue. Simple, clean and concise analysis, isn't it?
3. Multiple Sequence Alignment
3. Multiple Sequence Alignment
Issues, errors and accuracy
Issues, errors and accuracy
Two panes showing the Divvier methodology and its results in comparison with various filtering methods - When there are a lot of errors in an MSA from any MSA method, whereby some of the sequence regions can have extremely unlikely correct alignment, no MSA method will give you the correct solution. The only way out is filtering these regions, and that is where Divvier is the most optimal solution out there!
4. Domain Phylogeny and Evolution
4. Domain Phylogeny and Evolution
Evolutionary relatedness of FDCPs
Evolutionary relatedness of FDCPs
A phylogenetic tree showing the reconciled evolutionary history of Ferm Domain containing proteins (FDCPs) of which Kindlin is a member, a beauty in colors and display, aint it?
Evolutionary history of S18 gene family
Evolutionary history of S18 gene family
The phylogenetic gene tree grown inside a species tree showing the evolutionary history along with possible duplication and loss events for S18 family of genes in various taxonomic groups.
5. Molecular Biology
5. Molecular Biology
Role of certain motifs in B-cell receptor activation
Role of certain motifs in B-cell receptor activation
Mapping of motif onto a phylogeny and constructing the neighborhood graph of interacting proteins - Some times a large data set might result in lots of clustered, ugly graphs but when handled correctly by an expert, they reveal beautiful images. But "beauty lies in the eye of the beholder".
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