Sudip Sharma
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Explore the profile of Sudip Sharma including associated specialties, affiliations and a list of published articles.
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10
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65
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Recent Articles
1.
Tao Q, Sharma S, Tamura K, Kumar S
ArXiv
. 2025 Feb;
PMID: 39975442
Availability And Implementation: The source codes and related instructions for installing and implementing are available from GitHub (https://github.com/cathyqqtao/R3F).
2.
Sanderford M, Sharma S, Stecher G, Liu J, Ye J, Kumar S
ArXiv
. 2025 Jan;
PMID: 39867426
Evolutionary sparse learning (ESL) uses a supervised machine learning approach, Least Absolute Shrinkage and Selection Operator (LASSO), to build models explaining the relationship between a hypothesis and the variation across...
3.
Allard J, Sharma S, Patel R, Sanderford M, Tamura K, Vucetic S, et al.
bioRxiv
. 2025 Jan;
PMID: 39829798
Cases abound in which nearly identical traits have appeared in distant species facing similar environments. These unmistakable examples of adaptive evolution offer opportunities to gain insight into their genetic origins...
4.
Kumar S, Stecher G, Suleski M, Sanderford M, Sharma S, Tamura K
Mol Biol Evol
. 2024 Dec;
PMID: 39708372
We introduce the 12th version of the Molecular Evolutionary Genetics Analysis (MEGA) software. This latest version brings many significant improvements by reducing the computational time needed for selecting optimal substitution...
5.
Sharma S, Kumar S
Mol Biol Evol
. 2024 Jun;
41(7).
PMID: 38916040
Phylogenomic analyses of long sequences, consisting of many genes and genomic segments, reconstruct organismal relationships with high statistical confidence. But, inferred relationships can be sensitive to excluding just a few...
6.
Sharma S, Kumar S
bioRxiv
. 2024 May;
PMID: 38746095
Phylogenomic analyses of long sequences, consisting of many genes and genomic segments, infer organismal relationships with high statistical confidence. But, these relationships can be sensitive to excluding just a few...
7.
Craig J, Gerhard G, Sharma S, Yankovskiy A, Miura S, Kumar S
Mol Biol Evol
. 2023 Dec;
41(1).
PMID: 38124397
An individual's chronological age does not always correspond to the health of different tissues in their body, especially in cases of disease. Therefore, estimating and contrasting the physiological age of...
8.
Barba-Montoya J, Sharma S, Kumar S
Front Bioinform
. 2023 Aug;
3:1225807.
PMID: 37600967
A common practice in molecular systematics is to infer phylogeny and then scale it to time by using a relaxed clock method and calibrations. This sequential analysis practice ignores the...
9.
Sharma S, Kumar S
Mol Biol Evol
. 2022 Oct;
39(11).
PMID: 36306418
The selection of the optimal substitution model of molecular evolution imposes a high computational burden for long sequence alignments in phylogenomics. We discovered that the analysis of multiple tiny subsamples...
10.
Sharma S, Kumar S
Nat Comput Sci
. 2021 Nov;
1(9):573-577.
PMID: 34734192
Felsenstein's bootstrap approach is widely used to assess confidence in species relationships inferred from multiple sequence alignments. It resamples sites randomly with replacement to build alignment replicates of the same...