LSH-GAN enables in-silico generation of cells for small sample high dimensional scRNA-seq data

Autor: Snehalika Lall, Sumanta Ray, Sanghamitra Bandyopadhyay

Publikováno v: Communications Biology, Vol 5, Iss 1, Pp 1-9 (2022)

LSH-GAN is a locality-sensitive hashing based generative adversarial model that can produce realistic cell samples from small sample single-cell scRNA-seq data. The generated cells can be utilized for downstream analysis, like gene selection and cell

Externí odkaz: https://doaj.org/article/d68bdbbdd4e144309c45e6cd26f88d70

RgCop-A regularized copula based method for gene selection in single-cell RNA-seq data.

Autor: Snehalika Lall, Sumanta Ray, Sanghamitra Bandyopadhyay

Publikováno v: PLoS Computational Biology, Vol 17, Iss 10, p e1009464 (2021)

Gene selection in unannotated large single cell RNA sequencing (scRNA-seq) data is important and crucial step in the preliminary step of downstream analysis. The existing approaches are primarily based on high variation (highly variable genes) or sig

Externí odkaz: https://doaj.org/article/2d9005ad73a34ac7b9a1c6243dcf01ac

CODC: a Copula-based model to identify differential coexpression

Autor: Sanghamitra Bandyopadhyay, Sumanta Ray, Snehalika Lall

Publikováno v: npj Systems Biology and Applications, Vol 6, Iss 1, Pp 1-13 (2020)
NPJ Systems Biology and Applications
Systems Biology and Applications, 6

Differential coexpression has recently emerged as a new way to establish a fundamental difference in expression pattern among a group of genes between two populations. Earlier methods used some scoring techniques to detect changes in correlation patt

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::43c3b60d4043de9140d813f24b858ab6
http://link.springer.com/article/10.1038/s41540-020-0137-9

Deep variational graph autoencoders for novel host-directed therapy options against COVID-19

Autor: Sumanta Ray, Snehalika Lall, Anirban Mukhopadhyay, Sanghamitra Bandyopadhyay, Alexander Schönhuth

Publikováno v: Artificial Intelligence in Medicine. 134:102418

The COVID-19 pandemic has been keeping asking urgent questions with respect to therapeutic options. Existing drugs that can be repurposed promise rapid implementation in practice because of their prior approval. Conceivably, there is still room for s

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::4aefbf6be646492a41f18f4e381bc1ad
https://doi.org/10.1016/j.artmed.2022.102418

sc-REnF: An entropy guided robust feature selection for single-cell RNA-seq data

Autor: Snehalika Lall, Abhik Ghosh, Sumanta Ray, Sanghamitra Bandyopadhyay

Publikováno v: Briefings in bioinformatics. 23(2)

Annotation of cells in single-cell clustering requires a homogeneous grouping of cell populations. Since single cell data is susceptible to technical noise, the quality of genes selected prior to clustering is of crucial importance in the preliminary

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::069bc4aaa27ff01725317d275e49d7c2
https://pubmed.ncbi.nlm.nih.gov/35037023