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List of works by Sharmila S Mande

"EviMass": A Literature Evidence-Based Miner for Human Microbial Associations

scientific article published on 13 September 2019

'NetShift': a methodology for understanding 'driver microbes' from healthy and disease microbiome datasets

scientific article published on 04 October 2018

'TIME': A Web Application for Obtaining Insights into Microbial Ecology Using Longitudinal Microbiome Data

scientific article published on 24 January 2018

16S rDNA based skin microbiome data of healthy individuals and leprosy patients from India

scientific article published on 22 October 2019

A prospective randomized, double-blind, placebo-controlled, dose-response relationship study to investigate efficacy of fructo-oligosaccharides (FOS) on human gut microflora

A snapshot of gut microbiota of an adult urban population from Western region of India.

scientific article published on 6 April 2018

Alterations in the gut bacterial microbiome in fungal Keratitis patients.

scientific article

Antibiotic Stewardship in Premature Infants: A Systematic Review

scientific article published on 03 December 2020

BIND – An algorithm for loss-less compression of nucleotide sequence data ⬇️

scientific article published on September 1, 2012

Binpairs: utilization of Illumina paired-end information for improving efficiency of taxonomic binning of metagenomic sequences

scientific article published on 31 December 2014

C16S — A Hidden Markov Model based algorithm for taxonomic classification of 16S rRNA gene sequences ⬇️

scientific article published on February 3, 2012

COGNIZER: A Framework for Functional Annotation of Metagenomic Datasets

scientific article

CS-SCORE: Rapid identification and removal of human genome contaminants from metagenomic datasets

scientific article published on 2 May 2015

Can Targeting Non-Contiguous V-Regions With Paired-End Sequencing Improve 16S rRNA-Based Taxonomic Resolution of Microbiomes?: An In Silico Evaluation

scientific article published on 12 July 2019

Can abundance of sensory proteins distinguish between pathogenic and non-pathogenic bacteria?

scientific article published on 08 May 2020

Classification of metagenomic sequences: methods and challenges ⬇️

scientific article published on 08 September 2012

Community-analyzer: a platform for visualizing and comparing microbial community structure across microbiomes

scientific article

CompNet: a GUI based tool for comparison of multiple biological interaction networks

scientific article

Comparative In silico Analysis of Butyrate Production Pathways in Gut Commensals and Pathogens

scientific article published on 02 December 2016

Computational Analysis of Host-Pathogen Protein Interactions between Humans and Different Strains of Enterohemorrhagic Escherichia coli

scientific article published on 19 April 2017

Computational Analysis of the ESX-1 Region of Mycobacterium tuberculosis: Insights into the Mechanism of Type VII Secretion System ⬇️

scientific article published on November 30, 2011

Correction to: CompNet: a GUI based tool for comparison of multiple biological interaction networks

scientific article published on 20 November 2019

Correction to: NetConfer: a web application for comparative analysis of multiple biological networks

scientific article published on 22 October 2020

Correction to: Visual exploration of microbiome data

scientific article published on 01 January 2020

Correction: Alterations in the gut bacterial microbiome in fungal Keratitis patients

scientific article published in PLoS ONE

Corrigendum: "EviMass": A Literature Evidence-Based Miner for Human Microbial Associations

scientific article published on 02 November 2020

Corrigendum: 'TIME': A Web Application for Obtaining Insights into Microbial Ecology Using Longitudinal Microbiome Data

scientific article published on 11 November 2020

Corrigendum: FLIM-MAP: Gene Context Based Identification of Functional Modules in Bacterial Metabolic Pathways

scientific article published on 29 October 2020

Crosstalk Between Female Gonadal Hormones and Vaginal Microbiota Across Various Phases of Women's Gynecological Lifecycle

scientific article published on 31 March 2020

DELIMINATE--a fast and efficient method for loss-less compression of genomic sequences: sequence analysis.

scientific article published on 25 July 2012

Decoding the microbiome for the development of translational applications: Overview, challenges and pitfalls

scientific article published on 01 October 2019

DiScRIBinATE: a rapid method for accurate taxonomic classification of metagenomic sequences ⬇️

scientific article published on October 15, 2010

Diet, Microbiota and Gut-Lung Connection

article by Swadha Anand & Sharmila S Mande published 2018 in Frontiers in Microbiology

Dynamics and Control of Flagella Assembly in Salmonella typhimurium

scientific article published on 8 February 2018

Eu-Detect: An algorithm for detecting eukaryotic sequences in metagenomic data sets ⬇️

scientific article published on September 1, 2011

FASTR: A novel data format for concomitant representation of RNA sequence and secondary structure information

scientific article

FLIM-MAP: Gene Context Based Identification of Functional Modules in Bacterial Metabolic Pathways

article

FQC: A novel approach for efficient compression, archival, and dissemination of fastq datasets

scientific article published on 8 February 2015

First-trimester vaginal microbiome diversity: A potential indicator of preterm delivery risk

scientific article published on 23 November 2017

FunGeCo : A web based tool for estimation of Functional potential of bacterial genomes and microbiomes using Gene Context information

scientific article published on 27 December 2019

Gastric microbiome of Indian patients with Helicobacter pylori infection, and their interaction networks

scientific article published on 13 November 2017

Global Profiling of Carbohydrate Active Enzymes in Human Gut Microbiome

scientific article

Global investigation of composition and interaction networks in gut microbiomes of individuals belonging to diverse geographies and age-groups

scientific article published on 6 May 2016

Grid-Assembly: An oligonucleotide composition-based partitioning strategy to aid metagenomic sequence assembly

scientific article published on 08 February 2015

Gut bacterial diversity of the tribes of India and comparison with the worldwide data.

scientific article

Gut microbiomes of Indian children of varying nutritional status

scientific article

HabiSign: a novel approach for comparison of metagenomes and rapid identification of habitat-specific sequences ⬇️

scientific article published on November 30, 2011

INDUS - a composition-based approach for rapid and accurate taxonomic classification of metagenomic sequences ⬇️

scientific article published on November 30, 2011

INDeGenIUS, a new method for high-throughput identification of specialized functional islands in completely sequenced organisms ⬇️

scientific article published on September 1, 2010

Identification and functional characterization of gene components of Type VI Secretion system in bacterial genomes

scientific article

Identification of compositionally distinct regions in genomes using the centroid method

scientific article published on 27 August 2007

Igloo-Plot: a tool for visualization of multidimensional datasets

scientific article published on 17 January 2014

In Silico Analysis of Putrefaction Pathways in Bacteria and Its Implication in Colorectal Cancer

scientific article published on 7 November 2017

In silico analysis of antibiotic resistance genes in the gut microflora of individuals from diverse geographies and age-groups

scientific article (publication date: 2013)

In silico dissection of Type VII Secretion System components across bacteria: New directions towards functional characterization

scientific article published on March 2016

Inferring Intra-Community Microbial Interaction Patterns from Metagenomic Datasets Using Associative Rule Mining Techniques

scientific article

Insights into horizontal acquisition patterns of dormancy and reactivation regulon genes in mycobacterial species using a partitioning-based framework

scientific article published in September 2016

Investigating host-bacterial interactions among enteric pathogens

scientific article published on 27 December 2019

Lifestyle-Induced Microbial Gradients: An Indian Perspective

scientific article published on 17 December 2019

Mathematical modeling of regulation of type III secretion system in Salmonella enterica serovar Typhimurium by SirA.

scientific article published in January 2009

MetaCAA: A clustering-aided methodology for efficient assembly of metagenomic datasets

scientific article published in February 2014

MetagenoNets: comprehensive inference and meta-insights for microbial correlation networks

scientific article published on 27 April 2020

Metagenome of the gut of a malnourished child ⬇️

scientific article published on May 20, 2011

Microbial community profiling shows dysbiosis in the lesional skin of Vitiligo subjects

scientific article published on 13 January 2016

Modelling of the regulation of the hilA promoter of type three secretion system of Salmonella enterica serovar Typhimurium

scientific article

NetConfer: a web application for comparative analysis of multiple biological networks

scientific article published on 19 May 2020

NetSets.js: A JavaScript framework for compositional assessment and comparison of biological networks through Venn integrated Network diagrams

scientific article published on 17 August 2020

OTUX: V-region specific OTU database for improved 16S rRNA OTU picking and efficient cross-study taxonomic comparison of microbiomes

scientific article published on 01 April 2019

Rewiring of Metabolic Network in Mycobacterium tuberculosis During Adaptation to Different Stresses

scientific article published on 29 October 2019

SOrt-ITEMS: Sequence orthology based approach for improved taxonomic estimation of metagenomic sequences

scientific article

SPHINX—an algorithm for taxonomic binning of metagenomic sequences ⬇️

scientific article published on October 28, 2010

TWARIT: An extremely rapid and efficient approach for phylogenetic classification of metagenomic sequences ⬇️

scientific article published on June 15, 2012

Tryptophan Metabolism by Gut Microbiome and Gut-Brain-Axis: An in silico Analysis

scientific article published on 18 December 2019

Understanding communication signals during mycobacterial latency through predicted genome-wide protein interactions and boolean modeling

scientific article (publication date: 2012)

Understanding the role of interactions between host and Mycobacterium tuberculosis under hypoxic condition: an in silico approach

scholarly article by Tungadri Bose et al published 27 July 2018 in BMC Genomics

Understanding the sequential activation of Type III and Type VI Secretion Systems in Salmonella typhimurium using Boolean modeling.

scientific article published on 30 September 2013

Vikodak--A Modular Framework for Inferring Functional Potential of Microbial Communities from 16S Metagenomic Datasets

scientific article published on 5 February 2016

Visual exploration of microbiome data

scientific article published on 01 October 2019

Web-gLV: A Web Based Platform for Lotka-Volterra Based Modeling and Simulation of Microbial Populations

scientific article published in 2019

Web-igloo: a web based platform for multivariate data visualization

scientific article

Xenobiotic Metabolism and Gut Microbiomes

scientific article

i-rDNA: alignment-free algorithm for rapid in silico detection of ribosomal gene fragments from metagenomic sequence data sets ⬇️

scientific article published on November 30, 2011

iVikodak-A Platform and Standard Workflow for Inferring, Analyzing, Comparing, and Visualizing the Functional Potential of Microbial Communities

scholarly article by Sunil Nagpal et al published 2018 in Frontiers in Microbiology

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