List of works - Atmakuri Ramakrishna Rao

A computational approach for prediction of donor splice sites with improved accuracy.

scientific article published on 11 June 2016

A statistical approach for 5' splice site prediction using short sequence motifs and without encoding sequence data

scientific article

Chronic renal insufficiency among Asian Indians with type 2 diabetes: I. Role of RAAS gene polymorphisms.

scientific article

Comparative Analysis of CDPK Family in Maize, Arabidopsis, Rice, and Sorghum Revealed Potential Targets for Drought Tolerance Improvement.

scientific article published on 19 December 2017

Comparative transcriptome analysis reveals the genetic basis of coat color variation in Pashmina goat

scientific article published on 23 April 2019

Computational approaches, databases and tools for in silico motif discovery.

scientific article published on December 2012

Computational insights into RNAi-based therapeutics for foot and mouth disease of Bos taurus

scientific article published on 09 December 2020

Computational prediction of MHC class I epitopes for most common viral diseases in cattle (Bos taurus).

scientific article published on February 2015

DIRProt: a computational approach for discriminating insecticide resistant proteins from non-resistant proteins.

scientific article

Detection of novel key residues of MnSOD enzyme and its role in salinity management across species

scientific article

Draft Genome Sequence of the Extremely Halophilic Bacterium Halomonas salina Strain CIFRI1, Isolated from the East Coast of India.

scientific article published on 8 January 2015

Erratum for Behera et al., Draft Genome Sequence of the Extremely Halophilic Bacterium Halomonas salina Strain CIFRI1, Isolated from the East Coast of India

scientific article published on 19 February 2015

Evaluating the performance of sequence encoding schemes and machine learning methods for splice sites recognition

scientific article published on 19 April 2019

Evaluation of Models for Utilization in Genomic Prediction of Agronomic Traits in the Louisiana Sugarcane Breeding Program

scientific article published in 2022

Evaluation of random forest regression for prediction of breeding value from genomewide SNPs

scientific article

Exploration of new drug-like inhibitors for serine/threonine protein phosphatase 5 of Plasmodium falciparum: a docking and simulation study.

scientific article published on 13 May 2015

Extrapolation of Inter Domain Communications and Substrate Binding Cavity of Camel HSP70 1A: A Molecular Modeling and Dynamics Simulation Study

scientific article

Features of 5'-splice-site efficiency derived from disease-causing mutations and comparative genomics

scientific article published on 21 November 2007

Genetic susceptibility to tardive dyskinesia in chronic schizophrenia subjects: III. Lack of association of CYP3A4 and CYP2D6 gene polymorphisms

scientific article published on 01 June 2005

Genome Wide Single Locus Single Trait, Multi-Locus and Multi-Trait Association Mapping for Some Important Agronomic Traits in Common Wheat (T. aestivum L.).

scientific article published on 21 July 2016

Genome-wide association mapping of salinity tolerance in rice (Oryza sativa).

scientific article

Genome-wide development and deployment of informative intron-spanning and intron-length polymorphism markers for genomics-assisted breeding applications in chickpea.

scientific article

Genome-wide generation and use of informative intron-spanning and intron-length polymorphism markers for high-throughput genetic analysis in rice.

scientific article published on April 2016

Genome-wide identification and characterization of lncRNAs and miRNAs in cluster bean (Cyamopsis tetragonoloba)

scientific article published on 26 May 2018

Genomewide Expression and Functional Interactions of Genes under Drought Stress in Maize.

scientific article

Genomic Selection for Drought Tolerance Using Genome-Wide SNPs in Maize

scientific article

GinMicrosatDb: a genome-wide microsatellite markers database for sesame (Sesamum indicum L.).

scientific article published on 14 July 2018

HRGPred: Prediction of herbicide resistant genes with k-mer nucleotide compositional features and support vector machine

scientific article published in Scientific Reports

II. Serotonin receptor gene polymorphisms and their association with tardive dyskinesia among schizophrenia patients from North India.

scientific article published in September 2005

Identification and characterization of a grain micronutrient-related OsFRO2 rice gene ortholog from micronutrient-rich little millet (Panicum sumatrense).

scientific article published on 12 May 2017

Identification of Novel Abiotic Stress Proteins in Triticum aestivum Through Functional Annotation of Hypothetical Proteins.

scientific article

Identification of donor splice sites using support vector machine: a computational approach based on positional, compositional and dependency features

scientific article

Identification of species based on DNA barcode using k-mer feature vector and Random forest classifier

scientific article

Identification, Characterization, and Functional Validation of Drought-responsive MicroRNAs in Subtropical Maize Inbreds

scientific article

In silico site-directed mutagenesis of neutralizing mAb 4C4 and analysis of its interaction with G-H loop of VP1 to explore its therapeutic applications against FMD

scientific article published on 15 November 2018

MicroRNA-related markers associated with corpus luteum tropism in buffalo (Bubalus bubalis)

scientific article published on 06 February 2019

Predicting antimicrobial peptides with improved accuracy by incorporating the compositional, physico-chemical and structural features into Chou's general PseAAC.

scientific article

Prediction of donor splice sites using random forest with a new sequence encoding approach

scientific article

RNAseq revealed the important gene pathways controlling adaptive mechanisms under waterlogged stress in maize.

scientific article published on 8 September 2017

Structural, Functional, and Evolutionary Characterization of Major Drought Transcription Factors Families in Maize.

scientific article

The complete mitochondrial genome of the Anabas testudineus (Perciformes, Anabantidae) and its comparison with other related fish species

scientific article published on 28 December 2015

Transcriptome analysis reveals interplay between hormones, ROS metabolism and cell wall biosynthesis for drought-induced root growth in wheat

scientific article published on 01 August 2018

Unravelling the epigenomic interactions between parental inbreds resulting in an altered hybrid methylome in pigeonpea.

scientific article published on 16 March 2018

Utilization of Molecular, Phenotypic, and Geographical Diversity to Develop Compact Composite Core Collection in the Oilseed Crop, Safflower (Carthamus tinctorius L.) through Maximization Strategy

scientific article published on 19 October 2016

Variable Level of Dominance of Candidate Genes Controlling Drought Functional Traits in Maize Hybrids.

scientific article

funbarRF: DNA barcode-based fungal species prediction using multiclass Random Forest supervised learning model

ir-HSP: Improved Recognition of Heat Shock Proteins, Their Families and Sub-types Based On g-Spaced Di-peptide Features and Support Vector Machine

scientific article

nifPred: Proteome-Wide Identification and Categorization of Nitrogen-Fixation Proteins of Diaztrophs Based on Composition-Transition-Distribution Features Using Support Vector Machine.

scientific article published on 29 May 2018

shRNAPred (version 1.0): An open source and standalone software for short hairpin RNA (shRNA) prediction

scientific article

List of works by Atmakuri Ramakrishna Rao

A computational approach for prediction of donor splice sites with improved accuracy.

A statistical approach for 5' splice site prediction using short sequence motifs and without encoding sequence data

Chronic renal insufficiency among Asian Indians with type 2 diabetes: I. Role of RAAS gene polymorphisms.

Comparative Analysis of CDPK Family in Maize, Arabidopsis, Rice, and Sorghum Revealed Potential Targets for Drought Tolerance Improvement.

Comparative transcriptome analysis reveals the genetic basis of coat color variation in Pashmina goat

Computational approaches, databases and tools for in silico motif discovery.

Computational insights into RNAi-based therapeutics for foot and mouth disease of Bos taurus

Computational prediction of MHC class I epitopes for most common viral diseases in cattle (Bos taurus).

DIRProt: a computational approach for discriminating insecticide resistant proteins from non-resistant proteins.

Detection of novel key residues of MnSOD enzyme and its role in salinity management across species

Draft Genome Sequence of the Extremely Halophilic Bacterium Halomonas salina Strain CIFRI1, Isolated from the East Coast of India.

Erratum for Behera et al., Draft Genome Sequence of the Extremely Halophilic Bacterium Halomonas salina Strain CIFRI1, Isolated from the East Coast of India

Evaluating the performance of sequence encoding schemes and machine learning methods for splice sites recognition

Evaluation of Models for Utilization in Genomic Prediction of Agronomic Traits in the Louisiana Sugarcane Breeding Program

Evaluation of random forest regression for prediction of breeding value from genomewide SNPs

Exploration of new drug-like inhibitors for serine/threonine protein phosphatase 5 of Plasmodium falciparum: a docking and simulation study.

Extrapolation of Inter Domain Communications and Substrate Binding Cavity of Camel HSP70 1A: A Molecular Modeling and Dynamics Simulation Study

Features of 5'-splice-site efficiency derived from disease-causing mutations and comparative genomics

Genetic susceptibility to tardive dyskinesia in chronic schizophrenia subjects: III. Lack of association of CYP3A4 and CYP2D6 gene polymorphisms

Genome Wide Single Locus Single Trait, Multi-Locus and Multi-Trait Association Mapping for Some Important Agronomic Traits in Common Wheat (T. aestivum L.).

Genome-wide association mapping of salinity tolerance in rice (Oryza sativa).

Genome-wide development and deployment of informative intron-spanning and intron-length polymorphism markers for genomics-assisted breeding applications in chickpea.

Genome-wide generation and use of informative intron-spanning and intron-length polymorphism markers for high-throughput genetic analysis in rice.

Genome-wide identification and characterization of lncRNAs and miRNAs in cluster bean (Cyamopsis tetragonoloba)

Genomewide Expression and Functional Interactions of Genes under Drought Stress in Maize.

Genomic Selection for Drought Tolerance Using Genome-Wide SNPs in Maize

GinMicrosatDb: a genome-wide microsatellite markers database for sesame (Sesamum indicum L.).

HRGPred: Prediction of herbicide resistant genes with k-mer nucleotide compositional features and support vector machine

II. Serotonin receptor gene polymorphisms and their association with tardive dyskinesia among schizophrenia patients from North India.

Identification and characterization of a grain micronutrient-related OsFRO2 rice gene ortholog from micronutrient-rich little millet (Panicum sumatrense).

Identification of Novel Abiotic Stress Proteins in Triticum aestivum Through Functional Annotation of Hypothetical Proteins.

Identification of donor splice sites using support vector machine: a computational approach based on positional, compositional and dependency features

Identification of species based on DNA barcode using k-mer feature vector and Random forest classifier

Identification, Characterization, and Functional Validation of Drought-responsive MicroRNAs in Subtropical Maize Inbreds

In silico site-directed mutagenesis of neutralizing mAb 4C4 and analysis of its interaction with G-H loop of VP1 to explore its therapeutic applications against FMD

MicroRNA-related markers associated with corpus luteum tropism in buffalo (Bubalus bubalis)

Predicting antimicrobial peptides with improved accuracy by incorporating the compositional, physico-chemical and structural features into Chou's general PseAAC.

Prediction of donor splice sites using random forest with a new sequence encoding approach

RNAseq revealed the important gene pathways controlling adaptive mechanisms under waterlogged stress in maize.

Structural, Functional, and Evolutionary Characterization of Major Drought Transcription Factors Families in Maize.

The complete mitochondrial genome of the Anabas testudineus (Perciformes, Anabantidae) and its comparison with other related fish species

Transcriptome analysis reveals interplay between hormones, ROS metabolism and cell wall biosynthesis for drought-induced root growth in wheat

Unravelling the epigenomic interactions between parental inbreds resulting in an altered hybrid methylome in pigeonpea.

Utilization of Molecular, Phenotypic, and Geographical Diversity to Develop Compact Composite Core Collection in the Oilseed Crop, Safflower (Carthamus tinctorius L.) through Maximization Strategy

Variable Level of Dominance of Candidate Genes Controlling Drought Functional Traits in Maize Hybrids.

funbarRF: DNA barcode-based fungal species prediction using multiclass Random Forest supervised learning model

ir-HSP: Improved Recognition of Heat Shock Proteins, Their Families and Sub-types Based On g-Spaced Di-peptide Features and Support Vector Machine

nifPred: Proteome-Wide Identification and Categorization of Nitrogen-Fixation Proteins of Diaztrophs Based on Composition-Transition-Distribution Features Using Support Vector Machine.

shRNAPred (version 1.0): An open source and standalone software for short hairpin RNA (shRNA) prediction