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Fruit-In-Sight: A deep learning-based framework for secondary metabolite class prediction using fruit and leaf images

PloS one, 2024-08, Vol.19 (8), p.e0308708

2024

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A draft of the genome and four transcriptomes of a medicinal and pesticidal angiosperm Azadirachta indica

BMC genomics, 2012-09, Vol.13 (1), p.464-464, Article 464

2012

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Building flexible and robust analysis frameworks for molecular subtyping of cancers

Molecular oncology, 2024-03, Vol.18 (3), p.606-619

2024

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Comparative analyses of putative toxin gene homologs from an Old World viper, Daboia russelii

PeerJ (San Francisco, CA), 2017-12, Vol.5, p.e4104-e4104, Article e4104

2017

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An Improved Genome Assembly of Azadirachta indica A. Juss

G3 : genes - genomes - genetics, 2016-07, Vol.6 (7), p.1835-1840

2016

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COPS: a sensitive and accurate tool for detecting somatic Copy Number Alterations using short-read sequence data from paired samples

PloS one, 2012-10, Vol.7 (10), p.e47812-e47812

2012

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Functional genomics screen with pooled shRNA library and gene expression profiling with extracts of Azadirachta indica identify potential pathways for therapeutic targets in head and neck squamous cell carcinoma

PeerJ (San Francisco, CA), 2019-03, Vol.7, p.e6464, Article e6464

2019

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A minimal set of internal control genes for gene expression studies in head and neck squamous cell carcinoma

PeerJ (San Francisco, CA), 2018-08, Vol.6, p.e5207-e5207, Article e5207

2018

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Augmenting transcriptome assembly by combining de novo and genome-guided tools

PeerJ (San Francisco, CA), 2013-08, Vol.1, p.e133-e133

2013

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A comparative approach to elucidate chloroplast genome replication

BMC genomics, 2009-05, Vol.10 (237), p.237-237

2009

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The mutational landscape of early‐ and typical‐onset oral tongue squamous cell carcinoma

Cancer, 2021-02, Vol.127 (4), p.544-553

2021

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Surgical Tumor Resection Deregulates Hallmarks of Cancer in Resected Tissue and the Surrounding Microenvironment

Molecular cancer research, 2024-06, Vol.22 (6), p.572-OF13

2024

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A Minimal DNA Methylation Signature in Oral Tongue Squamous Cell Carcinoma Links Altered Methylation with Tumor Attributes

Molecular cancer research, 2016-09, Vol.14 (9), p.805-819

2016

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Relationship between mRNA secondary structure and sequence variability in Chloroplast genes: possible life history implications

BMC genomics, 2008-01, Vol.9 (1), p.48-48, Article 48

2008

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Detecting gradients of asymmetry in site-specific substitutions in mitochondrial genomes

DNA and cell biology, 2004-10, Vol.23 (10), p.707-714

2004

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CAFE MOCHA : An Integrated Platform for Discovering Clinically Relevant Molecular Changes in Cancer—An Example of Distant Metastasis– and Recurrence-Linked Classifiers in Head and Neck Squamous Cell Carcinoma

JCO clinical cancer informatics, 2018-12 (2), p.1-11

2018

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Possible multiple origins of replication in primate mitochondria: Alternative role of tRNA sequences

Journal of theoretical biology, 2006-07, Vol.241 (2), p.321-332

2006

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Mitochondrial replication origin stability and propensity of adjacent tRNA genes to form putative replication origins increase developmental stability in Lizards

Journal of experimental zoology. Part B, Molecular and developmental evolution, 2006-09, Vol.306B (5), p.433-449

2006

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RNAtor: an Android-based application for biologists to plan RNA sequencing experiments [version 1; peer review: 1 approved with reservations, 1 not approved]

F1000 research, 2017, Vol.6, p.997

2017

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RNAtor: an Android-based application for biologists to plan RNA sequencing experiments [version 2; peer review: 1 approved, 1 approved with reservations]

F1000 research, 2017, Vol.6, p.997

2017

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Detection of High-Risk Human Papillomavirus in Oral Cavity Squamous Cell Carcinoma Using Multiple Analytes and Their Role in Patient Survival

Journal of global oncology, 2018-11, Vol.4 (4), p.1-33

2018

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Mitochondrial tRNA sequences as unusual replication origins: Pathogenic implications for Homo sapiens

Journal of theoretical biology, 2006-12, Vol.243 (3), p.375-385

2006

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Ancestral Sequence Reconstruction in Primate Mitochondrial DNA: Compositional Bias and Effect on Functional Inference

Molecular biology and evolution, 2004-10, Vol.21 (10), p.1871-1883

2004

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Analysis of among-site variation in substitution patterns

Biological procedures online, 2004, Vol.6 (1), p.180-188

2004

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Fruit-In-Sight: A deep learning-based framework for secondary metabolite class prediction using fruit and leaf images

A draft of the genome and four transcriptomes of a medicinal and pesticidal angiosperm Azadirachta indica

Building flexible and robust analysis frameworks for molecular subtyping of cancers

Comparative analyses of putative toxin gene homologs from an Old World viper, Daboia russelii

An Improved Genome Assembly of Azadirachta indica A. Juss

COPS: a sensitive and accurate tool for detecting somatic Copy Number Alterations using short-read sequence data from paired samples

Functional genomics screen with pooled shRNA library and gene expression profiling with extracts of Azadirachta indica identify potential pathways for therapeutic targets in head and neck squamous cell carcinoma

A minimal set of internal control genes for gene expression studies in head and neck squamous cell carcinoma

Augmenting transcriptome assembly by combining de novo and genome-guided tools

A comparative approach to elucidate chloroplast genome replication

The mutational landscape of early‐ and typical‐onset oral tongue squamous cell carcinoma

Surgical Tumor Resection Deregulates Hallmarks of Cancer in Resected Tissue and the Surrounding Microenvironment

A Minimal DNA Methylation Signature in Oral Tongue Squamous Cell Carcinoma Links Altered Methylation with Tumor Attributes

Relationship between mRNA secondary structure and sequence variability in Chloroplast genes: possible life history implications

Detecting gradients of asymmetry in site-specific substitutions in mitochondrial genomes

CAFE MOCHA : An Integrated Platform for Discovering Clinically Relevant Molecular Changes in Cancer—An Example of Distant Metastasis– and Recurrence-Linked Classifiers in Head and Neck Squamous Cell Carcinoma

Possible multiple origins of replication in primate mitochondria: Alternative role of tRNA sequences

Mitochondrial replication origin stability and propensity of adjacent tRNA genes to form putative replication origins increase developmental stability in Lizards

RNAtor: an Android-based application for biologists to plan RNA sequencing experiments [version 1; peer review: 1 approved with reservations, 1 not approved]

RNAtor: an Android-based application for biologists to plan RNA sequencing experiments [version 2; peer review: 1 approved, 1 approved with reservations]

Integrated analysis of oral tongue squamous cell carcinoma identifies key variants and pathways linked to risk habits, HPV, clinical parameters and tumor recurrence [version 1; peer review: 2 approved]

Detection of High-Risk Human Papillomavirus in Oral Cavity Squamous Cell Carcinoma Using Multiple Analytes and Their Role in Patient Survival

Mitochondrial tRNA sequences as unusual replication origins: Pathogenic implications for Homo sapiens

Ancestral Sequence Reconstruction in Primate Mitochondrial DNA: Compositional Bias and Effect on Functional Inference

Analysis of among-site variation in substitution patterns

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