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Reproducible big data science: A case study in continuous FAIRness

PloS one, 2019-04, Vol.14 (4), p.e0213013

2019

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Correction: Reproducible big data science: A case study in continuous FAIRness

PloS one, 2023-11, Vol.18 (11), p.e0294883-e0294883

2023

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Integration of genomics and transcriptomics predicts diabetic retinopathy susceptibility genes

eLife, 2020-11, Vol.9

2020

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Graph-based sampling for approximating global helical topologies of RNA

Proceedings of the National Academy of Sciences - PNAS, 2014-03, Vol.111 (11), p.4079-4084

2014

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Biomolecular modeling and simulation: a field coming of age

Quarterly reviews of biophysics, 2011-05, Vol.44 (2), p.191-228

2011

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Predicting helical topologies in RNA junctions as tree graphs

PloS one, 2013-08, Vol.8 (8), p.e71947-e71947

2013

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Genetic deletion of Sphk2 confers protection against Pseudomonas aeruginosa mediated differential expression of genes related to virulent infection and inflammation in mouse lung

BMC genomics, 2019-12, Vol.20 (1), p.984-19, Article 984

2019

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Naïve Bayes for microRNA target predictions—machine learning for microRNA targets

Bioinformatics, 2007-11, Vol.23 (22), p.2987-2992

2007

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A novel MERTK mutation causing retinitis pigmentosa

Graefe's archive for clinical and experimental ophthalmology, 2017-08, Vol.255 (8), p.1613-1619

2017

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Atlas of Transcription Factor Binding Sites from ENCODE DNase Hypersensitivity Data across 27 Tissue Types

Cell reports (Cambridge), 2020-08, Vol.32 (7), p.108029-108029, Article 108029

2020

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Recursive cluster elimination (RCE) for classification and feature selection from gene expression data

BMC bioinformatics, 2007-05, Vol.8 (1), p.144-144, Article 144

2007

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P090: NGS assay for simultaneous screening of DNA and RNA provides a comprehensive solution guiding clinical management of ALL patients

Genetics in Medicine Open, 2023, Vol.1 (1), p.100109, Article 100109

2023

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Identification of Genetic and Epigenetic Variants Associated with Breast Cancer Prognosis by Integrative Bioinformatics Analysis

Cancer informatics, 2017-01, Vol.2017 (16), p.1-13

2017

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Learning from positive examples when the negative class is undetermined--microRNA gene identification

Algorithms for molecular biology, 2008-01, Vol.3 (1), p.2-2, Article 2

2008

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Candidate RNA structures for domain 3 of the foot-and-mouth-disease virus internal ribosome entry site

Nucleic acids research, 2013-02, Vol.41 (3), p.1483-1495

2013

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Interconversion between Parallel and Antiparallel Conformations of a 4H RNA junction in Domain 3 of Foot-and-Mouth Disease Virus IRES Captured by Dynamics Simulations

Biophysical journal, 2014-01, Vol.106 (2), p.447-458

2014

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Accurate Prediction of Chromosome-Level CNVs from Targeted NGS

Blood, 2021-11, Vol.138 (Supplement 1), p.3994-3994

2021

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Single Tube Molecular Profiling of ALL Samples Reveals Integrated Molecular Signature and Highlights Gene Regulatory Networks

Blood, 2022-11, Vol.140 (Supplement 1), p.11870-11871

2022

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Accessing Genomic Alternations in Chronic Lymphocytic Leukemia Using an NGS-Based Comprehensive Genomic Profiling Assay

Blood, 2020-11, Vol.136 (Supplement 1), p.8-8

2020

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Evaluation of data discretization methods to derive platform independent isoform expression signatures for multi-class tumor subtyping

BMC genomics, 2015-11, Vol.16 Suppl 11 (3), p.S3-S3, Article S3

2015

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Abstract A2-47: Informatics framework for clustering and deriving gene signatures for prognostic stratification of cancer patients

Cancer research (Chicago, Ill.), 2015-11, Vol.75 (22_Supplement_1), p.A2-A2-47

2015

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Abstract 2185: Informatics framework for clustering and deriving gene signatures for prognostic stratification of cancer patients

Cancer research (Chicago, Ill.), 2015-08, Vol.75 (15_Supplement), p.2185-2185

2015

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Abstract 4294: Bridging the gap between targeted NGS and FISH gene-level CNV detection capabilities in hematologic malignancies

Cancer research (Chicago, Ill.), 2023-04, Vol.83 (7_Supplement), p.4294-4294

2023

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Abstract 2208: A comprehensive genomic profiling approach to detect functional translocations and genomic alterations in a single tube workflow

Cancer research (Chicago, Ill.), 2021-07, Vol.81 (13_Supplement), p.2208-2208

2021

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Abstract 241: An efficient probe design algorithm for direct fusion targeting from RNA

Cancer research (Chicago, Ill.), 2021-07, Vol.81 (13_Supplement), p.241-241

2021

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Reproducible big data science: A case study in continuous FAIRness

Correction: Reproducible big data science: A case study in continuous FAIRness

Integration of genomics and transcriptomics predicts diabetic retinopathy susceptibility genes

Graph-based sampling for approximating global helical topologies of RNA

Biomolecular modeling and simulation: a field coming of age

Predicting helical topologies in RNA junctions as tree graphs

Genetic deletion of Sphk2 confers protection against Pseudomonas aeruginosa mediated differential expression of genes related to virulent infection and inflammation in mouse lung

Naïve Bayes for microRNA target predictions—machine learning for microRNA targets

A novel MERTK mutation causing retinitis pigmentosa

Atlas of Transcription Factor Binding Sites from ENCODE DNase Hypersensitivity Data across 27 Tissue Types

Recursive cluster elimination (RCE) for classification and feature selection from gene expression data

P090: NGS assay for simultaneous screening of DNA and RNA provides a comprehensive solution guiding clinical management of ALL patients

Identification of Genetic and Epigenetic Variants Associated with Breast Cancer Prognosis by Integrative Bioinformatics Analysis

Learning from positive examples when the negative class is undetermined--microRNA gene identification

Candidate RNA structures for domain 3 of the foot-and-mouth-disease virus internal ribosome entry site

Interconversion between Parallel and Antiparallel Conformations of a 4H RNA junction in Domain 3 of Foot-and-Mouth Disease Virus IRES Captured by Dynamics Simulations

Accurate Prediction of Chromosome-Level CNVs from Targeted NGS

Single Tube Molecular Profiling of ALL Samples Reveals Integrated Molecular Signature and Highlights Gene Regulatory Networks

Accessing Genomic Alternations in Chronic Lymphocytic Leukemia Using an NGS-Based Comprehensive Genomic Profiling Assay

Evaluation of data discretization methods to derive platform independent isoform expression signatures for multi-class tumor subtyping

Abstract A2-47: Informatics framework for clustering and deriving gene signatures for prognostic stratification of cancer patients

Abstract 2185: Informatics framework for clustering and deriving gene signatures for prognostic stratification of cancer patients

Abstract 4294: Bridging the gap between targeted NGS and FISH gene-level CNV detection capabilities in hematologic malignancies

Abstract 2208: A comprehensive genomic profiling approach to detect functional translocations and genomic alterations in a single tube workflow

Abstract 241: An efficient probe design algorithm for direct fusion targeting from RNA

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