Publications by authors named "Adam McDermaid"

17Publications

Integrative Methods and Practical Challenges for Single-Cell Multi-omics.

Trends Biotechnol 2020 09 26;38(9):1007-1022. Epub 2020 Mar 26.

Department of Biomedical Informatics, The Ohio State University, Columbus, OH 43235, USA. Electronic address:

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September 2020

IRIS3: integrated cell-type-specific regulon inference server from single-cell RNA-Seq.

Nucleic Acids Res 2020 07;48(W1):W275-W286

Department of Biomedical Informatics, College of Medicine, The Ohio State University, Columbus, OH 43210, USA.

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July 2020

MetaQUBIC: a computational pipeline for gene-level functional profiling of metagenome and metatranscriptome.

Bioinformatics 2019 11;35(21):4474-4477

Department of Biomedical Informatics, The Ohio State University, Columbus, OH, USA.

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November 2019

Improved Draft Genome Sequence of Pseudomonas poae A2-S9, a Strain with Plant Growth-Promoting Activity.

Microbiol Resour Announc 2019 Apr 11;8(15). Epub 2019 Apr 11.

Department of Energy Joint Genome Institute, Walnut Creek, California, USA.

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April 2019

Improved Draft Genome Sequence of sp. Strain YF23, Which Has Plant Growth-Promoting Activity.

Microbiol Resour Announc 2019 Apr 11;8(15). Epub 2019 Apr 11.

Department of Energy Joint Genome Institute, Walnut Creek, California, USA.

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April 2019

Predicting outcomes of chronic kidney disease from EMR data based on Random Forest Regression.

Math Biosci 2019 04 12;310:24-30. Epub 2019 Feb 12.

Bioinformatics and Mathematical Biosciences Lab, Department of Mathematics and Statistics, South Dakota State University, Brookings, SD 57006, USA. Electronic address:

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April 2019

IRIS-EDA: An integrated RNA-Seq interpretation system for gene expression data analysis.

PLoS Comput Biol 2019 02 14;15(2):e1006792. Epub 2019 Feb 14.

Department of Agronomy, Horticulture, and Plant Science, BioSNTR, South Dakota State University, Brookings, SD, United States of America.

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February 2019

A New Machine Learning-Based Framework for Mapping Uncertainty Analysis in RNA-Seq Read Alignment and Gene Expression Estimation.

Front Genet 2018 14;9:313. Epub 2018 Aug 14.

Bioinformatics and Mathematical Biosciences Lab, Department of Agronomy, Horticulture, and Plant Science, South Dakota State University, Brookings, SD, United States.

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August 2018

Interpretation of differential gene expression results of RNA-seq data: review and integration.

Brief Bioinform 2019 11;20(6):2044-2054

Department of Agronomy, Horticulture, and Plant Science, Bioinformatics and Mathematical Biosciences Lab, South Dakota State University.

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November 2019

RECTA: Regulon Identification Based on Comparative Genomics and Transcriptomics Analysis.

Genes (Basel) 2018 May 30;9(6). Epub 2018 May 30.

Bioinformatics and Mathematical Biosciences Lab, Department of Agronomy, Horticulture and Plant Science, South Dakota State University, Brookings, SD 57006, USA.

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May 2018

Bioinformatics tools for quantitative and functional metagenome and metatranscriptome data analysis in microbes.

Brief Bioinform 2018 11;19(6):1415-1429

Department of Mathematics and Statistics at South Dakota State University and BioSNTR, SD, USA.

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November 2018

DMINDA 2.0: integrated and systematic views of regulatory DNA motif identification and analyses.

Bioinformatics 2017 Aug;33(16):2586-2588

Bioinformatics and Mathematical Biosciences Lab, Department of Agronomy, Horticulture and Plant Science.

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August 2017

An algorithmic perspective of de novo cis-regulatory motif finding based on ChIP-seq data.

Brief Bioinform 2018 09;19(5):1069-1081

Department of Agronomy, Horticulture and Plant Science, South Dakota State University, Brookings, SD, USA.

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September 2018