This page contains a list of selected publications. For a full list, please see RJ’s Google Scholar profile page.

Conference and Journal Papers

RJ Nowling, K Njoya, JG Peters, MM Riehle. Prediction accuracy of regulatory elements from sequence varies by functional sequencing technique. Frontiers in Cellular and Infection Microbiology. 2023.

RJ Nowling, SH Keyser, AR Moran, JG Peters, and D Leskiewicz. Segmenting and Genotyping Large, Polymorphic Inversions. Proceedings of the 2023 IEEE International Conference on Electro Information Technology (IEEE EIT 2023). 2023.

F Labbé, M Abdeladhim, JP Abrudan, A Saori Araki, RN Araujo, P Arensburger, JB Benoit, et al. Genomic Analysis of Two Phlebotomine Sand Fly Vectors of Leishmania from the New and Old World. PLoS Neglected Tropical Diseases 17 (4): e0010862. 2023.

RJ Nowling, F Fallas-Moya, A Sadovnik, SJ Emrich, M Aleck, D Leskiewicz, and JG Peters. Fast, low-memory detection and localization of large, polymorphic inversions from SNPs. PeerJ. 2022.

I Holm, L Nardini, A Pain, E Bischoff, CE Anderson, S Zongo, WM Guelbeogo, N Sagnon, DM Gohl, RJ Nowling, KD Vernick, and MM Riehle. Comprehensive Genomic Discovery of Non-Coding Transcriptional Enhancers in the African Malaria Vector Anopheles coluzzii. Front. Genet. 2022

F Fallas-Moya, RJ Nowling, SJ Emrich and A Sadovnik. Automated Detection and Localization of Genome Inversions using Principal Component Analysis. IEEE 3rd International Conference on BioInspired Processing (BIP) 2021.

RJ Nowling, SK Behura, MS Halfon, SJ Emrich, and M Duman-Scheel. PeakMatcher facilitates updated Aedes aegypti embryonic cis-regulatory element map. Hereditas 158, Article number: 7 (2021). Arthropod Genomics thematic series

PV Hickner, N Timoshevskaya, RJ Nowling, F Labbé, A. Nguyen, MA McDowell, CN Spiegel, and Z Syed. Molecular Signatures of Sexual Communication in the Phlebotomine Sand Flies. PLoS Neglected Tropical Diseases 14 (12): e0008967. 2020.

RJ Nowling, KR Manke, and SJ Emrich. Detecting Inversions with PCA in the Presence of Population Structure. PLoS One. 2020.

RJ Nowling, J Bukowy, SD McGarry, AS Nencka, O Blasko, J Urbain, A Lowman, A Barrington, A Banerjee, KA Iczkowski, and PS LaViolette. Classification Before Segmentation: Improved U-Net Prostate Segmentation. Proceedings of the 2019 IEEE-EMBS International Conference on Biomedical and Health Informatics (IEEE BHI 2019). May 2019.

RJ Nowling and SJ Emrich. Detecting Chromosomal Inversions from Dense SNPs by Combining PCA and Association Tests. Proceedings of the 9th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics (ACM-BCB 2018), August 2018. Slides from the Talk Paper

RJ Nowling and SJ Emrich. Adjusted Likelihood-Ratio Test for Variants with Unknown Genotypes. Journal of Bioinformatics and Computational Biology (JBCB), 16(5) 2018. Invited Paper

RJ Nowling and SJ Emrich. Adjusted Likelihood-Ratio Test for Variants with Unknown Genotypes. Proceedings of the 10th International Conference on Bioinformatics and Computational Biology (BICOB 2018), March 2018.

RJ Nowling and SJ Emrich. Stable Feature Ranking with Logistic Regression Ensembles. Proceedings of the 2017 IEEE International Conference on Bioinformatics and Biomedicine (IEEE BIBM 2017), October 2017.

RJ Nowling, JL Abrudan, DA Shoue, B Abdul-Wahid, M Wadsworth, G Stayback, FH Collins, MA McDowell, and JA Izaguirre. Identification of novel arthropod vector G protein-coupled receptors. Parasites & Vectors 6:150. 2013.

Posters

CR Beal, JG Peters, and RJ Nowling. Sequence Model Evaluation Framework for STARR-Seq Peak Calling. Poster presentation at the 12th Annual ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics, August 2021, Virtual. Abstract. Poster

M Aleck and RJ Nowling. Evaluation of Clustering Algorithms for Inferring Inversion Genotypes. Poster presentation at the 14th Great Lakes Bioinformatics conference (GLBIO), May 2021, Virtual. Abstract Poster

RJ Nowling, RR Geromel, and BS Halligan. Filtering STARR-Seq Peaks for Enhancers with Sequence Models. Poster presentation at the 11th Annual ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics, September 2020, Virtual. Abstract Poster

RJ Nowling, CR Beal, SJ Emrich, SK Behura, MS Halfon, and M Duman-Scheel. PeakMatcher: Matching Peaks Across Genome Assemblies. Poster presentation at the 11th Annual ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics, September 2020, Virtual. GitHub Abstract Poster

M Aleck and RJ Nowling. Exploring Mechanisms of Molecular Evolution and Their Representations in PCA. Poster presentation at the IEEE 43rd Annual Computer Software and Applications Conference (COMPSAC), July 2019, Milwaukee, WI.

KR Manke, SJ Emrich, and RJ Nowling. Detecting and Localizing Inversions from SNPs. Poster presentation at the 12th Annual Arthropod Genomics Symposium, June 2019, Manhattan, KS.

RJ Nowling, J Bukowy, SD McGarry, AS Nencka, J Urbain, A Lowman, M Hohenwalter, A Banjeree, K Iczkowski, and PS LaViolette. Cascading Classifiers Improve Prostate Segmentation. Poster presentation at the International Society for Magnetic Resonance in Medicine 27th Annual Meeting, May 2019, Montreal, Canada.

RJ Nowling, JL Abrudan, and SJ Emrich. Population Genetics without the Population Labels. Poster presentation at the 11th Annual Arthropod Genomics Symposium, June 2018, Urbana-Champaign, IL.

RJ Nowling, M Wadsworth, JL Abrudan, DA Shoue, B Abdul-Wahid, G Stayback, FH Collins, MA McDowell, and JA Izaguirre. Identifying GPCRs in the Genome of the Sand Fly P. papatasi using Ensemble*. Poster presentation at the 7th Annual Arthropod Genomics Symposium, June 2013, Notre Dame, IN.

RJ Nowling, JL Abrudan, DA Shoue, B Abdul-Wahid, M Wadsworth, G Stayback, FH Collins, MA McDowell, and JA Izaguirre. Evaluation and Development of GPCR Classifiers for Vectors. Poster presentation at the Second Annual Eck Institute for Global Health Research Retreat, January 2013, Notre Dame, IN.