Catie Welsh

J9. Kelly McCastlain, Carrie R. Howell, Catherine E. Welsh, Zhaoming Wang, Carmen L. Wilson, Heather Mulder, John Easton, Ann C. Mertens, Jinghui Zhang, Yutaka Yasui, Melissa M. Hudson, Leslie L. Robison, Mondira Kundu, Kirsten K. Ness. The association of mitochondrial copy number with sarcopenia in adult survivors of childhood cancer. Journal of the National Cancer Institute, April 2021.

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Bioinformatics Grants: Cyclone Calls Grant, M.J. Murdock Charitable Trust Grant Conferences and Workshops Attended 2021 Satellite Workshop on Massively Parallel Sequencing at the International Conference on Research in Computational Molecular Biology (RECOMB-Seq)

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C3. C. Shane Elder and Catherine E. Welsh. MitoMut: An Efficient Approach to Detecting Mitochondrial DNA Deletions from Paired-end Next-generation Sequencing Data. Proceedings of the ACM Conference on Bioinformatics, Computational Biology and Health Informatics, 2019.

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Poster presentation at Intelligent Systems for Molecular Biology/European Conference on Computational Biology. 2019.

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P7. C. Shane Elder and Catherine E. Welsh. MitoMut: an efficient approach to detecting mitochondrial DNA deletions from paired-end next-generation sequencing data. Poster presentation at Great Lakes Bioinformatics Conference. 2019.

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2019 Intelligent Systems for Molecular Biology/European Conference on Computational Biology (ISMB/ECCB)

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2019 Great Lakes Bioinformatics Conference 2019 NCWIT Summit on Women and IT 2018 AAC&U Institute on General Education and Assessment 2016, 2018 Consortium for Computing Sciences in Colleges Mid-South Conference 2015 Grace Hopper Women in Computing Conference 2014 CUR Institute: Beginning a Research Program in the Natural Sciences at a PUI 2014, 2018 ACM Special Interest Group on Computer Science Education Technical Symposium (SIGCSE)

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P6. Madeline P. Griffin and Catherine E. Welsh. Comparative Analysis of Tools for Predicting the Functional Impact of mtDNA Variants. Poster presentation at ACM-BCB: Conference on Bioinformatics and Computational Biology. 2018.

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J8. Andrew P. Morgan, Chen-Ping Fu, Chia-Yu Kao, Catherine E. Welsh, John P. Didion, Liran Yadgary, Leeanna Hyacinth, Martin T. Ferris, Timothy A. Bell, Darla R. Miller, Paola Giusti-Rodriguez, Randal J. Nonneman, Kevin D. Cook, Jason K. Whitmire, Lisa E. Gralinski, Mark Keller, Alan D. Attie, Gary A. Churchill, Petko Petkov, Patrick F. Sullivan, Jennifer R. Brennan, Leonard McMillan, and Fernando Pardo-Manuel de Villena. The mouse universal genotyping array: From substrains to subspecies. G3: Genes, Genomes, Genetics, February 2016.

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J7. Andrew P. Morgan and Catherine E. Welsh. Informatics resources for the Collaborative Cross and related mouse populations. Mammalian Genome, July 2015.

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J6. James J. Crowley, Vasyl Zhabotynsky, Wei Sun, Shunping Huang, Isa Kemal Pakatci, Yunjung Kim, Jeremy R. Wang, Andrew P. Morgan, John D. Calaway, David L. Aylor, Zaining Yun, Timothy A. Bell, Ryan J. Buus, Mark E. Calaway, John P. Didion, Terry J. Gooch, Stephanie D. Hansen, Nashiya N. Robinson, Ginger D. Shaw, Jason S. Spence, Corey R. Quackenbush, Cordelia J. Barrick, Randal J. Nonneman, Kyungsu Kim, James Xenakis, Yuying Xie, William Valdar, Alan B. Lenarcic, Wei Wang, Catherine E. Welsh, Chen-Ping Fu, Zhaojun Zhang, James Holt, Zhishan Guo, David W. Threadgill, Lisa M. Tarantino, Darla R. Miller, Fei Zou, Leonard McMillan, Patrick F. Sullivan, and Fernando Pardo-Manuel de Villena. Analyses of allele-specific gene expression in highly divergent mouse crosses identifies pervasive allelic imbalance. Nature Genetics, May 2015.

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2013, 2015 Southeast Women in Computing Conference 2012 International Mammalian Genome Conference 2011 Mouse Genetics Conference 2010 Complex Trait Community annual meeting 2009 Google Workshop for Women Engineers 2008, 2009 CRA-W Grad Cohort Workshop

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C2. Catherine E. Welsh, Chen-Ping Fu, Fernando Pardo-Manuel de Villena, and Leonard McMillan. Fine-Scale Recombination Mapping of High-Throughput Sequence Data. Proceed- ings of the ACM Conference on Bioinformatics, Computational Biology and Biomedicine Informatics, 2013.

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J5. Catherine E. Welsh, Darla R. Miller, Kenneth F. Manly, Jeremy Wang, Leonard McMillan, Grant Morahan, Richard Mott, Fuad A. Iraqi, David W. Threadgill, and Fernando Pardo- Manuel de Villena. Status and access to the Collaborative Cross population. Mammalian Genome, July 2012.

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J4. Karen L. Svenson, Daniel M. Gatti, William Valdar, Catherine E. Welsh, Riyan Cheng, Elissa J. Chesler, Abraham A. Palmer, Leonard McMillan, and Gary A. Churchill. High- Resolution Genetic Mapping Using the Mouse Diversity Outbred Population. Genetics, 190(2):437-447, July 2012.

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J3. Catherine E. Welsh and Leonard McMillan. Accelerating the inbreeding of multi-parental recombinant inbred lines generated by sibling matings. G3: Genes, Genomes, Genetics, 2(2):191-8, February 2012.

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J2. Collaborative Cross Consortium Catherine E. Welsh. The Genome Architecture of the Collaborative Cross Mouse Genetic Reference Population. Genetics, 190(2):389-402, February 2012.

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C1. Chen-Ping Fu, Catherine E. Welsh, Fernando Pardo-Manuel de Villena, and Leonard McMillan. Ancestry Inference of Admixed Populations with Microarray Probe Intensi- ties. Proceedings of the ACM Conference on Bioinformatics, Computational Biology and Biomedicine, 2012.

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In silico predictions of the genomic structure for extant CC lines. Oral and poster presentations at International Mammalian Genome Conference. 2012.

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A Low-density Mouse Universal Genotyping Array (MUGA). Poster presentation at Mouse Genetics. 2011.

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P1. Catherine E. Welsh, Ryan J. Buus, Jennifer Shockley, Stephanie Hansen, Darla Miller, Fernando Pardo-Manuel de Villena, and Leonard McMillan. Techniques for Accelerating the Inbreeding in the Collaborative Cross. Oral presentation at the annual meeting of the Complex Trait Community. 2010.

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J1. Hyuna Yang, Jeremy R. Wang, John P. Didion, Ryan J. Buus, Timothy A. Bell, Catherine E. Welsh, Franc ois Bonhomme, Alex Hon-Tsen Yu, Michael W. Nachman, Jaroslav Pialek, Priscilla Tucker, Pierre Boursot, Leonard McMillan, Gary A. Churchill, and Fernando Pardo- Manuel de Villena. Subspecific origin and haplotype diversity in the laboratory mouse.

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Reviews Note: Undergraduate students that I advised at Rhodes are underlined.

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Presentations and Posters (acceptance based on peer-reviewed abstract)

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P8. Catherine E. Welsh, Kelly McCastlain, and Mondira Kundu. An automated pipeline for detecting and annotating mitochondrial variants from paired tumor-normal samples.

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P5. Catherine E. Welsh, Darla R. Miller, Kenneth F. Manly, Jeremy Wang, Leonard McMillan, David W. Threadgill, and Fernando Pardo-Manuel de Villena.

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P4. Chen-Ping Fu, Catherine E. Welsh, John P. Didion, John D. Calaway, Fernando Pardo- Manuel de Villena, and Leonard McMillan. MegaMUGA: A versatile medium density mouse genotyping platform. Poster presentation at International Mammalian Genome Conference.

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P3. Catherine E. Welsh, Darla R. Miller, Kenneth F. Manly, Jeremy Wang, Leonard McMillan, Grant Morahan, Richard Mott, Fuad A. Iraqi, David W. Threadgill, and Fernando Pardo- Manuel de Villena. An update on the distribution center for the Collaborative Cross population at UNC-Chapel Hill. Poster presentation at International Mammalian Genome Conference.

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P2. Catherine Welsh, Ryan Buus, Fernando Pardo-Manuel de Villena, and Leonard McMillan.

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ACM Conference on Bioinformatics, Computational Biology, and Health Informatics (ACM-BCB)

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