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Jason Miller

Jason Rafe Miller

Assistant Professor
Department of Computer Science, Mathematics, Engineering (CME)
College of Science, Technology, Engineering, Mathematics (CSTEM)
Shepherd University, Shepherdstown WV USA

office: 309 Byrd Science and Technology Center
office phone: 304-876-5070
maps: Google, Static, Interactive.


CV: OrcID.

Courses Taught

CIS 104 – Introduction to CIS
CIS 211 – Computer Language Concepts
CIS 314 – Advanced Language Concepts
CIS 321 – Data Structures
CIS 431 – Algorithms

Education and Work History

West Virginia University: PhD expected
University of Pennsylvania: MS
New York University: BA

J. Craig Venter Institute, 2004-2017
Celera Genomics, 2000-2004
GlaxoSmithKline, 1996-2000

Campus Activities

Co-PI, NSF Campus Cyber Infrastructure planning grant, 2020-2021, to build campus research computing facilities.

PI, NASA WV SGC grant, 2021-2022, to build mechanical engineering facilities.

Mentor for grant-funded projects: NASA Fellows, SOARS Scholars, Seeding your Future. Mentor for off-campus events: West Virginia Academy of Sciences, BitCamp, Technica.

Live performance at Frank Hall (news) during the 2019 Appalachian Heritage Festival with the old time music string band, the Gravy Soppers.

Recent Publications

Burnham AJ, Miller JR, Singh I, Billings EA, Rush MA, Air GM, Bour S (2021) Novel isoforms of influenza virus PA-X and PB1-F2 indicated by automatic annotation. Virus Research.

Miller JR, Adjeroh DA (2020) Exploring Neural Network Models for LncRNA Sequence Identification. Proceedings of IEEE BIBM.

Hornslien KS, Miller JR, Grini PE (2019) Regulation of Parent-of-Origin Allelic Expression in the Endosperm. Plant Physiology.

Miller JR, Dilley KA, Harkins DM, Stockwell TB, Shabman RS, Sutton GG (2019) A host subtraction database for virus discovery in human cell line sequencing data. F1000Research.

Miller JR, Koren S, Dilley KA, Harkins DM, Stockwell TB, Shabman RS, Sutton GG (2018) A draft genome sequence for the Ixodes scapularis cell line, ISE6. F1000Research.

Miller JR, Koren S, Dilley KA, Puri V, Brown DM, Thibaud-Nissen F, Rosen B, Chen X-G, Tu Z, Sharakhov IV, Sharakhova MV, Sebra R, Stockwell TB, Bergman MH, Sutton GG, Phillippy AM, Piermarini PM, Shabman RS (2018) Analysis of the Aedes albopictus C6/36 genome provides insight into cell line utility for viral propagation. GigaScience.

Koren S, Walenz BP, Berlin K, Miller JR, Bergman NH, Phillippy AM (2017) Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation. Genome Research.

Lien S, Koop BF, et al. (2016) The Atlantic salmon genome provides insights into rediploidization. Nature.