Zobrazeno 1 - 10
of 38
pro vyhledávání: '"Alexandra J, Lee"'
Autor:
Alexandra J. Lee, Dallas L. Mould, Jake Crawford, Dongbo Hu, Rani K. Powers, Georgia Doing, James C. Costello, Deborah A. Hogan, Casey S. Greene
Publikováno v:
Genomics, Proteomics & Bioinformatics, Vol 20, Iss 5, Pp 912-927 (2022)
Genome-wide transcriptome profiling identifies genes that are prone to differential expression (DE) across contexts, as well as genes with changes specific to the experimental manipulation. Distinguishing genes that are specifically changed in a cont
Externí odkaz:
https://doaj.org/article/23d39b95a13b4a23a60211c9d4fe3a5c
Autor:
Samuel L. Neff, Thomas H. Hampton, Charles Puerner, Liviu Cengher, Georgia Doing, Alexandra J. Lee, Katja Koeppen, Ambrose L. Cheung, Deborah A. Hogan, Robert A. Cramer, Bruce A. Stanton
Publikováno v:
Scientific Data, Vol 9, Iss 1, Pp 1-14 (2022)
Abstract Researchers studying cystic fibrosis (CF) pathogens have produced numerous RNA-seq datasets which are available in the gene expression omnibus (GEO). Although these studies are publicly available, substantial computational expertise and manu
Externí odkaz:
https://doaj.org/article/5e30a2f3c1034ab18bf4061492bd63f8
Autor:
Halie M. Rando, Ronan Lordan, Alexandra J. Lee, Amruta Naik, Nils Wellhausen, Elizabeth Sell, Likhitha Kolla, Anthony Gitter, Casey S. Greene
Publikováno v:
mSystems, Vol 8, Iss 2 (2023)
ABSTRACT Over the past 150 years, vaccines have revolutionized the relationship between people and disease. During the COVID-19 pandemic, technologies such as mRNA vaccines have received attention due to their novelty and successes. However, more tra
Externí odkaz:
https://doaj.org/article/673b77bfcfa3479e95df125d7dd5c46d
Autor:
Halie M. Rando, Ronan Lordan, Likhitha Kolla, Elizabeth Sell, Alexandra J. Lee, Nils Wellhausen, Amruta Naik, Jeremy P. Kamil, Anthony Gitter, Casey S. Greene
Publikováno v:
mSystems, Vol 8, Iss 2 (2023)
ABSTRACT In the 21st century, several emergent viruses have posed a global threat. Each pathogen has emphasized the value of rapid and scalable vaccine development programs. The ongoing severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) pan
Externí odkaz:
https://doaj.org/article/4bbc189e2e2d4a04b68241d7c7d3e46e
Publikováno v:
Computational and Structural Biotechnology Journal, Vol 20, Iss , Pp 4315-4324 (2022)
A gene expression compendium is a heterogeneous collection of gene expression experiments assembled from data collected for diverse purposes. The widely varied experimental conditions and genetic backgrounds across samples creates a tremendous opport
Externí odkaz:
https://doaj.org/article/ed93e0f2f99d46178b55729cbfa7c480
Autor:
Georgia Doing, Alexandra J. Lee, Samuel L. Neff, Taylor Reiter, Jacob D. Holt, Bruce A. Stanton, Casey S. Greene, Deborah A. Hogan
Publikováno v:
mSystems, Vol 8, Iss 1 (2023)
ABSTRACT Thousands of Pseudomonas aeruginosa RNA sequencing (RNA-seq) gene expression profiles are publicly available via the National Center for Biotechnology Information (NCBI) Sequence Read Archive (SRA). In this work, the transcriptional profiles
Externí odkaz:
https://doaj.org/article/88e2643156ae4b42b1d30edcecf0e6c2
Autor:
Alexandra J. Lee, Georgia Doing, Samuel L. Neff, Taylor Reiter, Deborah A. Hogan, Casey S. Greene
Publikováno v:
mSystems, Vol 8, Iss 1 (2023)
ABSTRACT Pseudomonas aeruginosa is an opportunistic pathogen that causes difficult-to-treat infections. Two well-studied divergent P. aeruginosa strain types, PAO1 and PA14, have significant genomic heterogeneity, including diverse accessory genes pr
Externí odkaz:
https://doaj.org/article/a7c90aa899cb4d469a54611e12dbab9a
Autor:
Benjamin D Lee, Anthony Gitter, Casey S Greene, Sebastian Raschka, Finlay Maguire, Alexander J Titus, Michael D Kessler, Alexandra J Lee, Marc G Chevrette, Paul Allen Stewart, Thiago Britto-Borges, Evan M Cofer, Kun-Hsing Yu, Juan Jose Carmona, Elana J Fertig, Alexandr A Kalinin, Brandon Signal, Benjamin J Lengerich, Timothy J Triche, Simina M Boca
Publikováno v:
PLoS Computational Biology, Vol 18, Iss 3, p e1009803 (2022)
Externí odkaz:
https://doaj.org/article/c0cf492068b7496c8a19201d07339e91
Autor:
Halie M. Rando, Adam L. MacLean, Alexandra J. Lee, Ronan Lordan, Sandipan Ray, Vikas Bansal, Ashwin N. Skelly, Elizabeth Sell, John J. Dziak, Lamonica Shinholster, Lucy D’Agostino McGowan, Marouen Ben Guebila, Nils Wellhausen, Sergey Knyazev, Simina M. Boca, Stephen Capone, Yanjun Qi, YoSon Park, David Mai, Yuchen Sun, Joel D. Boerckel, Christian Brueffer, James Brian Byrd, Jeremy P. Kamil, Jinhui Wang, Ryan Velazquez, Gregory L. Szeto, John P. Barton, Rishi Raj Goel, Serghei Mangul, Tiago Lubiana, Anthony Gitter, Casey S. Greene
Publikováno v:
mSystems, Vol 7, Iss 1 (2022)
Externí odkaz:
https://doaj.org/article/b52dc01e6eed406a9ce08e18747d598c
Autor:
Halie M. Rando, Nils Wellhausen, Soumita Ghosh, Alexandra J. Lee, Anna Ada Dattoli, Fengling Hu, James Brian Byrd, Diane N. Rafizadeh, Ronan Lordan, Yanjun Qi, Yuchen Sun, Christian Brueffer, Jeffrey M. Field, Marouen Ben Guebila, Nafisa M. Jadavji, Ashwin N. Skelly, Bharath Ramsundar, Jinhui Wang, Rishi Raj Goel, YoSon Park, Simina M. Boca, Anthony Gitter, Casey S. Greene
Publikováno v:
mSystems, Vol 6, Iss 6 (2021)
ABSTRACT After emerging in China in late 2019, the novel coronavirus severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) spread worldwide, and as of mid-2021, it remains a significant threat globally. Only a few coronaviruses are known to in
Externí odkaz:
https://doaj.org/article/acba8e9120a8467eb63328eb1499a883