HEK-Omics: The promise of omics to optimize HEK293 for recombinant adeno-associated virus (rAAV) gene therapy manufacturing

Authors: Gurazada, Sai Guna Ranjan, Kennedy, Hannah M., Braatz, Richard D., Mehrman, Steven J., Polson, Shawn W., Rombel, Irene T.

Subject Terms: Quantitative Biology - Genomics

Access URL: http://arxiv.org/abs/2408.13374

HEK-omics: The promise of omics to optimize HEK293 for recombinant adeno-associated virus (rAAV) gene therapy manufacturing

Authors: Gurazada, Sai Guna Ranjan ^a, Kennedy, Hannah M. ^b, Braatz, Richard D. ^c, Mehrman, Steven J. ^d, Polson, Shawn W. ^{a, ⁎}, Rombel, Irene T. ^{b, ⁎, 1}

Source: In Biotechnology Advances March-April 2025 79

Oyster calcifying fluid harbors persistent and dynamic autochthonous bacterial populations that may aid in shell formation

Authors: Sakowski, Eric G., Wommack, K. Eric, Polson, Shawn W.

Source: Marine Ecology Progress Series, 2020 Oct . 653, 57-75.

Access URL: https://www.jstor.org/stable/26988325

Deletion of Fibroblast growth factor 9 globally and in skeletal muscle results in enlarged tuberosities at sites of deltoid tendon attachments

Authors: Leek, Connor C., Soulas, Jaclyn M., Bhattacharya, Iman, Ganji, Elahe, Locke, Ryan C., Smith, Megan C., Bhavsar, Jaysheel D., Polson, Shawn W., Ornitz, David M., Killian, Megan L.

Source: Developmental dynamics. 250(12):1778-1795

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100135770190.0x000001&indx=1&recIds=ETOCvdc_100135770190.0x000001

A long-term high-fat diet induces differential gene expression changes in spatially distinct adipose tissue of male mice.

Authors: Alradi, Malak, Askari, Hassan, Shaw, Mark, Bhavsar, Jaysheel D., Kingham, Brewster F., Polson, Shawn W., Fancher, Ibra S.

Source: Physiological Genomics; Dec2024, Vol. 56 Issue 12, p819-832, 14p

Subject Terms: GENE expression, HIGH-fat diet, ADIPOSE tissues, RNA sequencing, PHENOTYPES

Soybean Bradyrhizobium spp. Spontaneously Produce Abundant and Diverse Temperate Phages in Culture.

Authors: Richards, Vanessa A., Ferrell, Barbra D., Polson, Shawn W., Wommack, K. Eric, Fuhrmann, Jeffry J.

Source: Viruses (1999-4915); Nov2024, Vol. 16 Issue 11, p1750, 12p

Subject Terms: HORIZONTAL gene transfer, VIRUS-like particles, ATMOSPHERIC nitrogen, BACTERIAL genomes, TRANSMISSION electron microscopy

Transient, context‐dependent fitness costs accompanying viral resistance in isolates of the marine microalga Micromonas sp. (class Mamiellophyceae).

Authors: Bedi de Silva, Anamica¹ (AUTHOR), Polson, Shawn W.² (AUTHOR), Schvarcz, Christopher R.¹ (AUTHOR), Steward, Grieg F.¹ (AUTHOR), Edwards, Kyle F.¹ (AUTHOR) kfe@hawaii.edu

Source: Environmental Microbiology. Jul2024, Vol. 26 Issue 8, p1-11. 11p.

Subject Terms: *BIOGEOCHEMICAL cycles, *PROTISTA, *COST, *CULTURE, *MICROORGANISMS

The Etiology of White Pox, A Lethal Disease of the Caribbean Elkhorn Coral, Acropora palmata

Authors: Patterson, Kathryn L., Porter, James W., Ritchie, Kim B., Polson, Shawn W., Mueller, Erich, Peters, Esther C., Santavy, Deborah L., Smith, Garriet W.

Source: Proceedings of the National Academy of Sciences of the United States of America, 2002 Jun . 99(13), 8725-8730.

Access URL: https://www.jstor.org/stable/3059083

Improvements in viral gene annotation using large language models and soft alignments.

Authors: Harrigan, William L., Ferrell, Barbra D., Wommack, K. Eric, Polson, Shawn W., Schreiber, Zachary D., Belcaid, Mahdi

Source: BMC Bioinformatics; 4/25/2024, Vol. 25 Issue 1, p1-19, 19p

Subject Terms: LANGUAGE models, VIRAL genes, VIRAL proteins, AMINO acid sequence, ANNOTATIONS, MOLECULAR biology

A short-term, randomized, controlled, feasibility study of the effects of different vegetables on the gut microbiota and microRNA expression in infants.

Authors: Ferro, Lynn E., Bittinger, Kyle, Trudo, Sabrina P., Beane, Kaleigh E., Polson, Shawn W., Jae Kyeom Kim, Trabulsi, Jillian C.

Source: Frontiers in Microbiomes; 2024, p1-10, 10p

Subject Terms: GENE expression, GUT microbiome, VEGETABLES, FECAL microbiota transplantation, MICRORNA, INFANTS

Urbanization pressures alter tree rhizosphere microbiomes.

Authors: Rosier, Carl L.¹ crosier@udel.edu, Polson, Shawn W.^2,3, D'Amico III, Vincent⁴, Kan, Jinjun⁵, Trammell, Tara L. E.¹

Source: Scientific Reports. 5/3/2021, Vol. 11 Issue 1, p1-12. 12p.

Subject Terms: *RHIZOSPHERE, *SOIL microbial ecology, *URBANIZATION, *CLIMATE change, *LIRIODENDRON tulipifera

Investigation of allele specific expression in various tissues of broiler chickens using the detection tool VADT.

Authors: Tomlinson IV, M. Joseph^1,2, Polson, Shawn W.^2,3,4, Qiu, Jing^2,5, Lake, Juniper A.^1,2, Lee, William⁶, Abasht, Behnam^1,2 abasht@udel.edu

Source: Scientific Reports. 2/17/2021, Vol. 11 Issue 1, p1-13. 13p.

Subject Terms: *BROILER chickens, *SINGLE nucleotide polymorphisms, *RNA sequencing, *GENETIC translation, *TISSUES

Ribonucleotide reductases reveal novel viral diversity and predict biological and ecological features of unknown marine viruses

Authors: Sakowski, Eric G., Munsell, Erik V., Hyatt, Mara, Kress, William, Williamson, Shannon J., Nasko, Daniel J., Polson, Shawn W., Wommack, K. Eric

Source: Proceedings of the National Academy of Sciences of the United States of America, 2014 Nov 01. 111(44), 15786-15791.

Access URL: https://www.jstor.org/stable/43189827

Gallionellaceae pangenomic analysis reveals insight into phylogeny, metabolic flexibility, and iron oxidation mechanisms.

Authors: Hoover, Rene L., Keffer, Jessica L., Polson, Shawn W., Chan, Clara S.

Source: MSystems; Dec2023, Vol. 8 Issue 6, p1-28, 28p

Ubiquitous, B12-dependent virioplankton utilizing ribonucleotide-triphosphate reductase demonstrate interseasonal dynamics and associate with a diverse range of bacterial hosts in the pelagic ocean.

Authors: Wu, Ling-Yi, Piedade, Gonçalo J., Moore, Ryan M., Harrison, Amelia O., Martins, Ana M., Bidle, Kay D., Polson, Shawn W., Sakowski, Eric G., Nissimov, Jozef I., Dums, Jacob T., Ferrell, Barbra D., Wommack, K. Eric

Source: ISME Communications; 10/3/2023, Vol. 3 Issue 1, p1-17, 17p

Subject Terms: RIBONUCLEOSIDE diphosphate reductase, BACTERIOPHAGES, BIOGEOCHEMICAL cycles, VIRAL genes, OCEAN, BLOOD group antigens

Breast Cancer Dormancy: Understanding ER+ Breast Cancer Dormancy Using Bioinspired Synthetic Matrices for Long‐Term 3D Culture and Insights into Late Recurrence (Adv. Biosys. 9/2020)

Authors: Ovadia, Elisa M., Pradhan, Lina, Sawicki, Lisa A., Cowart, Julie E., Huber, Rebecca E., Polson, Shawn W., Chen, Chuming, Golen, Kenneth L., Ross, Karen E., Wu, Cathy H., Kloxin, April M.

Source: Advanced biosystems. 4(9)

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100108022270.0x000001&indx=1&recIds=ETOCvdc_100108022270.0x000001

Understanding ER+ Breast Cancer Dormancy Using Bioinspired Synthetic Matrices for Long‐Term 3D Culture and Insights into Late Recurrence

Authors: Ovadia, Elisa M., Pradhan, Lina, Sawicki, Lisa A., Cowart, Julie E., Huber, Rebecca E., Polson, Shawn W., Chen, Chuming, Golen, Kenneth L., Ross, Karen E., Wu, Cathy H., Kloxin, April M.

Source: Advanced biosystems. 4(9)

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100108022278.0x000001&indx=1&recIds=ETOCvdc_100108022278.0x000001

Optimizing the indirect extraction of prokaryotic DNA from soils

Authors: Williamson, Kurt. E., Kan, Jinjun, Polson, Shawn W., Williamson, Shannon J.

Source: In Soil Biology and Biochemistry 2011 43(4):736-748

Development of novel filtering criteria to analyze RNA-sequencing data obtained from the murine ocular lens during embryogenesis

Authors: Manthey, Abby L., Terrell, Anne M., Lachke, Salil A., Polson, Shawn W., Duncan, Melinda K.

Source: Genomics data. 2:369-374

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100038352502.0x000001&indx=1&recIds=ETOCvdc_100038352502.0x000001

Identification of bacteria associated with a disease affecting the marine sponge Ianthella basta in New Britain, Papua New Guinea

Authors: Cervino, James M., Winiarski-Cervino, Kathryn, Polson, Shawn W., Goreau, Thomas, Smith, Garriet W.

Source: Marine Ecology Progress Series, 2006 Oct . 324, 139-150.

Access URL: https://www.jstor.org/stable/24870644