Search Results - "McDonough, Samantha"

Use of FFPE-derived DNA in next generation sequencing: DNA extraction methods by McDonough, Samantha J, Bhagwate, Aditya, Sun, Zhifu, Wang, Chen, Zschunke, Michael, Gorman, Joshua A, Kopp, Karla J, Cunningham, Julie M

“…Archival tissues represent a rich resource for clinical genomic studies, particularly when coupled with comprehensive medical records. Use of these in next…”
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Recent updates on biomarkers of exposure and systemic toxicity in e-cigarette users and EVALI by McDonough, Samantha R, Rahman, Irfan, Sundar, Isaac Kirubakaran

“…Electronic nicotine delivery systems (ENDS), or e-cigarettes, are emerging tobacco products that produce aerosols by heating e-liquids, which most often…”
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E-cigarette-induced pulmonary inflammation and dysregulated repair are mediated by nAChR α7 receptor: role of nAChR α7 in SARS-CoV-2 Covid-19 ACE2 receptor regulation by Wang, Qixin, Sundar, Isaac K, Li, Dongmei, Lucas, Joseph H, Muthumalage, Thivanka, McDonough, Samantha R, Rahman, Irfan

“…Electronic cigarette (e-cig) vaping is increasing rapidly in the United States, as e-cigs are considered less harmful than combustible cigarettes. However,…”
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Bioinformatics and DNA-extraction strategies to reliably detect genetic variants from FFPE breast tissue samples by Bhagwate, Aditya Vijay, Liu, Yuanhang, Winham, Stacey J, McDonough, Samantha J, Stallings-Mann, Melody L, Heinzen, Ethan P, Davila, Jaime I, Vierkant, Robert A, Hoskin, Tanya L, Frost, Marlene, Carter, Jodi M, Radisky, Derek C, Cunningham, Julie M, Degnim, Amy C, Wang, Chen

“…Archived formalin fixed paraffin embedded (FFPE) samples are valuable clinical resources to examine clinically relevant morphology features and also to study…”
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Hippocampal astrocytes induce sex-dimorphic effects on memory by Meadows, Samantha M., Palaguachi, Fernando, Jang, Minwoo Wendy, Licht-Murava, Avital, Barnett, Daniel, Zimmer, Till S., Zhou, Constance, McDonough, Samantha R., Orr, Adam L., Orr, Anna G.

“…Astrocytic receptors influence cognitive function and can promote behavioral deficits in disease. These effects may vary based on variables such as biological…”
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Systemic biomarkers in electronic cigarette users: implications for noninvasive assessment of vaping-associated pulmonary injuries by Singh, Kameshwar P, Lawyer, Gina, Muthumalage, Thivanka, Maremanda, Krishna P, Khan, Naushad Ahmad, McDonough, Samantha R, Ye, Dongxia, McIntosh, Scott, Rahman, Irfan

“…Electronic cigarettes (e-cigs) were introduced as electronic nicotine delivery systems, and have become very popular in the USA and globally. There is a…”
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Relationship between BCL2 mutations and follicular lymphoma outcome in the chemoimmunotherapy era by Correia, Cristina, Maurer, Matthew J., McDonough, Samantha J., Schneider, Paula A., Ross, Paige E., Novak, Anne J., Feldman, Andrew L., Cerhan, James R., Slager, Susan L., Witzig, Thomas E., Eckloff, Bruce W., Li, Hu, Nowakowski, Grzegorz S., Kaufmann, Scott H.

“…How to identify follicular lymphoma (FL) patients with low disease burden but high risk for early progression is unclear. Building on a prior study…”
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Non-random genetic alterations in the cyanobacterium Nostoc sp. exposed to space conditions by Liu, Yuguang, Jeraldo, Patricio, Herbert, William, McDonough, Samantha, Eckloff, Bruce, de Vera, Jean-Pierre, Cockell, Charles, Leya, Thomas, Baqué, Mickael, Jen, Jin, Schulze-Makuch, Dirk, Walther-Antonio, Marina

“…Understanding the impact of long-term exposure of microorganisms to space is critical in understanding how these exposures impact the evolution and adaptation…”
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Application of the 3′ mRNA-Seq using unique molecular identifiers in highly degraded RNA derived from formalin-fixed, paraffin-embedded tissue by Jang, Jin Sung, Holicky, Eileen, Lau, Julie, McDonough, Samantha, Mutawe, Mark, Koster, Matthew J, Warrington, Kenneth J, Cuninngham, Julie M

“…Archival formalin-fixed, paraffin-embedded (FFPE) tissue samples with clinical and histological data are a singularly valuable resource for developing new…”
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Dysregulated repair and inflammatory responses by e‐cigarette‐derived inhaled nicotine and humectant propylene glycol in a sex‐dependent manner in mouse lung by Wang, Qixin, Ahmad Khan, Naushad, Muthumalage, Thivanka, Lawyer, Gina R., McDonough, Samantha R., Chuang, Tsai‐Der, Gong, Ming, Sundar, Isaac K., Rehan, Virender K., Rahman, Irfan

“…Nicotine inhalation via electronic cigarettes (e‐cigs) is an emerging concern. However, little is known about the acute toxicity in the lungs following…”
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Quality control recommendations for RNASeq using FFPE samples based on pre-sequencing lab metrics and post-sequencing bioinformatics metrics by Liu, Yuanhang, Bhagwate, Aditya, Winham, Stacey J, Stephens, Melissa T, Harker, Brent W, McDonough, Samantha J, Stallings-Mann, Melody L, Heinzen, Ethan P, Vierkant, Robert A, Hoskin, Tanya L, Frost, Marlene H, Carter, Jodi M, Pfrender, Michael E, Littlepage, Laurie, Radisky, Derek C, Cunningham, Julie M, Degnim, Amy C, Wang, Chen

“…Formalin-fixed, paraffin-embedded (FFPE) tissues have many advantages for identification of risk biomarkers, including wide availability and potential for…”
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Protocol for isolating immune cells from human gastric muscularis propria for single-cell analysis by AlAsfoor, Shefaa, Bernard, Cheryl E., Jessen, Erik, Simon, Vernadette A., Rakhshan, Fariborz, Cipriani, Gianluca, Hsi, Linda C., Patraw, Jack A., Carothers, Kari J., Lau, Julie S., McDonough, Samantha J., Dasari, Surendra, Farrugia, Gianrico, Grover, Madhusudan

“…Understanding the diversity of gastrointestinal (GI) immune cells, especially in the muscularis propria, is crucial for understanding their role in the…”
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Somatic mutations in benign breast disease tissues and association with breast cancer risk by Winham, Stacey J, Wang, Chen, Heinzen, Ethan P, Bhagwate, Aditya, Liu, Yuanhang, McDonough, Samantha J, Stallings-Mann, Melody L, Frost, Marlene H, Vierkant, Robert A, Denison, Lori A, Carter, Jodi M, Sherman, Mark E, Radisky, Derek C, Degnim, Amy C, Cunningham, Julie M

“…Benign breast disease (BBD) is a risk factor for breast cancer (BC); however, little is known about the genetic alterations present at the time of BBD…”
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Whole genome sequencing of cyanobacterium Nostoc sp. CCCryo 231-06 using microfluidic single cell technology by Liu, Yuguang, Jeraldo, Patricio, Herbert, William, McDonough, Samantha, Eckloff, Bruce, Schulze-Makuch, Dirk, de Vera, Jean-Pierre, Cockell, Charles, Leya, Thomas, Baqué, Mickael, Jen, Jin, Walther-Antonio, Marina

“…The Nostoc sp. strain CCCryo 231-06 is a cyanobacterial strain capable of surviving under extreme conditions and thus is of great interest for the astrobiology…”
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Genomic epidemiology reveals the dominance of Hennepin County in the transmission of SARS-CoV-2 in Minnesota from 2020 to 2022 by Scotch, Matthew, Lauer, Kimberly, Wieben, Eric D, Cherukuri, Yesesri, Cunningham, Julie M, Klee, Eric W, Harrington, Jonathan J, Lau, Julie S, McDonough, Samantha J, Mutawe, Mark, O'Horo, John C, Rentmeester, Chad E, Schlicher, Nicole R, White, Valerie T, Schneider, Susan K, Vedell, Peter T, Wang, Xiong, Yao, Joseph D, Pritt, Bobbi S, Norgan, Andrew P

“…We analyzed over 22,000 severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) genomes of patient samples tested at Mayo Clinic Laboratories during a…”
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Evidence for positive selection in the C-terminal domain of the cholesterol metabolism gene PCSK9 based on phylogenetic analysis in 14 primate species by Ding, Keyue, McDonough, Samantha J, Kullo, Iftikhar J

“…Cholesterol homeostasis is maintained through finely tuned mechanisms regulating intestinal absorption, hepatic biosynthesis and secretion as well as plasma…”
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Characterization of infectivity-enhanced conditionally replicating adenovectors for prostate cancer radiovirotherapy by Oneal, Michael J, Trujillo, Miguel A, Davydova, Julia, McDonough, Samantha, Yamamoto, Masato, Morris, 3rd, John C

“…Prostate cancer (PCa) is the second most commonly diagnosed and sixth leading cause of cancer death in American men and one for which no curative therapy…”
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1030 Oncolytic Adenovirus Expressing a Dual-Function Gene for Imaging and Treatment of Pancreatic Cancer by Davydova, Julia, Trujillo, Miguel, Oneal, Michael J, McDonough, Samantha J, Nelson, Stephen R, Han, Joohee, Morris, John C, Vickers, Selwyn M, Yamamoto, Masato

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Negative allometry of leaf xylem conduit diameter and double‐wall thickness: implications for implosion safety by Matos, Ilaine Silveira, McDonough, Samantha, Johnson, Breanna Carrillo, Kalantar, Diana, Rohde, James, Sahu, Roshni, Wang, Joyce, Fontao, Adrian, To, Jason, Carlos, Sonoma, Garcia, Lisa, Boakye, Mickey, Forbes, Holly, Blonder, Benjamin Wong

“…Summary Xylem conduits have lignified walls to resist crushing pressures. The thicker the double‐wall (T) relative to its diameter (D), the greater the…”
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Performance comparisons of methylation and structural variants from low-input whole-genome methylation sequencing by Sun, Zhifu, Behati, Saurabh, Wang, Panwen, Bhagwate, Aditya, McDonough, Samantha, Wang, Vivian, Taylor, William, Cunningham, Julie, Kisiel, John

“…Whole-genome methylation sequencing carries both DNA methylation and structural variant information (single nucleotide variant [SNV]; copy number variant…”
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