Search Results - "Cotto, C."

Integrated analysis of genomic and transcriptomic data for the discovery of splice-associated variants in cancer by Cotto, Kelsy C., Feng, Yang-Yang, Ramu, Avinash, Richters, Megan, Freshour, Sharon L., Skidmore, Zachary L., Xia, Huiming, McMichael, Joshua F., Kunisaki, Jason, Campbell, Katie M., Chen, Timothy Hung-Po, Rozycki, Emily B., Adkins, Douglas, Devarakonda, Siddhartha, Sankararaman, Sumithra, Lin, Yiing, Chapman, William C., Maher, Christopher A., Arora, Vivek, Dunn, Gavin P., Uppaluri, Ravindra, Govindan, Ramaswamy, Griffith, Obi L., Griffith, Malachi

“…Somatic mutations within non-coding regions and even exons may have unidentified regulatory consequences that are often overlooked in analysis workflows. Here…”
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DGIdb 3.0: a redesign and expansion of the drug–gene interaction database by Cotto, Kelsy C, Wagner, Alex H, Feng, Yang-Yang, Kiwala, Susanna, Coffman, Adam C, Spies, Gregory, Wollam, Alex, Spies, Nicholas C, Griffith, Obi L, Griffith, Malachi

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Catalytic use of TiO2 nanowires in the photodegradation of Benzophenone-4 as an active ingredient in sunscreens by Soto-Vázquez, Loraine, Rolón-Delgado, Frankie, Rivera, Keila, Cotto, María C., Ducongé, José, Morant, Carmen, Pinilla, Sergio, Márquez-Linares, Francisco M.

“…Water contamination has compromised the quality of this resource during the last years with the presence of persistent organic pollutants. Because of the…”
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Photocatalytic Degradation of Fluoroquinolone Antibiotics in Solution by Au@ZnO-rGO-gC3N4 Composites by Abniel Machín, Kenneth Fontánez, José Duconge, María C. Cotto, Florian I. Petrescu, Carmen Morant, Francisco Márquez

“…The photocatalytic degradation of two quinolone-type antibiotics (ciprofloxacin and levofloxacin) in aqueous solution was studied, using catalysts based on ZnO…”
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Environmental Aspects and Recycling of Solid-State Batteries: A Comprehensive Review by Machín, Abniel, Cotto, María C., Díaz, Francisco, Duconge, José, Morant, Carmen, Márquez, Francisco

“…Solid-state batteries (SSBs) have emerged as a promising alternative to conventional lithium-ion batteries, with notable advantages in safety, energy density,…”
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Personalized ctDNA micro-panels can monitor and predict clinical outcomes for patients with triple-negative breast cancer by Barnell, Erica K., Fisk, Bryan, Skidmore, Zachary L., Cotto, Kelsy C., Basu, Anamika, Anand, Aparna, Richters, Megan M., Luo, Jingqin, Fronick, Catrina, Anurag, Meenakshi, Fulton, Robert, Ellis, Matthew J., Griffith, Obi L., Griffith, Malachi, Ademuyiwa, Foluso O.

“…Circulating tumor DNA (ctDNA) in peripheral blood has been used to predict prognosis and therapeutic response for triple-negative breast cancer (TNBC)…”
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Photodegradation of Ciprofloxacin and Levofloxacin by Au@ZnONPs-MoS2-rGO Nanocomposites by Abniel Machín, Loraine Soto-Vázquez, Diego García, María C. Cotto, Dayna Ortiz, Pedro J. Berríos-Rolón, Kenneth Fontánez, Edgard Resto, Carmen Morant, Florian Petrescu, Francisco Márquez

“…This study aimed to investigate the photocatalytic performance of diverse zinc oxide catalysts containing gold nanoparticles (AuNPs), molybdenum disulfide…”
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Integration of the Drug–Gene Interaction Database (DGIdb 4.0) with open crowdsource efforts by Freshour, Sharon L, Kiwala, Susanna, Cotto, Kelsy C, Coffman, Adam C, McMichael, Joshua F, Song, Jonathan J, Griffith, Malachi, Griffith, Obi L, Wagner, Alex H

“…Abstract The Drug-Gene Interaction Database (DGIdb, www.dgidb.org) is a web resource that provides information on drug-gene interactions and druggable genes…”
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Uncovering moderators of pain perception by women with endometriosis from Latin America and Spain: the roles of sociodemographics, racial self-identity, and pain catastrophizing by Flores, Idhaliz, Torres-Reverón, Annelyn, Navarro, Eduardo, Nieves-Vázquez, Cristina I, Cotto-Vázquez, Ariana C, Alonso-Díaz, Joanne M, Bracero, Nabal J, Vincent, Katy

“…A cross-sectional multinational collaborative study on women with endometriosis from Latin America and Spain uncovered high levels of painful symptomatology…”
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ORegAnno 3.0: a community-driven resource for curated regulatory annotation by Lesurf, Robert, Cotto, Kelsy C, Wang, Grace, Griffith, Malachi, Kasaian, Katayoon, Jones, Steven J M, Montgomery, Stephen B, Griffith, Obi L

“…The Open Regulatory Annotation database (ORegAnno) is a resource for curated regulatory annotation. It contains information about regulatory regions,…”
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Degradation of phenol by mechanical activation of a rutile catalyst by Cotto, M.C., Emiliano, A., Nieto, S., Duconge, J., Roque-Malherbe, R.

“…Phenol solutions in water were ball-milled with and without a rutile powder catalyst, and the reaction products analyzed. It was established, that when the…”
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Acceptability of gynecologic e-health modalities by Hispanic/Latina women of reproductive age by Alvarado, Ariana, Ramos-Echevarría, Paola, Cotto-Vázquez, Ariana C., Núñez-González, Stephanie, Nieves-Vázquez, Cristina I., Sierra, Carlos R., Más-Vayas, Loraine, Soto-Soto, Denisse M., Llorens, Astrid, Bell, Chantelle, Roy, Anya, Flores, Idhaliz

“…•This cross-sectional study was designed to determine the perception of Hispanic/Latina women of reproductive age regarding facilitators and barriers for using…”
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Standard operating procedure for somatic variant refinement of sequencing data with paired tumor and normal samples by Barnell, Erica K., Ronning, Peter, Campbell, Katie M., Krysiak, Kilannin, Ainscough, Benjamin J., Sheta, Lana M., Pema, Shahil P., Schmidt, Alina D., Richters, Megan, Cotto, Kelsy C., Danos, Arpad M., Ramirez, Cody, Skidmore, Zachary L., Spies, Nicholas C., Hundal, Jasreet, Sediqzad, Malik S., Kunisaki, Jason, Gomez, Felicia, Trani, Lee, Matlock, Matthew, Wagner, Alex H., Swamidass, S. Joshua, Griffith, Malachi, Griffith, Obi L.

“…Purpose Following automated variant calling, manual review of aligned read sequences is required to identify a high-quality list of somatic variants. Despite…”
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Effects of chronic environmental exposure to waterborne lead and copper on the dopaminergic and serotonergic systems of zebrafish by De León, Jimmy, Cotto, María Del C., Olivo, Carlos J., Márquez, Francisco M.

“…Objective Because of pipelines corrosion, lead (Pb) and copper (Cu) ions could be generated at low levels in tap water leading to a chronic exposure with the…”
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Exploring the Genomic Landscape of Cancer Patient Cohorts with GenVisR by Skidmore, Zachary L, Campbell, Katie M, Cotto, Kelsy C, Griffith, Malachi, Griffith, Obi L

“…The creation of visualizations to interpret genomics data remains an important aspect of data science within computational biology. The GenVisR Bioconductor…”
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Genomic and transcriptomic somatic alterations of hepatocellular carcinoma in non-cirrhotic livers by Skidmore, Zachary L, Kunisaki, Jason, Lin, Yiing, Cotto, Kelsy C, Barnell, Erica K, Hundal, Jasreet, Krysiak, Kilannin, Magrini, Vincent, Trani, Lee, Walker, Jason R, Fulton, Robert, Brunt, Elizabeth M, Miller, Christopher A, Wilson, Richard K, Mardis, Elaine R, Griffith, Malachi, Chapman, William, Griffith, Obi L

“…•Non-cirrhotic HCC genomically resembles cirrhotic HCC•Comprehensive genome- and transcriptome-wide profiling allows detection of novel structural variants,…”
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Computational prediction of MHC anchor locations guides neoantigen identification and prioritization by Xia, Huiming, McMichael, Joshua, Becker-Hapak, Michelle, Onyeador, Onyinyechi C, Buchli, Rico, McClain, Ethan, Pence, Patrick, Supabphol, Suangson, Richters, Megan M, Basu, Anamika, Ramirez, Cody A, Puig-Saus, Cristina, Cotto, Kelsy C, Freshour, Sharon L, Hundal, Jasreet, Kiwala, Susanna, Goedegebuure, S Peter, Johanns, Tanner M, Dunn, Gavin P, Ribas, Antoni, Miller, Christopher A, Gillanders, William E, Fehniger, Todd A, Griffith, Obi L, Griffith, Malachi

“…Neoantigens are tumor-specific peptide sequences resulting from sources such as somatic DNA mutations. Upon loading onto major histocompatibility complex (MHC)…”
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Distinct clonal identities of B-ALLs arising after lenolidomide therapy for multiple myeloma by Barnell, Erica K., Skidmore, Zachary L., Newcomer, Kenneth F., Chavez, Monique, Campbell, Katie M., Cotto, Kelsy C., Spies, Nicholas C., Ruzinova, Marianna B., Wang, Tianjiao, Abro, Brooj, Kreisel, Friederike, Parikh, Bijal A., Duncavage, Eric J., Frater, John L., Lee, Yi-Shan, Hassan, Anjum, King, Justin A., Kohnen, Daniel R., Fiala, Mark A., Welch, John S., Uy, Geoffrey L., Vij, Kiran, Vij, Ravi, Griffith, Malachi, Griffith, Obi L., Wartman, Lukas D.

“…•B-ALL development in the setting of lenalidomide treatment for MM is a distinct primary malignancy with high incidence of TP53 mutations.•Chronic lenalidomide…”
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In silico epitope prediction analyses highlight the potential for distracting antigen immunodominance with allogeneic cancer vaccines by James, C Alston, Ronning, Peter, Cullinan, Darren, Cotto, Kelsy C, Barnell, Erica K, Campbell, Katie M, Skidmore, Zachary L, Sanford, Dominic E, Goedegebuure, S Peter, Gillanders, William E, Griffith, Obi L, Hawkins, William G, Griffith, Malachi

“…Allogeneic cancer vaccines are designed to induce antitumor immune responses with the goal of impacting tumor growth. Typical allogeneic cancer vaccines are…”
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CIViCpy: A Python Software Development and Analysis Toolkit for the CIViC Knowledgebase by Wagner, Alex H, Kiwala, Susanna, Coffman, Adam C, McMichael, Joshua F, Cotto, Kelsy C, Mooney, Thomas B, Barnell, Erica K, Krysiak, Kilannin, Danos, Arpad M, Walker, Jason, Griffith, Obi L, Griffith, Malachi

“…Precision oncology depends on the matching of tumor variants to relevant knowledge describing the clinical significance of those variants. We recently…”
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