Differential gene expression analysis of spatial transcriptomic experiments using spatial mixed models
Ospina, Oscar E, Soupir, Alex C, Manjarres-Betancur, Roberto, Gonzalez-Calderon, Guillermo, Yu, Xiaoqing, Fridley, Brooke L
Published in Scientific reports (14.05.2024)
Published in Scientific reports (14.05.2024)
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Journal Article
Neurogenomic divergence during speciation by reinforcement of mating behaviors in chorus frogs (Pseudacris)
Ospina, Oscar E, Lemmon, Alan R, Dye, Mysia, Zdyrski, Christopher, Holland, Sean, Stribling, Daniel, Kortyna, Michelle L, Lemmon, Emily Moriarty
Published in BMC genomics (02.10.2021)
Published in BMC genomics (02.10.2021)
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Journal Article
Challenges and Opportunities in the Statistical Analysis of Multiplex Immunofluorescence Data
Wilson, Christopher M, Ospina, Oscar E, Townsend, Mary K, Nguyen, Jonathan, Moran Segura, Carlos, Schildkraut, Joellen M, Tworoger, Shelley S, Peres, Lauren C, Fridley, Brooke L
Published in Cancers (17.06.2021)
Published in Cancers (17.06.2021)
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Journal Article
spatialGE: quantification and visualization of the tumor microenvironment heterogeneity using spatial transcriptomics
Ospina, Oscar E, Wilson, Christopher M, Soupir, Alex C, Berglund, Anders, Smalley, Inna, Tsai, Kenneth Y, Fridley, Brooke L
Published in Bioinformatics (Oxford, England) (28.04.2022)
Published in Bioinformatics (Oxford, England) (28.04.2022)
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Journal Article
spatialTIME and iTIME: R package and Shiny application for visualization and analysis of immunofluorescence data
Creed, Jordan H, Wilson, Christopher M, Soupir, Alex C, Colin-Leitzinger, Christelle M, Kimmel, Gregory J, Ospina, Oscar E, Chakiryan, Nicholas H, Markowitz, Joseph, Peres, Lauren C, Coghill, Anna, Fridley, Brooke L
Published in Bioinformatics (07.12.2021)
Published in Bioinformatics (07.12.2021)
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Journal Article
Hierarchical Hybrid Enrichment: Multitiered Genomic Data Collection Across Evolutionary Scales, With Application to Chorus Frogs (Pseudacris)
Banker, Sarah E., Lemmon, Alan R., Hassinger, Alyssa Bigelow, Dye, Mysia, Holland, Sean D., Kortyna, Michelle L., Ospina, Oscar E., Ralicki, Hannah, Lemmon, Emily Moriarty
Published in Systematic biology (01.07.2020)
Published in Systematic biology (01.07.2020)
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Journal Article
Preexisting Skin-Resident CD8 and γδ T-cell Circuits Mediate Immune Response in Merkel Cell Carcinoma and Predict Immunotherapy Efficacy
Reinstein, Zachary Z., Zhang, Yue, Ospina, Oscar E., Nichols, Matt D., Chu, Victoria A., Pulido, Alvaro de Mingo, Prieto, Karol, Nguyen, Jonathan V., Yin, Rui, Moran Segura, Carlos, Usman, Ahmed, Sell, Brittney, Ng, Spencer, de la Iglesia, Janis V., Chandra, Sunandana, Sosman, Jeffrey A., Cho, Raymond J., Cheng, Jeffrey B., Ivanova, Ellie, Koralov, Sergei B., Slebos, Robbert J.C., Chung, Christine H., Khushalani, Nikhil I., Messina, Jane L., Sarnaik, Amod A., Zager, Jonathan S., Sondak, Vernon K., Vaske, Charles, Kim, Sungjune, Brohl, Andrew S., Mi, Xinlei, Pierce, Brian G., Wang, Xuefeng, Fridley, Brooke L., Tsai, Kenneth Y., Choi, Jaehyuk
Published in Cancer discovery (04.09.2024)
Published in Cancer discovery (04.09.2024)
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Journal Article
The herpetological contributions of Richard Thomas
Bauer, Aaron M., Daza, Juan D., Herrera‐Martínez, Alexandra, Ospina, Oscar E.
Published in Anatomical record (Hoboken, N.J. : 2007) (01.10.2021)
Published in Anatomical record (Hoboken, N.J. : 2007) (01.10.2021)
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Journal Article
Spatial transcriptomics analysis identifies a tumor-promoting function of the meningeal stroma in melanoma leptomeningeal disease
Alhaddad, Hasan, Ospina, Oscar E., Khaled, Mariam Lotfy, Ren, Yuan, Vallebuona, Ethan, Boozo, Mohammad Baraa, Forsyth, Peter A., Pina, Yolanda, Macaulay, Robert, Law, Vincent, Tsai, Kenneth Y., Cress, W. Douglas, Fridley, Brooke, Smalley, Inna
Published in Cell reports. Medicine (18.06.2024)
Published in Cell reports. Medicine (18.06.2024)
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Journal Article
Abstract 277: High agreement between immune profiling assays on the detection of infiltrating immune cells in ovarian tumor tissue
Ospina, Oscar E., Townsend, Mary K., Wang, Tianyi, Sasamoto, Naoko, Stewart, Paul, Conejo-Garcia, Jose, Terry, Kathryn, Tworoger, Shelley S., Fridley, B L.
Published in Cancer research (Chicago, Ill.) (15.06.2022)
Published in Cancer research (Chicago, Ill.) (15.06.2022)
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Journal Article
Abstract 3928: Genomic landscape and estimation of immune infiltration of soft tissue sarcoma histology subtypes from the ORIEN network
Soupir, Alex C., Ospina, Oscar E., Hedges, Dale, Teer, Jamie K., Radmacher, Michael D., McKean, David M., Seligson, Nathan, McCarter, Martin, Wilkey, Breelyn, Riedlinger, Greg, Groundland, John, Miller, Benjamin J., Schneider, Bryan, Patel, Reema, Rafeh-Naqash, Abdul, Edge, Stephen, Salhia, Bodour, Moskaluk, Chris, Johns, Maggy, Churchman, Michelle L., Hampton, Oliver, Liebner, David, Fridley, Brooke L., Brohl, Andrew S.
Published in Cancer research (Chicago, Ill.) (22.03.2024)
Published in Cancer research (Chicago, Ill.) (22.03.2024)
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Journal Article
Abstract 1163: Increased spatial coupling of integrin and collagen IV in the immunoresistant clear cell renal cell carcinoma tumor microenvironment
Soupir, Alex C., Hayes, Mitchell T., Peak, Taylor C., Ospina, Oscar E., Chakiryan, Nicholas H., Berglund, Anders E., Stewart, Paul A., Nguyen, Jonathan, Moran-Segura, Carlos M., Francis, Natasha L., Ramos-Echevarria, Paola M., Chahoud, Jad, Li, Roger, Tsai, Kenneth Y., Balasi, Jodi A., Caraballo-Perez, Yamila, Dhillon, Jasreman, Martinez, Lindsey A., Gloria, Warren E., Schurman, Nathan, Kim, Sean, Gregory, Mark, Mule, James J., Fridley, Brooke L., Manley, Brandon J.
Published in Cancer research (Chicago, Ill.) (22.03.2024)
Published in Cancer research (Chicago, Ill.) (22.03.2024)
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Journal Article
Spatial transcriptomics analysis identifies a unique tumor-promoting function of the meningeal stroma in melanoma leptomeningeal disease
Alhaddad, Hasan, Ospina, Oscar E, Khaled, Mariam Lotfy, Ren, Yuan, Forsyth, Peter, Pina, Yolanda, Macaulay, Robert, Law, Vincent, Tsai, Kenneth Y, Cress, W Douglas, Fridley, Brooke, Smalley, Inna
Published in bioRxiv : the preprint server for biology (19.12.2023)
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Published in bioRxiv : the preprint server for biology (19.12.2023)
Journal Article
spatialGE: A user-friendly web application to democratize spatial transcriptomics analysis
Ospina, Oscar E, Manjarres-Betancur, Roberto, Gonzalez-Calderon, Guillermo, Soupir, Alex C, Smalley, Inna, Tsai, Kenneth, Markowitz, Joseph, Vallebuona, Ethan, Berglund, Anders, Eschrich, Steven, Yu, Xiaoqing, Fridley, Brooke L
Published in bioRxiv (02.07.2024)
Published in bioRxiv (02.07.2024)
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