KSTAR: An algorithm to predict patient-specific kinase activities from phosphoproteomic data
Crowl, Sam, Jordan, Ben T., Ahmed, Hamza, Ma, Cynthia X., Naegle, Kristen M.
Published in Nature communications (25.07.2022)
Published in Nature communications (25.07.2022)
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Journal Article
Full-length transcript sequencing of human and mouse cerebral cortex identifies widespread isoform diversity and alternative splicing
Leung, Szi Kay, Jeffries, Aaron R., Castanho, Isabel, Jordan, Ben T., Moore, Karen, Davies, Jonathan P., Dempster, Emma L., Bray, Nicholas J., O’Neill, Paul, Tseng, Elizabeth, Ahmed, Zeshan, Collier, David A., Jeffery, Erin D., Prabhakar, Shyam, Schalkwyk, Leonard, Jops, Connor, Gandal, Michael J., Sheynkman, Gloria M., Hannon, Eilis, Mill, Jonathan
Published in Cell reports (Cambridge) (16.11.2021)
Published in Cell reports (Cambridge) (16.11.2021)
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Journal Article
Enhanced protein isoform characterization through long-read proteogenomics
Miller, Rachel M, Jordan, Ben T, Mehlferber, Madison M, Jeffery, Erin D, Chatzipantsiou, Christina, Kaur, Simi, Millikin, Robert J, Dai, Yunxiang, Tiberi, Simone, Castaldi, Peter J, Shortreed, Michael R, Luckey, Chance John, Conesa, Ana, Smith, Lloyd M, Deslattes Mays, Anne, Sheynkman, Gloria M
Published in Genome Biology (03.03.2022)
Published in Genome Biology (03.03.2022)
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Journal Article
Transformation of alignment files improves performance of variant callers for long-read RNA sequencing data
de Souza, Vladimir B C, Jordan, Ben T, Tseng, Elizabeth, Nelson, Elizabeth A, Hirschi, Karen K, Sheynkman, Gloria, Robinson, Mark D
Published in Genome Biology (24.04.2023)
Published in Genome Biology (24.04.2023)
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Journal Article
Characterization of protein isoform diversity in human umbilical vein endothelial cells via long-read proteogenomics
Mehlferber, Madison M., Jeffery, Erin D., Saquing, Jamie, Jordan, Ben T., Sheynkman, Leon, Murali, Mayank, Genet, Gael, Acharya, Bipul R., Hirschi, Karen K., Sheynkman, Gloria M.
Published in RNA biology (31.12.2022)
Published in RNA biology (31.12.2022)
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Journal Article
IS-PRM-Based Peptide Targeting Informed by Long-Read Sequencing for Alternative Proteome Detection
Korchak, Jennifer A, Jeffery, Erin D, Bandyopadhyay, Saikat, Jordan, Ben T, Lehe, Micah D, Watts, Emily F, Fenix, Aidan, Wilhelm, Mathias, Sheynkman, Gloria M
Published in Journal of the American Society for Mass Spectrometry (16.07.2024)
Published in Journal of the American Society for Mass Spectrometry (16.07.2024)
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Journal Article
IsoBayes : a Bayesian approach for single-isoform proteomics inference
Bollon, Jordy, Shortreed, Michael R, Jordan, Ben T, Miller, Rachel, Jeffery, Erin, Cavalli, Andrea, Smith, Lloyd M, Dewey, Colin, Sheynkman, Gloria M, Tiberi, Simone
Published in bioRxiv (11.06.2024)
Published in bioRxiv (11.06.2024)
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Journal Article
IS-PRM-based peptide targeting informed by long-read sequencing for alternative proteome detection
Korchak, Jennifer A, Jeffery, Erin D, Bandyopadhyay, Saikat, Jordan, Ben T, Lehe, Micah, Watts, Emily F, Fenix, Aidan, Wilhelm, Mathias, Sheynkman, Gloria M
Published in bioRxiv (01.04.2024)
Published in bioRxiv (01.04.2024)
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Journal Article
Characterization of protein isoform diversity in human umbilical vein endothelial cells (HUVECs) via long-read proteogenomics
Mehlferber, Madison M, Jordan, Ben T, Jeffery, Erin D, Sheynkman, Leon, Saquing, Jamie, Acharya, Bipul R, Hirschi, Karen K, Sheynkman, Gloria M
Published in bioRxiv (18.05.2022)
Published in bioRxiv (18.05.2022)
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