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Publications

B cell genomics behind cross-neutralization of SARS-CoV-2 variants and SARS-CoV.

Scheid JF, Barnes CO, Eraslan B, et al. B cell genomics behind cross-neutralization of SARS-CoV-2 variants and SARS-CoV. Cell. 2021;184(12):3205-3221.e24. doi:10.1016/j.cell.2021.04.032

Gene fusions create partner and collateral dependencies essential to cancer cell survival.

Gillani R, Seong BKA, Crowdis J, et al. Gene fusions create partner and collateral dependencies essential to cancer cell survival. Cancer Res. 2021. doi:10.1158/0008-5472.CAN-21-0791

Deep learning boosts sensitivity of mass spectrometry-based immunopeptidomics.

Wilhelm M, Zolg DP, Graber M, et al. Deep learning boosts sensitivity of mass spectrometry-based immunopeptidomics. Nat Commun. 2021;12(1):3346. doi:10.1038/s41467-021-23713-9

Reprogramming of the esophageal squamous carcinoma epigenome by SOX2 promotes ADAR1 dependence.

Wu Z, Zhou J, Zhang X, et al. Reprogramming of the esophageal squamous carcinoma epigenome by SOX2 promotes ADAR1 dependence. Nat Genet. 2021;53(6):881-894. doi:10.1038/s41588-021-00859-2

MalDA, Accelerating Malaria Drug Discovery.

Yang T, Ottilie S, Istvan ES, et al. MalDA, Accelerating Malaria Drug Discovery. Trends Parasitol. 2021;37(6):493-507. doi:10.1016/j.pt.2021.01.009

Oculocutaneous albinism type 1B associated with a functionally significant tyrosinase gene polymorphism detected with Whole Exome Sequencing.

Mendez R, Iqbal S, Vishnopolska S, et al. Oculocutaneous albinism type 1B associated with a functionally significant tyrosinase gene polymorphism detected with Whole Exome Sequencing. Ophthalmic Genet. 2021;42(3):291-295. doi:10.1080/13816810.2021.1888129

Identification of a Novel Regulator of Clostridioides difficile Cortex Formation.

Touchette MH, de la Puebla HB, Feliciano CA, et al. Identification of a Novel Regulator of Clostridioides difficile Cortex Formation. mSphere. 2021:e0021121. doi:10.1128/mSphere.00211-21

Human plasma proteomic profiles indicative of cardiorespiratory fitness.

Robbins JM, Peterson B, Schranner D, et al. Human plasma proteomic profiles indicative of cardiorespiratory fitness. Nat Metab. 2021. doi:10.1038/s42255-021-00400-z

PANOPLY: a cloud-based platform for automated and reproducible proteogenomic data analysis.

Mani DR, Maynard M, Kothadia R, et al. PANOPLY: a cloud-based platform for automated and reproducible proteogenomic data analysis. Nat Methods. 2021. doi:10.1038/s41592-021-01176-6

Which image-based phenotypes are most promising for using AI to understand cellular functions and why?

Lundberg E, Funke J, Uhlmann V, et al. Which image-based phenotypes are most promising for using AI to understand cellular functions and why? Cell Syst. 2021;12(5):384-387. doi:10.1016/j.cels.2021.04.012