Publications by authors named "Adam Margolin"

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Blueprints for Better Drugs: The Structural Revolution in Nanomedicine.
Chad A Mirkin, Robert Langer, Milan Mrksich, Adam A Margolin, Sarah Hurst Petrosko

ACS Nano· May 2025

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An open protocol for modeling T Cell Clonotype repertoires using TCRβ CDR3 sequences.
Burcu Gurun, Wesley Horton, Dhaarini Murugan, Biqing Zhu, Patrick Leyshock, Adam A Margolin

BMC Genomics· June 2023

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An open protocol for modeling T Cell Clonotype repertoires using TCRβ CDR3 sequences.
Burcu Gurun, Wesley Horton, Dhaarini Murugan, Biqing Zhu, Patrick Leyshock, Adam A Margolin

Res Sq· February 2023

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svpluscnv: analysis and visualization of complex structural variation data.
Gonzalo Lopez, Laura E Egolf, Federico M Giorgi, Sharon J Diskin, Adam A Margolin

Bioinformatics· July 2021

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Addendum: The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity.
Jordi Barretina, Giordano Caponigro, Nicolas Stransky, Kavitha Venkatesan, Adam A Margolin

Nature· January 2019

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Combining accurate tumor genome simulation with crowdsourcing to benchmark somatic structural variant detection.
Anna Y Lee, Adam D Ewing, Kyle Ellrott, Yin Hu, Kathleen E Houlahan, Adam A Margolin

Genome Biol· November 2018

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Complement C5a Fosters Squamous Carcinogenesis and Limits T Cell Response to Chemotherapy.
Terry R Medler, Dhaarini Murugan, Wesley Horton, Sushil Kumar, Tiziana Cotechini, Adam A Margolin

Cancer Cell· October 2018

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Valection: design optimization for validation and verification studies.
Christopher I Cooper, Delia Yao, Dorota H Sendorek, Takafumi N Yamaguchi, Christine P'ng, Adam A Margolin

BMC Bioinformatics· September 2018

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Functional Precision Medicine Identifies Novel Druggable Targets and Therapeutic Options in Head and Neck Cancer.
Chang Xu, Olga Nikolova, Ryan S Basom, Ryan M Mitchell, Reid Shaw, Adam A Margolin

Clin Cancer Res· June 2018

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Pan-cancer transcriptional signatures predictive of oncogenic mutations reveal that Fbw7 regulates cancer cell oxidative metabolism.
Ryan J Davis, Mehmet Gönen, Daciana H Margineantu, Shlomo Handeli, Jherek Swanger, Adam A Margolin

Proc Natl Acad Sci U S A· May 2018

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Population-level distribution and putative immunogenicity of cancer neoepitopes.
Mary A Wood, Mayur Paralkar, Mihir P Paralkar, Austin Nguyen, Adam J Struck, Adam Margolin

BMC Cancer· April 2018

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SHIFT: speedy histopathological-to-immunofluorescent translation of whole slide images using conditional generative adversarial networks.
Erik A Burlingame, Adam A Margolin, Joe W Gray, Young Hwan Chang

Proc SPIE Int Soc Opt Eng· February 2018

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Germline contamination and leakage in whole genome somatic single nucleotide variant detection.
Dorota H Sendorek, Cristian Caloian, Kyle Ellrott, J Christopher Bare, Takafumi N Yamaguchi, Adam A Margolin

BMC Bioinformatics· January 2018

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A Community Challenge for Inferring Genetic Predictors of Gene Essentialities through Analysis of a Functional Screen of Cancer Cell Lines.
Mehmet Gönen, Barbara A Weir, Glenn S Cowley, Francisca Vazquez, Yuanfang Guan, Adam A Margolin

Cell Syst· November 2017

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Chromatin and Transcriptional Analysis of Mesoderm Progenitor Cells Identifies HOPX as a Regulator of Primitive Hematopoiesis.
Nathan J Palpant, Yuliang Wang, Brandon Hadland, Rebecca J Zaunbrecher, Meredith Redd, Adam Margolin

Cell Rep· August 2017

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Deep learning based Nucleus Classification in pancreas histological images.
Young Hwan Chang, Guillaume Thibault, Owen Madin, Vahid Azimi, Cole Meyers, Adam Margolin

Annu Int Conf IEEE Eng Med Biol Soc· July 2017

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Multiplexed immunohistochemistry image analysis using sparse coding.
Young Hwan Chang, Takahiro Tsujikawa, Adam Margolin, Lisa M Coussens, Joe W Gray

Annu Int Conf IEEE Eng Med Biol Soc· July 2017

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Modeling gene-wise dependencies improves the identification of drug response biomarkers in cancer studies.
Olga Nikolova, Russell Moser, Christopher Kemp, Mehmet Gönen, Adam A Margolin

Bioinformatics· May 2017

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BREAST CANCER HISTOPATHOLOGY IMAGE ANALYSIS PIPELINE FOR TUMOR PURITY ESTIMATION.
Vahid Azimi, Young Hwan Chang, Guillaume Thibault, Jaclyn Smith, Takahiro Tsujikawa, Adam Margolin

Proc IEEE Int Symp Biomed Imaging· April 2017

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Quantitative Multiplex Immunohistochemistry Reveals Myeloid-Inflamed Tumor-Immune Complexity Associated with Poor Prognosis.
Takahiro Tsujikawa, Sushil Kumar, Rohan N Borkar, Vahid Azimi, Guillaume Thibault, Adam A Margolin

Cell Rep· April 2017

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Integrative Analysis on Histopathological Image for Identifying Cellular Heterogeneity.
Young Hwan Chang, Guillaume Thibault, Brett Johnson, Adam Margolin, Joe W Gray

Proc SPIE Int Soc Opt Eng· February 2017

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CIViC is a community knowledgebase for expert crowdsourcing the clinical interpretation of variants in cancer.
Malachi Griffith, Nicholas C Spies, Kilannin Krysiak, Joshua F McMichael, Adam C Coffman, Adam A Margolin

Nat Genet· January 2017

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Quantitative analysis of histological tissue image based on cytological profiles and spatial statistics.
Young Hwan Chang, Guillaume Thibault, Vahid Azimi, Brett Johnson, Danielle Jorgens, Adam Margolin

Annu Int Conf IEEE Eng Med Biol Soc· August 2016

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Integrated Genomic Analysis of Diverse Induced Pluripotent Stem Cells from the Progenitor Cell Biology Consortium.
Nathan Salomonis, Phillip J Dexheimer, Larsson Omberg, Robin Schroll, Stacy Bush, Adam Margolin

Stem Cell Reports· July 2016

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