Clinical-genomic determinants of immune checkpoint blockade response in head and neck squamous cell carcinoma
Valero, Cristina, Golkaram, Mahdi, Vos, Joris L, Xu, Bin, Fitzgerald, Conall, Lee, Mark, Kaplan, Shannon, Han, Catherine Y, Pei, Xin, Sarkar, Reith, Boe, Lillian A, Pandey, Abhinav, Koh, Elizabeth S, Zuur, Charlotte L, Solit, David B, Pawlowski, Traci, Liu, Li, Ho, Alan L, Chowell, Diego, Riaz, Nadeem, Chan, Timothy A, Morris, Luc Gt
Published in The Journal of clinical investigation (01.10.2023)
Published in The Journal of clinical investigation (01.10.2023)
Get full text
Journal Article
Identification of biomarkers predictive of metastasis development in early-stage colorectal cancer using network-based regularization
Peixoto, Carolina, Lopes, Marta B, Martins, Marta, Casimiro, Sandra, Sobral, Daniel, Grosso, Ana Rita, Abreu, Catarina, Macedo, Daniela, Costa, Ana Lúcia, Pais, Helena, Alvim, Cecília, Mansinho, André, Filipe, Pedro, Costa, Pedro Marques da, Fernandes, Afonso, Borralho, Paula, Ferreira, Cristina, Malaquias, João, Quintela, António, Kaplan, Shannon, Golkaram, Mahdi, Salmans, Michael, Khan, Nafeesa, Vijayaraghavan, Raakhee, Zhang, Shile, Pawlowski, Traci, Godsey, Jim, So, Alex, Liu, Li, Costa, Luís, Vinga, Susana
Published in BMC bioinformatics (16.01.2023)
Published in BMC bioinformatics (16.01.2023)
Get full text
Journal Article
Genetic and microenvironmental intra-tumor heterogeneity impacts colorectal cancer evolution and metastatic development
Sobral, Daniel, Martins, Marta, Kaplan, Shannon, Golkaram, Mahdi, Salmans, Michael, Khan, Nafeesa, Vijayaraghavan, Raakhee, Casimiro, Sandra, Fernandes, Afonso, Borralho, Paula, Ferreira, Cristina, Pinto, Rui, Abreu, Catarina, Costa, Ana Lúcia, Zhang, Shile, Pawlowski, Traci, Godsey, Jim, Mansinho, André, Macedo, Daniela, Lobo-Martins, Soraia, Filipe, Pedro, Esteves, Rui, Coutinho, João, Costa, Paulo Matos, Ramires, Afonso, Aldeia, Fernando, Quintela, António, So, Alex, Liu, Li, Grosso, Ana Rita, Costa, Luis
Published in Communications biology (09.09.2022)
Published in Communications biology (09.09.2022)
Get full text
Journal Article
Comprehensive Genomic Profiling of Cell-Free Circulating Tumor DNA Detects Response to Ribociclib Plus Letrozole in a Patient with Metastatic Breast Cancer
Silveira, Catarina, Sousa, Ana Carla, Corredeira, Patrícia, Martins, Marta, Sousa, Ana Rita, Da Cruz Paula, Arnaud, Selenica, Pier, Brown, David N, Golkaram, Mahdi, Kaplan, Shannon, Zhang, Shile, Liu, Li, Weigelt, Britta, Reis-Filho, Jorge S, Costa, Luís, Carmo-Fonseca, Maria
Published in Biomolecules (Basel, Switzerland) (01.12.2022)
Published in Biomolecules (Basel, Switzerland) (01.12.2022)
Get full text
Journal Article
HERVs establish a distinct molecular subtype in stage II/III colorectal cancer with poor outcome
Golkaram, Mahdi, Salmans, Michael L, Kaplan, Shannon, Vijayaraghavan, Raakhee, Martins, Marta, Khan, Nafeesa, Garbutt, Cassandra, Wise, Aaron, Yao, Joyee, Casimiro, Sandra, Abreu, Catarina, Macedo, Daniela, Costa, Ana Lúcia, Alvim, Cecília, Mansinho, André, Filipe, Pedro, Marques da Costa, Pedro, Fernandes, Afonso, Borralho, Paula, Ferreira, Cristina, Aldeia, Fernando, Malaquias, João, Godsey, Jim, So, Alex, Pawlowski, Traci, Costa, Luis, Zhang, Shile, Liu, Li
Published in Npj genomic medicine (15.02.2021)
Published in Npj genomic medicine (15.02.2021)
Get full text
Journal Article
Sensitivity and Specificity of a Rapid rRNA Gene Probe Assay for Simultaneous Identification of Staphylococcus aureus and Detection of mecA
Kaplan, Shannon, Marlowe, Elizabeth M, Hogan, James J, Doymaz, Mehmet, Bruckner, David A, Simor, Andrew E
Published in Journal of Clinical Microbiology (01.07.2005)
Published in Journal of Clinical Microbiology (01.07.2005)
Get full text
Journal Article
Novel Genetic Subtypes of Urothelial Carcinoma With Differential Outcomes on Immune Checkpoint Blockade
Sarfaty, Michal, Golkaram, Mahdi, Funt, Samuel A, Al-Ahmadie, Hikmat, Kaplan, Shannon, Song, Fan, Regazzi, Ashley, Makarov, Vladimir, Kuo, Fengshen, Ostrovnaya, Irina, Seshan, Venkatraman, Zhao, Chen, Greenbaum, Benjamin, Liu, Li, Rosenberg, Jonathan E, Chan, Timothy A
Published in Journal of clinical oncology (10.06.2023)
Published in Journal of clinical oncology (10.06.2023)
Get full text
Journal Article
Abstract 1993: A comprehensive benchmarking of paired whole exome and transcriptome biomarker analysis of response to cancer immunotherapy
Golkaram, Mahdi, Salmans, Michael, Vijayaraghavan, Raakhee, Kaplan, Shannon, Haigis, Robert, Yao, Joyee, Kruglyak, Kristina, Liu, Li, Pawlowski, Traci, Bilke, Sven, Zhang, Shile
Published in Cancer research (Chicago, Ill.) (15.08.2020)
Published in Cancer research (Chicago, Ill.) (15.08.2020)
Get full text
Journal Article
Abstract 427: A path towards determining tumor mutation burden and identifying neoantigens using next-generation sequencing (NGS)
So, Alex, Kaplan, Shannon, Wang, Nai-yu, Zhang, Shile, Wise, Aaron, Kruglyak, Kristina, Gutekunst, Karen
Published in Cancer research (Chicago, Ill.) (01.07.2017)
Published in Cancer research (Chicago, Ill.) (01.07.2017)
Get full text
Journal Article
Abstract 435: Accurate measurement of tumor mutation burden through tumor-only sequencing using a 500-gene panel
So, Alex Steven, Kaplan, Shannon, Zhao, Chen, Zhang, Shile, Liu, Li, Le, Phillip, Vijayaraghavan, Raakhee, Jiang, Tingting, Bilke, Sven, Pawlowski, Traci, Gutekunst, Karen
Published in Cancer research (Chicago, Ill.) (01.07.2018)
Published in Cancer research (Chicago, Ill.) (01.07.2018)
Get full text
Journal Article
Abstract 3414: Determining microsatellite instability (MSI) status of colorectal cancers through next-generation sequencing (NGS)
So, Alex, Zhang, Shile, Kaplan, Shannon, Yao, Joyee, Le, Phillip, Glidewell-Kenney, Christine, Kruglyak, Kristina, Chen, Jenny Jie, Kuraishy, Ali, Deras, Ina, Gutekunst, Karen
Published in Cancer research (Chicago, Ill.) (01.07.2018)
Published in Cancer research (Chicago, Ill.) (01.07.2018)
Get full text
Journal Article
SYSTEMS AND METHODS FOR DETERMINING MICROSATELLITE INSTABILITY
BILKE SVEN, SO ALEX S, KRUGLYAK KRISTINA M, ZHANG SHILE, KAPLAN SHANNON
Year of Publication 03.06.2022
Get full text
Year of Publication 03.06.2022
Patent
암 예후를 위한 시스템 및 방법
SALMANS MICHAEL, SO ALEX, VIJAYARAGHAVAN RAAKHEE, YAO JOYEE, GOLKARAM MAHDI, ZHANG SHILE, WISE AARON, LIU LI, KAPLAN SHANNON
Year of Publication 05.01.2023
Get full text
Year of Publication 05.01.2023
Patent
미세부수체 불안정성을 결정하기 위한 시스템 및 방법
BILKE SVEN, SO ALEX S, KRUGLYAK KRISTINA M, ZHANG SHILE, KAPLAN SHANNON
Year of Publication 13.02.2020
Get full text
Year of Publication 13.02.2020
Patent
Roka Listeria detection method using transcription mediated amplification to detect Listeria species in select foods and surfaces. Performance Tested Method(SM) 011201
Hua, Yang, Kaplan, Shannon, Reshatoff, Michael, Hu, Ernie, Zukowski, Alexis, Schweis, Franz, Gin, Cristal, Maroni, Brett, Becker, Michael, Wisniewski, Michele
Published in Journal of AOAC International (01.11.2012)
Published in Journal of AOAC International (01.11.2012)
Get full text
Journal Article
SYSTEMS AND METHODS FOR DETERMINING MICROSATELLITE INSTABILITY
ZHANG, SHILE, KRUGLYAK, KRISTINA M, SO, ALEX S, KAPLAN, SHANNON, BILKE, SVEN
Year of Publication 29.08.2023
Get full text
Year of Publication 29.08.2023
Patent