Partial gene suppression improves identification of cancer vulnerabilities when CRISPR-Cas9 knockout is pan-lethal
Krill-Burger, J. Michael, Dempster, Joshua M., Borah, Ashir A., Paolella, Brenton R., Root, David E., Golub, Todd R., Boehm, Jesse S., Hahn, William C., McFarland, James M., Vazquez, Francisca, Tsherniak, Aviad
Published in Genome Biology (23.08.2023)
Published in Genome Biology (23.08.2023)
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In vivo perturb-seq of cancer and microenvironment cells dissects oncologic drivers and radiotherapy responses in glioblastoma
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Published in Genome Biology (07.10.2024)
Published in Genome Biology (07.10.2024)
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Lineage-specific canonical and non-canonical activity of EZH2 in advanced prostate cancer subtypes
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Published in Nature communications (08.08.2024)
Published in Nature communications (08.08.2024)
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Repeat expansions confer WRN dependence in microsatellite-unstable cancers
van Wietmarschen, Niek, Sridharan, Sriram, Nathan, William J., Tubbs, Anthony, Chan, Edmond M., Callen, Elsa, Wu, Wei, Belinky, Frida, Tripathi, Veenu, Wong, Nancy, Foster, Kyla, Noorbakhsh, Javad, Garimella, Kiran, Cruz-Migoni, Abimael, Sommers, Joshua A., Huang, Yongqing, Borah, Ashir A., Smith, Jonathan T., Kalfon, Jeremie, Kesten, Nikolas, Fugger, Kasper, Walker, Robert L., Dolzhenko, Egor, Eberle, Michael A., Hayward, Bruce E., Usdin, Karen, Freudenreich, Catherine H., Brosh, Robert M., West, Stephen C., McHugh, Peter J., Meltzer, Paul S., Bass, Adam J., Nussenzweig, André
Published in Nature (London) (08.10.2020)
Published in Nature (London) (08.10.2020)
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A Ubiquitination Cascade Regulating the Integrated Stress Response and Survival in Carcinomas
Cervia, Lisa D, Shibue, Tsukasa, Borah, Ashir A, Gaeta, Benjamin, He, Linh, Leung, Lisa, Li, Naomi, Moyer, Sydney M, Shim, Brian H, Dumont, Nancy, Gonzalez, Alfredo, Bick, Nolan R, Kazachkova, Mariya, Dempster, Joshua M, Krill-Burger, John Michael, Piccioni, Federica, Udeshi, Namrata D, Olive, Meagan E, Carr, Steven A, Root, David E, McFarland, James M, Vazquez, Francisca, Hahn, William C
Published in Cancer discovery (01.03.2023)
Published in Cancer discovery (01.03.2023)
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Sparse dictionary learning recovers pleiotropy from human cell fitness screens
Pan, Joshua, Kwon, Jason J., Talamas, Jessica A., Borah, Ashir A., Vazquez, Francisca, Boehm, Jesse S., Tsherniak, Aviad, Zitnik, Marinka, McFarland, James M., Hahn, William C.
Published in Cell systems (20.04.2022)
Published in Cell systems (20.04.2022)
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Microenvironment drives cell state, plasticity, and drug response in pancreatic cancer
Raghavan, Srivatsan, Winter, Peter S., Navia, Andrew W., Williams, Hannah L., DenAdel, Alan, Lowder, Kristen E., Galvez-Reyes, Jennyfer, Kalekar, Radha L., Mulugeta, Nolawit, Kapner, Kevin S., Raghavan, Manisha S., Borah, Ashir A., Liu, Nuo, Väyrynen, Sara A., Costa, Andressa Dias, Ng, Raymond W.S., Wang, Junning, Hill, Emma K., Ragon, Dorisanne Y., Brais, Lauren K., Jaeger, Alex M., Spurr, Liam F., Li, Yvonne Y., Cherniack, Andrew D., Booker, Matthew A., Cohen, Elizabeth F., Tolstorukov, Michael Y., Wakiro, Isaac, Rotem, Asaf, Johnson, Bruce E., McFarland, James M., Sicinska, Ewa T., Jacks, Tyler E., Sullivan, Ryan J., Shapiro, Geoffrey I., Clancy, Thomas E., Perez, Kimberly, Rubinson, Douglas A., Ng, Kimmie, Cleary, James M., Crawford, Lorin, Manalis, Scott R., Nowak, Jonathan A., Wolpin, Brian M., Hahn, William C., Aguirre, Andrew J., Shalek, Alex K.
Published in Cell (09.12.2021)
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Abstract P3-09-01: A ubiquitination cascade regulating the integrated stress response and survival in carcinomas
Cervia, Lisa D, Shibue, Tsukasa, Gaeta, Benjamin, Borah, Ashir A, Leung, Lisa, Li, Naomi, Dumont, Nancy, Gonzalez, Alfredo, Bick, Nolan, Kazachkova, Mariya, Dempster, Joshua M, Krill-Burger, John M, Piccioni, Federica, Udeshi, Namrata D, Olive, Meagan E, Carr, Steven A, Root, David E, McFarland, James M, Vazquez, Francisca, Hahn, William C
Published in Cancer research (Chicago, Ill.) (15.02.2022)
Published in Cancer research (Chicago, Ill.) (15.02.2022)
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Abstract 1897: Systematic methods to identify cancer vulnerabilities from genome-wide loss-of-function screens: An interactive framework for target discovery
Krill-Burger, John M., Borah, Ashir A., Paolella, Brenton R., McFarland, James M., Vazquez, Francisca
Published in Cancer research (Chicago, Ill.) (15.06.2022)
Published in Cancer research (Chicago, Ill.) (15.06.2022)
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Abstract PO-058: Transcriptional subtype-specific microenvironmental crosstalk and tumor cell plasticity in metastatic pancreatic cancer
Raghavan, Srivatsan, Winter, Peter S., Navia, Andrew W., Williams, Hannah L., DenAdel, Alan, Kalekar, Radha L., Galvez-Reyes, Jennyfer, Lowder, Kristen E., Mulugeta, Nolawit, Raghavan, Manisha S., Borah, Ashir A., Vayrynen, Sara A., Costa, Andressa Dias, Wang, Junning, Reilly, Emma, Ragon, Dorisanne Y., Brais, Lauren K., Jaeger, Alex M., Cleary, James M., Crawford, Lorin, Nowak, Jonathan A., Wolpin, Brian M., Hahn, William C., Aguirre, Andrew J., Shalek, Alex K.
Published in Cancer research (Chicago, Ill.) (15.11.2020)
Published in Cancer research (Chicago, Ill.) (15.11.2020)
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Journal Article
Abstract 73: A ubiquitination cascade regulating the integrated stress response and survival in carcinomas
Cervia, Lisa D., Shibue, Tsukasa, Gaeta, Benjamin, Borah, Ashir A., Leung, Lisa, Li, Naomi, Dumont, Nancy, Gonzalez, Alfredo, Bick, Nolan, Kazachkova, Mariya, Dempster, Joshua M., Krill-Burger, John M., Piccioni, Federica, Udeshi, Namrata D., Olive, Meagan E., Carr, Steven A., Root, David E., McFarland, James M., Vazquez, Francisca, Hahn, William C.
Published in Cancer research (Chicago, Ill.) (15.06.2022)
Published in Cancer research (Chicago, Ill.) (15.06.2022)
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Journal Article
Lineage-specific canonical and non-canonical activity of EZH2 in advanced prostate cancer subtypes
Venkadakrishnan, Varadha Balaji, Presser, Adam G, Singh, Richa, Booker, Matthew A, Traphagen, Nicole A, Weng, Kenny, Voss, Nathaniel C, Mahadevan, Navin R, Mizuno, Kei, Puca, Loredana, Idahor, Osasenaga, Ku, Sheng-Yu, Bakht, Martin K, Borah, Ashir A, Herbert, Zachary T, Tolstorukov, Michael Y, Barbie, David A, Rickman, David S, Brown, Myles, Beltran, Himisha
Published in Research square (04.03.2024)
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Published in Research square (04.03.2024)
Journal Article
Sparse dictionary learning recovers pleiotropy from human cell fitness screens
Pan, Joshua, Kwon, Jason J, Talamas, Jessica A, Borah, Ashir A, Vazquez, Francisca, Boehm, Jesse S, Tsherniak, Aviad, Zitnik, Marinka, McFarland, James M, Hahn, William C
Year of Publication 11.11.2021
Year of Publication 11.11.2021
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Journal Article
Sparse dictionary learning recovers pleiotropy from human cell fitness screens
Pan, Joshua, Kwon, Jason J, Talamas, Jessica A, Borah, Ashir A, Vazquez, Francisca, Boehm, Jesse S, Tsherniak, Aviad, Zitnik, Marinka, McFarland, James M, Hahn, William C
Published in arXiv.org (11.11.2021)
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Published in arXiv.org (11.11.2021)
Paper
Partial gene suppression improves identification of cancer vulnerabilities when CRISPR-Cas9 knockout is pan-lethal
Krill-Burger, John Michael, Dempster, Joshua M, Borah, Ashir A, Paolella, Brenton R, Root, David E, Golub, Todd R, Boehm, Jesse S, Hahn, William, Mcfarland, James M, Vazquez, Francisca, Tsherniak, Aviad
Published in bioRxiv (03.03.2022)
Published in bioRxiv (03.03.2022)
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Paper
Transcriptional subtype-specific microenvironmental crosstalk and tumor cell plasticity in metastatic pancreatic cancer
Raghavan, Srivatsan, Winter, Peter S, Navia, Andrew W, Williams, Hannah L, Denadel, Alan, Kalekar, Radha L, Galvez-Reyes, Jennyfer, Lowder, Kristen E, Nolawit Mulugeta, Raghavan, Manisha S, Borah, Ashir A, Vayrynen, Sara A, Andressa Dias Costa, Ng, Raymond Ws, Wang, Junning, Reilly, Emma, Ragon, Dorisanne Y, Brais, Lauren K, Jaeger, Alex M, Spurr, Liam F, Li, Yvonne Y, Cherniack, Andrew D, Wakiro, Isaac, Rotem, Asaf, Johnson, Bruce E, Mcfarland, James M, Sicinska, Ewa T, Jacks, Tyler E, Clancy, Thomas E, Perez, Kimberly, Rubinson, Douglas A, Ng, Kimmie, Cleary, James M, Crawford, Lorin, Manalis, Scott R, Nowak, Jonathan A, Wolpin, Brian M, Hahn, William C, Aguirre, Andrew J, Shalek, Alex K
Published in bioRxiv (25.08.2020)
Published in bioRxiv (25.08.2020)
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