Search Results - "Al'Khafaji, Aziz"

ESCRT-dependent STING degradation inhibits steady-state and cGAMP-induced signalling by Gentili, Matteo, Liu, Bingxu, Papanastasiou, Malvina, Dele-Oni, Deborah, Schwartz, Marc A., Carlson, Rebecca J., Al’Khafaji, Aziz M., Krug, Karsten, Brown, Adam, Doench, John G., Carr, Steven A., Hacohen, Nir

“…Stimulator of interferon genes (STING) is an intracellular sensor of cyclic di-nucleotides involved in the innate immune response against pathogen- or…”
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High-throughput RNA isoform sequencing using programmed cDNA concatenation by Al’Khafaji, Aziz M., Smith, Jonathan T., Garimella, Kiran V., Babadi, Mehrtash, Popic, Victoria, Sade-Feldman, Moshe, Gatzen, Michael, Sarkizova, Siranush, Schwartz, Marc A., Blaum, Emily M., Day, Allyson, Costello, Maura, Bowers, Tera, Gabriel, Stacey, Banks, Eric, Philippakis, Anthony A., Boland, Genevieve M., Blainey, Paul C., Hacohen, Nir

“…Full-length RNA-sequencing methods using long-read technologies can capture complete transcript isoforms, but their throughput is limited. We introduce…”
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Integrative genotyping of cancer and immune phenotypes by long-read sequencing by Penter, Livius, Borji, Mehdi, Nagler, Adi, Lyu, Haoxiang, Lu, Wesley S., Cieri, Nicoletta, Maurer, Katie, Oliveira, Giacomo, Al’Khafaji, Aziz M., Garimella, Kiran V., Li, Shuqiang, Neuberg, Donna S., Ritz, Jerome, Soiffer, Robert J., Garcia, Jacqueline S., Livak, Kenneth J., Wu, Catherine J.

“…Single-cell transcriptomics has become the definitive method for classifying cell types and states, and can be augmented with genotype information to improve…”
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Control of Lineage-Specific Gene Expression by Functionalized gRNA Barcodes by Al’Khafaji, Aziz M, Deatherage, Daniel, Brock, Amy

“…Lineage tracking delivers essential quantitative insight into dynamic, probabilistic cellular processes, such as somatic tumor evolution and differentiation…”
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Functionalized Lineage Tracing for the Study and Manipulation of Heterogeneous Cell Populations by Gardner, Andrea, Morgan, Daylin, Al'Khafaji, Aziz, Brock, Amy

“…The ability to track and isolate unique cell lineages from large heterogeneous populations increases the resolution at which cellular processes can be…”
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Functionalized Lineage Tracing Can Enable the Development of Homogenization-Based Therapeutic Strategies in Cancer by Gutierrez, Catherine, Vilas, Caroline K, Wu, Catherine J, Al'Khafaji, Aziz M

“…The therapeutic landscape across many cancers has dramatically improved since the introduction of potent targeted agents and immunotherapy. Nonetheless,…”
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Multifunctional barcoding with ClonMapper enables high-resolution study of clonal dynamics during tumor evolution and treatment by Gutierrez, Catherine, Al'Khafaji, Aziz M, Brenner, Eric, Johnson, Kaitlyn E, Gohil, Satyen H, Lin, Ziao, Knisbacher, Binyamin A, Durrett, Russell E, Li, Shuqiang, Parvin, Salma, Biran, Anat, Zhang, Wandi, Rassenti, Laura, Kipps, Thomas J, Livak, Kenneth J, Neuberg, Donna, Letai, Anthony, Getz, Gad, Wu, Catherine J, Brock, Amy

“…Lineage-tracing methods have enabled characterization of clonal dynamics in complex populations, but generally lack the ability to integrate genomic,…”
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Integrating transcriptomics and bulk time course data into a mathematical framework to describe and predict therapeutic resistance in cancer by Johnson, Kaitlyn E, Howard, Grant R, Morgan, Daylin, Brenner, Eric A, Gardner, Andrea L, Durrett, Russell E, Mo, William, Al'Khafaji, Aziz, Sontag, Eduardo D, Jarrett, Angela M, Yankeelov, Thomas E, Brock, Amy

“…A significant challenge in the field of biomedicine is the development of methods to integrate the multitude of dispersed data sets into comprehensive…”
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The homocysteine-inducible endoplasmic reticulum (ER) stress protein Herp counteracts mutant α-synuclein-induced ER stress via the homeostatic regulation of ER-resident calcium release channel proteins by Belal, Cherine, Ameli, Neema J., El Kommos, Adam, Bezalel, Spencer, Al'Khafaji, Aziz M., Mughal, Mohamed R., Mattson, Mark P., Kyriazis, George A., Tyrberg, Björn, Chan, Sic L.

“…Endoplasmic reticulum (ER) stress has been implicated as an initiator or contributing factor in neurodegenerative diseases. The mechanisms that lead to ER…”
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The homocysteine-inducible endoplasmic reticulum (ER) stress protein Herp counteracts mutant [alpha]-synuclein-induced ER stress via the homeostatic regulation of ER-resident calcium release channel proteins by Belal, Cherine, Ameli, Neema J, El Kommos, Adam, Bezalel, Spencer, Al'Khafaji, Aziz M, Mughal, Mohamed R, Mattson, Mark P, Kyriazis, George A, Tyrberg, Bjorn, Chan, Sic L

“…Endoplasmic reticulum (ER) stress has been implicated as an initiator or contributing factor in neurodegenerative diseases. The mechanisms that lead to ER…”
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An Embryonic Diapause-like Adaptation with Suppressed Myc Activity Enables Tumor Treatment Persistence by Dhimolea, Eugen, de Matos Simoes, Ricardo, Kansara, Dhvanir, Al’Khafaji, Aziz, Bouyssou, Juliette, Weng, Xiang, Sharma, Shruti, Raja, Joseline, Awate, Pallavi, Shirasaki, Ryosuke, Tang, Huihui, Glassner, Brian J., Liu, Zhiyi, Gao, Dong, Bryan, Jordan, Bender, Samantha, Roth, Jennifer, Scheffer, Michal, Jeselsohn, Rinath, Gray, Nathanael S., Georgakoudi, Irene, Vazquez, Francisca, Tsherniak, Aviad, Chen, Yu, Welm, Alana, Duy, Cihangir, Melnick, Ari, Bartholdy, Boris, Brown, Myles, Culhane, Aedin C., Mitsiades, Constantine S.

“…Treatment-persistent residual tumors impede curative cancer therapy. To understand this cancer cell state we generated models of treatment persistence that…”
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Massively parallel base editing to map variant effects in human hematopoiesis by Martin-Rufino, Jorge D., Castano, Nicole, Pang, Michael, Grody, Emanuelle I., Joubran, Samantha, Caulier, Alexis, Wahlster, Lara, Li, Tongqing, Qiu, Xiaojie, Riera-Escandell, Anna Maria, Newby, Gregory A., Al’Khafaji, Aziz, Chaudhary, Santosh, Black, Susan, Weng, Chen, Munson, Glen, Liu, David R., Wlodarski, Marcin W., Sims, Kacie, Oakley, Jamie H., Fasano, Ross M., Xavier, Ramnik J., Lander, Eric S., Klein, Daryl E., Sankaran, Vijay G.

“…Systematic evaluation of the impact of genetic variants is critical for the study and treatment of human physiology and disease. While specific mutations can…”
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Abstract PO-097: High resolution analysis of clonal dynamics using lineage tracing and single cell transcriptomics by Brenner, Eric A., Morgan, Daylin, Al'Khafaji, Aziz, Gutierrez, Catherine, Wu, Catherine J., Brock, Amy

“…The immense evolutionary capacity of cancer poses major challenges to current therapeutic efforts, and results from the vast clonal heterogeneity and ability…”
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Abstract 42: Treatment-induced embryonic diapause-like adaptation through suppression of Myc activity as mediator of drug persistence in cancer by Dhimolea, Eugen, Simoes, Ricardo De Matos, Kansara, Dhvanir, Vilas, Caroline, Al'Khafaji, Aziz, Bouyssou, Juliette, Culhane, Aedin, Mitsiades, Constantine S.

“…Chemo-persistent residual tumors are a major barrier for curative cancer therapy and provide a reservoir of cancer cells for eventual relapse. This clinically…”
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Tracking of Leukemia and Immune Single Cell Phenotypes during Ipilimumab-Based Treatment By Long-Read Sequencing by Penter, Livius, Borji, Mehdi, Nagler, Adi, Lyu, Haoxiang, Lu, Wesley S, Cieri, Nicoletta, Maurer, Alexandria, Oliveira, Giacomo, Al'Khafaji, Aziz M., Garimella, Kiran, Li, Shuqiang, Neuberg, Donna S., Ritz, Jerome, Soiffer, Robert J., Garcia, Jacqueline S., Livak, Kenneth J., Wu, Catherine J

“…Activity of ipilimumab in bone marrow-involved AML has been modest compared to extramedullary AML relapse or solid tumors like melanoma. Single cell…”
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Inferring gene regulation from stochastic transcriptional variation across single cells at steady state by Gupta, Anika, Martin-Rufino, Jorge D, Jones, Thouis R, Subramanian, Vidya, Qiu, Xiaojie, Grody, Emanuelle I, Bloemendal, Alex, Weng, Chen, Niu, Sheng-Yong, Min, Kyung Hoi, Mehta, Arnav, Zhang, Kaite, Siraj, Layla, Al' Khafaji, Aziz, Sankaran, Vijay G, Raychaudhuri, Soumya, Cleary, Brian, Grossman, Sharon, Lander, Eric S

“…Regulatory relationships between transcription factors (TFs) and their target genes lie at the heart of cellular identity and function; however, uncovering…”
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Lineage Tracing in Chronic Lymphocytic Leukemia Reveals Clones with Stable Gene Expression States That Differentially Respond to Therapy by Gutierrez, Catherine, Al'Khafaji, Aziz, Brenner, Eric, Durrett, Russell, Johnson, Kaitlyn, Zhang, Wandi, Li, Shuqiang, Livak, Kenneth J., Neuberg, Donna S, Brock, Amy, Wu, Catherine J.

“…Cancer's ability to evolve and adapt is a major challenge to therapeutic success. Fueling this evolution is vast tumor heterogeneity, with constituent clones…”
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RPS15 and TP53 Co-Mutation Drives B Cell Malignancy through Altered Translation and MYC Activation in a Murine Model by Gutierrez, Catherine, Ouspenskaia, Tamara, Fu, Doris, Waddicor, Peyton, Biran, Anat, Liani, Aviv, Lazarian, Gregory, Ten Hacken, Elisa, Witten, Elizabeth, Regis, Fara Faye, Joyal, Heather, Billington, Leah, Lucas, Fabienne, Zheng, Mei, Tye, Blake, Hernandez-Sanchez, Maria, Quijada Álamo, Miguel, Li, Shuqiang, Knisbacher, Binyamin A., Lin, Ziao, Al'Khafaji, Aziz, Wang, Lili, Livak, Kenneth J., Neuberg, Donna S., Cymbalista, Florence, Getz, Gad, Churchman, Stirling, Carrasco, Ruben D., Shao, Sichen, Regev, Aviv, Wu, Catherine J.

“…Amongst the novel putative drivers identified by large-scale sequencing studies of chronic lymphocytic leukemia (CLL) is the ribosomal protein RPS15. Mutated…”
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Salubrinal inhibits glioma growth and sensitizes malignant gliomas to ER stress‐ and Temozolomide‐induced death by Li, Zhaozhong, Bezalel, Spencer, Chen, Jin, Belal, Cherine, Al'Khafaji, Aziz, Ameli, Neema J, Baharani, Akanksha, Chigurupati, Srinivasulu, Mughal, Mohamed, Wersto, Robert R, Cheng, Zixi Jack, Chan, Sic L

“…Abstract only Glioblastoma multiforme represents a particularly difficult‐to‐treat type of cancer with a dismal prognosis. Recent studies showed that human…”
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Abstract NG08: Dissecting and quantifying pancreatic cancer plasticity using single-cell multiomics, lineage tracing and functional genomics reveals novel mediators of therapy resistance by Mehta, Arnav, Bi, Lynn, Yeramosu, Deepika, Bogaev, Michael, Jankowiak, Martin, Collins, Abigail, Al'Khafaji, Aziz, Parikh, Milan, Babadi, Mehrtash, Evans, Kyle, Bloemendal, Alex, Kunnes, Russell, Schwartz, Marc, Munson, Glen, Donnard, Elisa, Jones, Thouis R., Stanger, Ben Z., Shendure, Jay, Weissman, Jonathan, Ting, David T., Aguirre, Andrew, Hacohen, Nir, Pe'er, Dana, Lander, Eric S.

“…Pancreatic cancer (PDAC) is a lethal disease in part because tumor cells exist in distinct transcriptional states (e.g. basal/mesenchymal v.s…”
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