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2024

2024 Publications

Gurdip Uppal, Guillaume Urtecho, Miles Richardson, Isin Comba, Jeongchan Lee, Thomas Moody, Harris Wang, Georg Gerber .  2024.   MCSPACE: inferring microbiome spatiotemporal dynamics from high-throughput co-localization data.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Gurdip Uppal, Guillaume Urtecho, Miles Richardson, Isin Comba, Jeongchan Lee, Thomas Moody, Harris Wang, Georg Gerber .  2024.   MCSPACE: inferring microbiome spatiotemporal dynamics from high-throughput co-localization data.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Natanael Zarco, Athanassios Dovas, Virginea Farias, Naveen Nagaiah, Ashley Haddock, Peter Sims, Dolores Hambardzumyan, Christian Meyer, Peter Canoll, Steven Rosenfeld, Rajappa Kenchappa .  2024.   Resistance to spindle inhibitors in glioblastoma depends on STAT3 and therapy induced senescence.. iScience. 27 (12) :111311 ▶ Go to Pubmed
John Tuddenham, Masashi Fujita, Anthony Khairallah, Claire Harbison, Xena Flowers, Guillermo Coronas-Samano, Silas Maniatis, Aidan Daly, Julie Schneider, Andrew Teich, Jean Vonsattel, Peter Sims, Wassim Elyaman, Elizabeth Bradshaw, Hemali Phatnani, Neil Shneider, David Bennett, Philip De Jager, Serge Przedborski, Vilas Menon, Marta Olah .  2024.   Single-cell transcriptomic landscape of the neuroimmune compartment in amyotrophic lateral sclerosis brain and spinal cord.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Chrystal Mavros, Mareike Bongers, Frederik Neergaard, Frank Cusimano, Yiwei Sun, Andrew Kaufman, Miles Richardson, Susanne Kammler, Mette Kristensen, Morten Sommer, Harris Wang .  2024.   Bacteria Engineered to Produce Serotonin Modulate Host Intestinal Physiology.. ACS synthetic biology. 13 (12) :4002-4014 ▶ Go to Pubmed
Chrystal Mavros, Mareike Bongers, Frederik Neergaard, Frank Cusimano, Yiwei Sun, Andrew Kaufman, Miles Richardson, Susanne Kammler, Mette Kristensen, Morten Sommer, Harris Wang .  2024.   Bacteria Engineered to Produce Serotonin Modulate Host Intestinal Physiology.. ACS synthetic biology. 13 (12) :4002-4014 ▶ Go to Pubmed
Guillaume Urtecho, Thomas Moody, Yiming Huang, Ravi Sheth, Miles Richardson, Hélène Descamps, Andrew Kaufman, Opeyemi Lekan, Zetian Zhang, Florencia Velez-Cortes, Yiming Qu, Lucas Cohen, Deirdre Ricaurte, Travis Gibson, Georg Gerber, Christoph Thaiss, Harris Wang .  2024.   Spatiotemporal dynamics during niche remodeling by super-colonizing microbiota in the mammalian gut.. Cell systems. 15 (11) :1002-1017.e4 ▶ Go to Pubmed
Guillaume Urtecho, Thomas Moody, Yiming Huang, Ravi Sheth, Miles Richardson, Hélène Descamps, Andrew Kaufman, Opeyemi Lekan, Zetian Zhang, Florencia Velez-Cortes, Yiming Qu, Lucas Cohen, Deirdre Ricaurte, Travis Gibson, Georg Gerber, Christoph Thaiss, Harris Wang .  2024.   Spatiotemporal dynamics during niche remodeling by super-colonizing microbiota in the mammalian gut.. Cell systems. 15 (11) :1002-1017.e4 ▶ Go to Pubmed
Julia Davis-Porada, Alex George, Nora Lam, Daniel Caron, Joshua Gray, Jenny Huang, Jennifer Hwu, Steven Wells, Rei Matsumoto, Masaru Kubota, YoonSeung Lee, Rory Morrison-Colvin, Isaac Jensen, Basak Ural, Namir Shaabani, Daniela Weiskopf, Alba Grifoni, Alessandro Sette, Peter Szabo, John Teijaro, Peter Sims, Donna Farber .  2024.   Maintenance and functional regulation of immune memory to COVID-19 vaccines in tissues.. Immunity. 57 (12) :2895-2913.e8 ▶ Go to Pubmed
Verena Haage .  2024.   HDAC Inhibitors recapitulate Human Disease-Associated Microglia Signatures .. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Miles Richardson, Shijie Zhao, Ravi Sheth, Liyuan Lin, Yiming Qu, Jeongchan Lee, Thomas Moody, Deirdre Ricaurte, Yiming Huang, Florencia Velez-Cortes, Guillaume Urtecho, Harris Wang .  2024.   SAMPL-seq reveals micron-scale spatial hubs in the human gut microbiome.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Miles Richardson, Shijie Zhao, Ravi Sheth, Liyuan Lin, Yiming Qu, Jeongchan Lee, Thomas Moody, Deirdre Ricaurte, Yiming Huang, Florencia Velez-Cortes, Guillaume Urtecho, Harris Wang .  2024.   SAMPL-seq reveals micron-scale spatial hubs in the human gut microbiome.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
John Tuddenham, Mariko Taga, Verena Haage, Victoria Marshe, Tina Roostaei, Charles White, Annie Lee, Masashi Fujita, Anthony Khairallah, Ya Zhang, Gilad Green, Bradley Hyman, Matthew Frosch, Sarah Hopp, Thomas Beach, Geidy Serrano, John Corboy, Naomi Habib, Hans-Ulrich Klein, Rajesh Soni, Andrew Teich, Richard Hickman, Roy Alcalay, Neil Shneider, Julie Schneider, Peter Sims, David Bennett, Marta Olah, Vilas Menon, Philip De Jager .  2024.   A cross-disease resource of living human microglia identifies disease-enriched subsets and tool compounds recapitulating microglial states.. Nature neuroscience. 27 (12) :2521-2537 ▶ Go to Pubmed
Kwang-Soo Kim, Junyi Zhang, Víctor Arrieta, Crismita Dmello, Elena Grabis, Karl Habashy, Joseph Duffy, Junfei Zhao, Andrew Gould, Li Chen, Jian Hu, Irina Balyasnikova, Dhan Chand, Dan Levey, Peter Canoll, Wenting Zhao, Peter Sims, Raul Rabadan, Surya Pandey, Bin Zhang, Catalina Lee-Chang, Dieter Heiland, Adam Sonabend .  2024.   MAPK/ERK signaling in gliomas modulates interferon responses, T cell recruitment, microglia phenotype, and immune checkpoint blockade efficacy.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Matei Banu, Athanassios Dovas, Michael Argenziano, Wenting Zhao, Colin Sperring, Henar Grajal, Zhouzerui Liu, Dominique Higgins, Misha Amini, Brianna Pereira, Ling Ye, Aayushi Mahajan, Nelson Humala, Julia Furnari, Pavan Upadhyayula, Fereshteh Zandkarimi, Trang Nguyen, Damian Teasley, Peter Wu, Li Hai, Charles Karan, Tyrone Dowdy, Aida Razavilar, Markus Siegelin, Jan Kitajewski, Mioara Larion, Jeffrey Bruce, Brent Stockwell, Peter Sims, Peter Canoll .  2024.   A cell state-specific metabolic vulnerability to GPX4-dependent ferroptosis in glioblastoma.. The EMBO journal. 43 (20) :4492-4521 ▶ Go to Pubmed
Peter Sims .  2024.   In praise of physician associates.. BMJ (Clinical research ed.). 386 :q1842 ▶ Go to Pubmed
Alina Li, Kensuke Sugiura, Noriyuki Nishiwaki, Kensuke Suzuki, Dorsay Sadeghian, Jun Zhao, Anirban Maitra, David Falvo, Rohit Chandwani, Jason Pitarresi, Peter Sims, Anil Rustgi .  2024.   FRA1 controls acinar cell plasticity during murine Kras-induced pancreatic acinar to ductal metaplasia.. Developmental cell. 59 (22) :3025-3042.e7 ▶ Go to Pubmed
Aarti Kumar, Pranav Gwalani, Prasad Iyer, Kenneth Wang, Gary Falk, Gregory Ginsberg, Charles Lightdale, Armando Del Portillo, Stephen Lagana, Yun Li, Hongzhe Li, Jeanine Genkinger, Zhezhen Jin, Anil Rustgi, Timothy Wang, Harris Wang, Michael Quante, Julian Abrams .  2024.   Shifts in Serum Bile Acid Profiles Associated With Barrett's Esophagus and Stages of Progression to Esophageal Adenocarcinoma.. Clinical and translational gastroenterology. 15 (10) :e1 ▶ Go to Pubmed
Aarti Kumar, Pranav Gwalani, Prasad Iyer, Kenneth Wang, Gary Falk, Gregory Ginsberg, Charles Lightdale, Armando Del Portillo, Stephen Lagana, Yun Li, Hongzhe Li, Jeanine Genkinger, Zhezhen Jin, Anil Rustgi, Timothy Wang, Harris Wang, Michael Quante, Julian Abrams .  2024.   Shifts in Serum Bile Acid Profiles Associated With Barrett's Esophagus and Stages of Progression to Esophageal Adenocarcinoma.. Clinical and translational gastroenterology. 15 (10) :e1 ▶ Go to Pubmed
Leandro Araujo, Madeline Edwards, Koichiro Irie, Yiming Huang, Yoshinaga Kawano, Alexander Tran, Simona De Michele, Govind Bhagat, Harris Wang, Ivaylo Ivanov .  2024.   Context-dependent role of group 3 innate lymphoid cells in mucosal protection.. Science immunology. 9 (98) :eade7530 ▶ Go to Pubmed
Leandro Araujo, Madeline Edwards, Koichiro Irie, Yiming Huang, Yoshinaga Kawano, Alexander Tran, Simona De Michele, Govind Bhagat, Harris Wang, Ivaylo Ivanov .  2024.   Context-dependent role of group 3 innate lymphoid cells in mucosal protection.. Science immunology. 9 (98) :eade7530 ▶ Go to Pubmed
Chencheng Xu, Suying Bao, Ye Wang, Wenxing Li, Hao Chen, Yufeng Shen, Tao Jiang, Chaolin Zhang .  2024.   Reference-informed prediction of alternative splicing and splicing-altering mutations from sequences.. Genome research. 34 (7) :1052-1065 ▶ Go to Pubmed
Ye Zheng, Daniel Caron, Ju Kim, Seong-Hwan Jun, Yuan Tian, Mair Florian, Kenneth Stuart, Peter Sims, Raphael Gottardo .  2024.   ADTnorm: Robust Integration of Single-cell Protein Measurement across CITE-seq Datasets.. Research square. ▶ Go to Pubmed
Daniel Moakley, Chaolin Zhang .  2024.   Oncogenic NOVA1 expression dysregulates alternative splicing in breast cancer.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Theresa Baumeister .  2024.   Microbiota metabolized Bile Acids accelerate Gastroesophageal Adenocarcinoma via FXR inhibition.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Daniel Moakley, Melissa Campbell, Miquel Anglada-Girotto, Huijuan Feng, Andrea Califano, Edmund Au, Chaolin Zhang .  2024.   Reverse engineering neuron type-specific and type-orthogonal splicing-regulatory networks using single-cell transcriptomes.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Jose Martí, Chloe Hsu, Charlotte Rochereau, Chenling Xu, Tomasz Blazejewski, Hunter Nisonoff, Sean Leonard, Christina Kang-Yun, Jennifer Chlebek, Dante Ricci, Dan Park, Harris Wang, Jennifer Listgarten, Yongqin Jiao, Jonathan Allen .  2024.   GENTANGLE: integrated computational design of gene entanglements.. Bioinformatics (Oxford, England). 40 (7) ▶ Go to Pubmed
Jose Martí, Chloe Hsu, Charlotte Rochereau, Chenling Xu, Tomasz Blazejewski, Hunter Nisonoff, Sean Leonard, Christina Kang-Yun, Jennifer Chlebek, Dante Ricci, Dan Park, Harris Wang, Jennifer Listgarten, Yongqin Jiao, Jonathan Allen .  2024.   GENTANGLE: integrated computational design of gene entanglements.. Bioinformatics (Oxford, England). 40 (7) ▶ Go to Pubmed
Natanael Zarco, Athanassios Dovas, Virginea Farias, Naveen Nagaiah, Ashley Haddock, Peter Sims, Dolores Hambardzumyan, Christian Meyer, Peter Canoll, Steven Rosenfeld, Rajappa Kenchappa .  2024.   Resistance to Spindle Inhibitors in Glioblastoma Depends on STAT3 and Therapy Induced Senescence.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Claudia Capdevila, Jonathan Miller, Liang Cheng, Adam Kornberg, Joel George, Hyeonjeong Lee, Theo Botella, Christine Moon, John Murray, Stephanie Lam, Ruben Calderon, Ermanno Malagola, Gary Whelan, Chyuan-Sheng Lin, Arnold Han, Timothy Wang, Peter Sims, Kelley Yan .  2024.   Time-resolved fate mapping identifies the intestinal upper crypt zone as an origin of Lgr5+ crypt base columnar cells.. Cell. 187 (12) :3039-3055.e14 ▶ Go to Pubmed
Joshua Gray, Daniel Caron, Steven Wells, Rebecca Guyer, Peter Szabo, Daniel Rainbow, Can Ergen, Ksenia Rybkina, Marissa Bradley, Rei Matsumoto, Kalpana Pethe, Masaru Kubota, Sarah Teichmann, Joanne Jones, Nir Yosef, Mark Atkinson, Maigan Brusko, Todd Brusko, Thomas Connors, Peter Sims, Donna Farber .  2024.   Human γδ T cells in diverse tissues exhibit site-specific maturation dynamics across the life span.. Science immunology. 9 (96) :eadn3954 ▶ Go to Pubmed
Qian Wang, Yicheng Guo, Logan Schwanz, Ian Mellis, Yiwei Sun, Yiming Qu, Guillaume Urtecho, Riccardo Valdez, Emily Stoneman, Aubree Gordon, Harris Wang, David Ho, Lihong Liu .  2024.   SARS-CoV-2 omicron BA.2.87.1 exhibits higher susceptibility to serum neutralization than EG.5.1 and JN.1.. Emerging microbes & infections. 13 (1) :2359004 ▶ Go to Pubmed
Yocelyn Recinos, Suying Bao, Xiaojian Wang, Brittany Phillips, Yow-Tyng Yeh, Sebastien Weyn-Vanhentenryck, Maurice Swanson, Chaolin Zhang .  2024.   Lineage-specific splicing regulation of MAPT gene in the primate brain.. Cell genomics. 4 (6) :100563 ▶ Go to Pubmed
Yocelyn Recinos, Suying Bao, Xiaojian Wang, Brittany Phillips, Yow-Tyng Yeh, Sebastien Weyn-Vanhentenryck, Maurice Swanson, Chaolin Zhang .  2024.   Lineage-specific splicing regulation of MAPT gene in the primate brain.. Cell genomics. 4 (6) :100563 ▶ Go to Pubmed
Yocelyn Recinos, Dmytro Ustianenko, Yow-Tyng Yeh, Xiaojian Wang, Martin Jacko, Lekha Yesantharao V, Qiyang Wu, Chaolin Zhang .  2024.   CRISPR-dCas13d-based deep screening of proximal and distal splicing-regulatory elements.. Nature communications. 15 (1) :3839 ▶ Go to Pubmed
Yocelyn Recinos, Dmytro Ustianenko, Yow-Tyng Yeh, Xiaojian Wang, Martin Jacko, Lekha Yesantharao V, Qiyang Wu, Chaolin Zhang .  2024.   CRISPR-dCas13d-based deep screening of proximal and distal splicing-regulatory elements.. Nature communications. 15 (1) :3839 ▶ Go to Pubmed
Chi-Lee Ho, Michael Gilbert, Guillaume Urtecho, Hyoungjoo Lee, David Drew, Samuel Klempner, Jin Cho, Thomas Ryan, Naryan Rustgi, Hyuk Lee, Jeeyun Lee, Alexander Caraballo, Marina Magicheva-Gupta V, Carmen Rios, Alice Shin, Yuen-Yi Tseng, Jeremy Davis, Daniel Chung, Andrew Chan, Harris Wang, Sandra Ryeom .  2024.   Stool Protein Mass Spectrometry Identifies Biomarkers for Early Detection of Diffuse-type Gastric Cancer.. Cancer prevention research (Philadelphia, Pa.). 17 (8) :361-376 ▶ Go to Pubmed
Yim Cheng, Matei Banu, Wenting Zhao, Steven Rosenfeld, Peter Canoll, Peter Sims .  2024.   Multiplexed single-cell lineage tracing of mitotic kinesin inhibitor resistance in glioblastoma.. Cell reports. 43 (5) :114139 ▶ Go to Pubmed
Chencheng Xu, Suying Bao, Hao Chen, Tao Jiang, Chaolin Zhang .  2024.   Reference-informed prediction of alternative splicing and splicing-altering mutations from sequences.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Huijuan Feng, Xiang-Jun Lu, Suvrajit Maji, Linxi Liu, Dmytro Ustianenko, Noam Rudnick, Chaolin Zhang .  2024.   Structure-based prediction and characterization of photo-crosslinking in native protein-RNA complexes.. Nature communications. 15 (1) :2279 ▶ Go to Pubmed
Huijuan Feng, Xiang-Jun Lu, Suvrajit Maji, Linxi Liu, Dmytro Ustianenko, Noam Rudnick, Chaolin Zhang .  2024.   Structure-based prediction and characterization of photo-crosslinking in native protein-RNA complexes.. Nature communications. 15 (1) :2279 ▶ Go to Pubmed
Verena Haage, John Tuddenham, Natacha Comandante-Lou, Alex Bautista, Anna Monzel, Rebecca Chiu, Masashi Fujita, Frankie Garcia, Prabesh Bhattarai, Ronak Patel, Alice Buonfiglioli, Juan Idiarte, Mathieu Herman, Alison Rinderspacher, Angeliki Mela, Wenting Zhao, Michael Argenziano, Julia Furnari, Matei Banu, Donald Landry, Jeffrey Bruce, Peter Canoll, Ya Zhang, Tal Nuriel, Caghan Kizil, Andrew Sproul, Lotje de Witte, Peter Sims, Vilas Menon, Martin Picard, Philip De Jager .  2024.   A pharmacological toolkit for human microglia identifies Topoisomerase I inhibitors as immunomodulators for Alzheimer's disease.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Giuseppe Leuzzi, Alessandro Vasciaveo, Angelo Taglialatela, Xiao Chen, Tessa Firestone, Allison Hickman, Wendy Mao, Tanay Thakar, Alina Vaitsiankova, Jen-Wei Huang, Raquel Cuella-Martin, Samuel Hayward, Jordan Kesner, Ali Ghasemzadeh, Tarun Nambiar, Patricia Ho, Alexander Rialdi, Maxime Hebrard, Yinglu Li, Jinmei Gao, Saarang Gopinath, Oluwatobi Adeleke, Bryan Venters, Charles Drake, Richard Baer, Benjamin Izar, Ernesto Guccione, Michael-Christopher Keogh, Raphael Guerois, Lu Sun, Chao Lu, Andrea Califano, Alberto Ciccia .  2024.   SMARCAL1 is a dual regulator of innate immune signaling and PD-L1 expression that promotes tumor immune evasion.. Cell. ▶ Go to Pubmed
Giangela Stokes, Zhuowei Li, Nicole Talaba, William Genthe, Maria Brix, Betty Pham, Mark Wienhold, Gracia Sandok, Rebecca Hernan, Julia Wynn, Haiyang Tang, Diana Tabima, Allison Rodgers, Timothy Hacker, Naomi Chesler, Pan Zhang, Rabi Murad, Jason Yuan, Yufeng Shen, Wendy Chung, David McCulley .  2024.   Rescuing lung development through embryonic inhibition of histone acetylation.. Science translational medicine. 16 (732) :eadc8930 ▶ Go to Pubmed
Alexander Goldberg, Athanassios Dovas, Daniela Torres, Sohani Sharma, Angeliki Mela, Edward Merricks, Markel Olabarria, Leila Shokooh, Hanzhi Zhao, Corina Kotidis, Peter Calvaresi, Ashwin Viswanathan, Matei Banu, Aida Razavilar, Tejaswi Sudhakar, Ankita Saxena, Cole Chokran, Nelson Humala, Aayushi Mahajan, Weihao Xu, Jordan Metz, Cady Chen, Eric Bushong, Daniela Boassa, Mark Ellisman, Elizabeth Hillman, Guy McKhann, Brian Gill, Steven Rosenfeld, Catherine Schevon, Jeffrey Bruce, Peter Sims, Darcy Peterka, Peter Canoll .  2024.   Glioma-Induced Alterations in Excitatory Neurons are Reversed by mTOR Inhibition.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Alexander Goldberg, Athanassios Dovas, Daniela Torres, Sohani Sharma, Angeliki Mela, Edward Merricks, Markel Olabarria, Leila Shokooh, Hanzhi Zhao, Corina Kotidis, Peter Calvaresi, Ashwin Viswanathan, Matei Banu, Aida Razavilar, Tejaswi Sudhakar, Ankita Saxena, Cole Chokran, Nelson Humala, Aayushi Mahajan, Weihao Xu, Jordan Metz, Cady Chen, Eric Bushong, Daniela Boassa, Mark Ellisman, Elizabeth Hillman, Guy McKhann, Brian Gill, Steven Rosenfeld, Catherine Schevon, Jeffrey Bruce, Peter Sims, Darcy Peterka, Peter Canoll .  2024.   Glioma-Induced Alterations in Excitatory Neurons are Reversed by mTOR Inhibition.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Steven Wells, Daniel Rainbow, Michal Mark, Peter Szabo, Can Ergen, Ana Maceiras, Daniel Caron, Elior Rahmani, Eli Benuck, Valeh Amiri, David Chen, Allon Wagner, Sarah Howlett, Lorna Jarvis, Karen Ellis, Masaru Kubota, Rei Matsumoto, Krishnaa Mahbubani, Kouresh Saeb-Parsy, Cecilia Dominguez-Conde, Laura Richardson, Chuan Xu, Shuang Li, Lira Mamanova, Liam Bolt, Alicja Wilk, Sarah Teichmann, Donna Farber, Peter Sims, Joanne Jones, Nir Yosef .  2024.   Multimodal profiling reveals tissue-directed signatures of human immune cells altered with age.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Marta Galanti, Juan Patiño-Galindo, Ioan Filip, Haruka Morita, Angelica Galianese, Mariam Youssef, Devon Comito, Chanel Ligon, Benjamin Lane, Nelsa Matienzo, Sadiat Ibrahim, Eudosie Tagne, Atinuke Shittu, Oliver Elliott, Tomin Perea-Chamblee, Sanjay Natesan, Daniel Rosenbloom, Jeffrey Shaman, Raul Rabadan .  2024.   Virome Data Explorer: A web resource to longitudinally explore respiratory viral infections, their interactions with other pathogens and host transcriptomic changes in over 100 people.. PLoS biology. 22 (1) :e3002089 ▶ Go to Pubmed
Deirdre Ricaurte, Yiming Huang, Ravi Sheth, Diego Gelsinger, Andrew Kaufman, Harris Wang .  2024.   High-throughput transcriptomics of 409 bacteria-drug pairs reveals drivers of gut microbiota perturbation.. Nature microbiology. 9 (2) :561-575 ▶ Go to Pubmed
Deirdre Ricaurte, Yiming Huang, Ravi Sheth, Diego Gelsinger, Andrew Kaufman, Harris Wang .  2024.   High-throughput transcriptomics of 409 bacteria-drug pairs reveals drivers of gut microbiota perturbation.. Nature microbiology. ▶ Go to Pubmed
Diego Gelsinger, Phuc Vo, Sanne Klompe, Carlotta Ronda, Harris Wang, Samuel Sternberg .  2024.   Bacterial genome engineering using CRISPR-associated transposases.. Nature protocols. 19 (3) :752-790 ▶ Go to Pubmed
Diego Gelsinger, Phuc Vo, Sanne Klompe, Carlotta Ronda, Harris Wang, Samuel Sternberg .  2024.   Bacterial genome engineering using CRISPR-associated transposases.. Nature protocols. 19 (3) :752-790 ▶ Go to Pubmed
Diego Gelsinger, Phuc Vo, Sanne Klompe, Carlotta Ronda, Harris Wang, Samuel Sternberg .  2024.   Bacterial genome engineering using CRISPR-associated transposases.. Nature protocols. ▶ Go to Pubmed
Diego Gelsinger, Phuc Vo, Sanne Klompe, Carlotta Ronda, Harris Wang, Samuel Sternberg .  2024.   Bacterial genome engineering using CRISPR-associated transposases.. Nature protocols. ▶ Go to Pubmed
Hubert Pakula, Mohamed Omar, Ryan Carelli, Filippo Pederzoli, Giuseppe Fanelli, Tania Pannellini, Fabio Socciarelli, Lucie Van Emmenis, Silvia Rodrigues, Caroline Fidalgo-Ribeiro, Pier Nuzzo, Nicholas Brady, Wikum Dinalankara, Madhavi Jere, Itzel Valencia, Christopher Saladino, Jason Stone, Caitlin Unkenholz, Richard Garner, Mohammad Alexanderani, Francesca Khani, Francisca de Almeida, Cory Abate-Shen, Matthew Greenblatt, David Rickman, Christopher Barbieri, Brian Robinson, Luigi Marchionni, Massimo Loda .  2024.   Distinct mesenchymal cell states mediate prostate cancer progression.. Nature communications. 15 (1) :363 ▶ Go to Pubmed
Haiqing Zhao, Hao Wu, Alex Guseman, Dulith Abeykoon, Christina Camara, Yamini Dalal, David Fushman, Garegin Papoian .  2024.   The role of cryptic ancestral symmetry in histone folding mechanisms across Eukarya and Archaea.. PLoS computational biology. 20 (1) :e1011721 ▶ Go to Pubmed
Jianing Fu, Zicheng Wang, Mercedes Martinez, Aleksandar Obradovic, Wenyu Jiao, Kristjana Frangaj, Rebecca Jones, Xinzheng Guo V, Ya Zhang, Wan-I Kuo, Huaibin Ko, Alina Iuga, Constanza Muntnich, Adriana Rey, Kortney Rogers, Julien Zuber, Wenji Ma, Michelle Miron, Donna Farber, Joshua Weiner, Tomoaki Kato, Yufeng Shen, Megan Sykes .  2024.   Plasticity of intragraft alloreactive T cell clones in human gut correlates with transplant outcomes.. The Journal of experimental medicine. 221 (1) ▶ Go to Pubmed
Zhouzerui Liu, Angeliki Mela, Michael Argenziano, Matei Banu, Julia Furnari, Corina Kotidis, Colin Sperring, Nelson Humala, Aayushi Mahajan, Jeffrey Bruce, Peter Canoll, Peter Sims .  2024.   Single-cell analysis of 5-aminolevulinic acid intraoperative labeling specificity for glioblastoma.. Journal of neurosurgery. 140 (4) :968-978 ▶ Go to Pubmed
Daniel Caron, William Specht, David Chen, Steven Wells, Peter Szabo, Isaac Jensen, Donna Farber, Peter Sims .  2024.   Multimodal hierarchical classification of CITE-seq data delineates immune cell states across lineages and tissues.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed