Andrew Emili

Publication Activity (10 Years)

Years Active: 2015-2024
Publications (10 Years): 28

Top Topics

Escherichia Coli

Hypertrophic Cardiomyopathy

Prostate Cancer

Top Venues

Nature communications

bioRxiv : the preprint server for biology

International journal of molecular sciences

This page only lists publications with an associated author ORCID identifier.

Publications

Alejandro N Rondón Ortiz, Lushuang Zhang, Peter E A Ash, Avik Basu, Sambhavi Puri, Sophie J F van der Spek, Zihan Wang, Luke Dorrian, Andrew Emili, Benjamin Wolozin
Proximity labeling reveals dynamic changes in the SQSTM1 protein network. bioRxiv : the preprint server for biology (2024)
Alejandro N Rondón Ortiz, Lushuang Zhang, Peter E A Ash, Avik Basu, Sambhavi Puri, Sophie J F van der Spek, Zihan Wang, Luke Dorrian, Andrew Emili, Benjamin Wolozin
Proximity labeling reveals dynamic changes in the SQSTM1 protein network. bioRxiv : the preprint server for biology (2024)
Alejandro N Rondón Ortiz, Lushuang Zhang, Peter E A Ash, Avik Basu, Sambhavi Puri, Sophie J F van der Spek, Zihan Wang, Luke Dorrian, Andrew Emili, Benjamin Wolozin
Proximity labeling reveals dynamic changes in the SQSTM1 protein network. bioRxiv : the preprint server for biology (2024)
Alejandro N Rondón Ortiz, Lushuang Zhang, Peter E A Ash, Avik Basu, Sambhavi Puri, Sophie J F van der Spek, Zihan Wang, Luke Dorrian, Andrew Emili, Benjamin Wolozin
Proximity labeling reveals dynamic changes in the SQSTM1 protein network. bioRxiv : the preprint server for biology (2024)
Jarrod Moore, Jourdan Ewoldt, Gabriela V da Silva, Alexandre C Pereira, Kallyandra Padilha, Matthew L Lawton, Weiwei Lin, Raghuveera Goel, Ivan Luptak, Valentina Perissi, Christine E Seidman, Jonathan Seidman, Michael Thomas Chin, Christopher Chen, Andrew Emili
Multi-Omics Profiling of Hypertrophic Cardiomyopathy Reveals Altered Mechanisms in Mitochondrial Dynamics and Excitation-Contraction Coupling. International journal of molecular sciences 24 (5) (2023)
Indranil Paul, Dante Bolzan, Ahmed Youssef, Keith A Gagnon, Heather Hook, Gopal Karemore, Michael U J Oliphant, Weiwei Lin, Qian Liu, Sadhna Phanse, Carl White, Dzmitry Padhorny, Sergei Kotelnikov, Christopher S Chen, Pingzhao Hu, Gerald V Denis, Dima Kozakov, Brian Raught, Trevor Siggers, Stefan Wuchty, Senthil K Muthuswamy, Andrew Emili
Parallelized multidimensional analytic framework applied to mammary epithelial cells uncovers regulatory principles in EMT. Nature communications 14 (1) (2023)
Indranil Paul, Dante Bolzan, Ahmed Youssef, Keith A Gagnon, Heather Hook, Gopal Karemore, Michael U J Oliphant, Weiwei Lin, Qian Liu, Sadhna Phanse, Carl White, Dzmitry Padhorny, Sergei Kotelnikov, Christopher S Chen, Pingzhao Hu, Gerald V Denis, Dima Kozakov, Brian Raught, Trevor Siggers, Stefan Wuchty, Senthil K Muthuswamy, Andrew Emili
Parallelized multidimensional analytic framework applied to mammary epithelial cells uncovers regulatory principles in EMT. Nature communications 14 (1) (2023)
Indranil Paul, Dante Bolzan, Ahmed Youssef, Keith A Gagnon, Heather Hook, Gopal Karemore, Michael U J Oliphant, Weiwei Lin, Qian Liu, Sadhna Phanse, Carl White, Dzmitry Padhorny, Sergei Kotelnikov, Christopher S Chen, Pingzhao Hu, Gerald V Denis, Dima Kozakov, Brian Raught, Trevor Siggers, Stefan Wuchty, Senthil K Muthuswamy, Andrew Emili
Parallelized multidimensional analytic framework applied to mammary epithelial cells uncovers regulatory principles in EMT. Nature communications 14 (1) (2023)
Sheng-You Liao, Dmytro Rudoy, Sander B Frank, Luan T Phan, Olga Klezovitch, Julian Kwan, Ilsa Coleman, Michael C Haffner, Dapei Li, Peter S Nelson, Andrew Emili, Valeri Vasioukhin
SND1 binds to ERG and promotes tumor growth in genetic mouse models of prostate cancer. Nature communications 14 (1) (2023)
Neal Kewalramani, Andrew Emili, Mark Crovella
State-of-the-art computational methods to predict protein-protein interactions with high accuracy and coverage. Proteomics (2023)
Indranil Paul, Dante Bolzan, Ahmed Youssef, Keith A Gagnon, Heather Hook, Gopal Karemore, Michael U J Oliphant, Weiwei Lin, Qian Liu, Sadhna Phanse, Carl White, Dzmitry Padhorny, Sergei Kotelnikov, Christopher S Chen, Pingzhao Hu, Gerald V Denis, Dima Kozakov, Brian Raught, Trevor Siggers, Stefan Wuchty, Senthil K Muthuswamy, Andrew Emili
Parallelized multidimensional analytic framework applied to mammary epithelial cells uncovers regulatory principles in EMT. Nature communications 14 (1) (2023)
Indranil Paul, Dante Bolzan, Ahmed Youssef, Keith A Gagnon, Heather Hook, Gopal Karemore, Michael U J Oliphant, Weiwei Lin, Qian Liu, Sadhna Phanse, Carl White, Dzmitry Padhorny, Sergei Kotelnikov, Christopher S Chen, Pingzhao Hu, Gerald V Denis, Dima Kozakov, Brian Raught, Trevor Siggers, Stefan Wuchty, Senthil K Muthuswamy, Andrew Emili
Parallelized multidimensional analytic framework applied to mammary epithelial cells uncovers regulatory principles in EMT. Nature communications 14 (1) (2023)
Jarrod Moore, Jourdan Ewoldt, Gabriela V da Silva, Alexandre C Pereira, Kallyandra Padilha, Matthew L Lawton, Weiwei Lin, Raghuveera Goel, Ivan Luptak, Valentina Perissi, Christine E Seidman, Jonathan Seidman, Michael Thomas Chin, Christopher Chen, Andrew Emili
Multi-Omics Profiling of Hypertrophic Cardiomyopathy Reveals Altered Mechanisms in Mitochondrial Dynamics and Excitation-Contraction Coupling. International journal of molecular sciences 24 (5) (2023)
Alejandro N Rondón Ortiz, Lushuang Zhang, Peter E A Ash, Avik Basu, Sambhavi Puri, Sophie J F van der Spek, Luke Dorrian, Andrew Emili, Benjamin Wolozin
Proximity labeling reveals dynamic changes in the SQSTM1 protein network. bioRxiv : the preprint server for biology (2023)
Jarrod Moore, Jourdan Ewoldt, Gabriela V da Silva, Alexandre C Pereira, Kallyandra Padilha, Matthew L Lawton, Weiwei Lin, Raghuveera Goel, Ivan Luptak, Valentina Perissi, Christine E Seidman, Jonathan Seidman, Michael Thomas Chin, Christopher Chen, Andrew Emili
Multi-Omics Profiling of Hypertrophic Cardiomyopathy Reveals Altered Mechanisms in Mitochondrial Dynamics and Excitation-Contraction Coupling. International journal of molecular sciences 24 (5) (2023)
Alejandro N Rondón Ortiz, Lushuang Zhang, Peter E A Ash, Avik Basu, Sambhavi Puri, Sophie J F van der Spek, Luke Dorrian, Andrew Emili, Benjamin Wolozin
Proximity labeling reveals dynamic changes in the SQSTM1 protein network. bioRxiv : the preprint server for biology (2023)
Indranil Paul, Dante Bolzan, Ahmed Youssef, Keith A Gagnon, Heather Hook, Gopal Karemore, Michael U J Oliphant, Weiwei Lin, Qian Liu, Sadhna Phanse, Carl White, Dzmitry Padhorny, Sergei Kotelnikov, Christopher S Chen, Pingzhao Hu, Gerald V Denis, Dima Kozakov, Brian Raught, Trevor Siggers, Stefan Wuchty, Senthil K Muthuswamy, Andrew Emili
Parallelized multidimensional analytic framework applied to mammary epithelial cells uncovers regulatory principles in EMT. Nature communications 14 (1) (2023)
Ahmed Youssef, Fei Bian, Nicolai S Paniikov, Mark Crovella, Andrew Emili
Dynamic remodeling of Escherichia coli interactome in response to environmental perturbations. Proteomics (2023)
Andrew Emili
State of the art in data integration and network biology (special issue). Proteomics 23 (21-22) (2023)
Indranil Paul, Dante Bolzan, Ahmed Youssef, Keith A Gagnon, Heather Hook, Gopal Karemore, Michael U J Oliphant, Weiwei Lin, Qian Liu, Sadhna Phanse, Carl White, Dzmitry Padhorny, Sergei Kotelnikov, Christopher S Chen, Pingzhao Hu, Gerald V Denis, Dima Kozakov, Brian Raught, Trevor Siggers, Stefan Wuchty, Senthil K Muthuswamy, Andrew Emili
Parallelized multidimensional analytic framework applied to mammary epithelial cells uncovers regulatory principles in EMT. Nature communications 14 (1) (2023)
Pierre C Havugimana, Raghuveera Kumar Goel, Sadhna Phanse, Ahmed Youssef, Dzmitry Padhorny, Sergei Kotelnikov, Dima Kozakov, Andrew Emili
Scalable multiplex co-fractionation/mass spectrometry platform for accelerated protein interactome discovery. Nature communications 13 (1) (2022)
Jarrod Moore, Ryan M Hekman, Benjamin C Blum, Matthew L Lawton, Sylvain Lehoux, Matthew D Stachler, Douglas K Pleskow, Mandeep S Sawhney, Richard D Cummings, Andrew Emili, Alia Qureshi
Pilot Study Showing Feasibility of Phosphoproteomic Profiling of Pathway-Level Molecular Alterations in Barrett's Esophagus. Genes 13 (7) (2022)
Josie A Christopher, Charlotte Stadler, Claire E Martin, Marcel Morgenstern, Yanbo Pan, Cora N Betsinger, David G Rattray, Diana Mahdessian, Anne-Claude Gingras, Bettina Warscheid, Janne Lehtiö, Ileana M Cristea, Leonard J Foster, Andrew Emili, Kathryn S Lilley
Subcellular proteomics. Nature reviews. Methods primers 1 (2021)
Jiaxuan Chen, Carolyn A Haller, Finith E Jernigan, Steffi K Koerner, Daniel J Wong, Yiqiang Wang, Jae Eun Cheong, Revanth Kosaraju, Julian Kwan, Diane Dayoung Park, Beena Thomas, Swati S Bhasin, Roberto C De La Rosa, Alykhan M Premji, Liying Liu, Eden Park, Alan C Moss, Andrew Emili, Manoj Bhasin, Lijun Sun, Elliot L Chaikof
Modulation of lymphocyte-mediated tissue repair by rational design of heterocyclic aryl hydrocarbon receptor agonists. Science advances 6 (3) (2020)
Uros Kuzmanov, Erika Yan Wang, Rachel Vanderlaan, Da Hye Kim, Shin-Haw Lee, Sina Hadipour-Lakmehsari, Hongbo Guo, Yimu Zhao, Meghan J McFadden, Parveen Sharma, Filio Billia, Milica Radisic, Anthony O Gramolini, Andrew Emili
Mapping signalling perturbations in myocardial fibrosis via the integrative phosphoproteomic profiling of tissue from diverse sources. Nature biomedical engineering 4 (9) (2020)
Lucas ZhongMing Hu, Florian Goebels, June H Tan, Eric Wolf, Uros Kuzmanov, Cuihong Wan, Sadhna Phanse, Changjiang Xu, Mike Schertzberg, Andrew G Fraser, Gary D Baider, Andrew Emili
EPIC: software toolkit for elution profile-based inference of protein complexes. Nature methods 16 (8) (2019)
Mohan Babu, Cedoljub Bundalovic-Torma, Charles Calmettes, Sadhna Phanse, Qingzhou Zhang, Yue Jiang, Zoran Minic, Sunyoung Kim, Jitender Mehla, Alla Gagarinova, Irina Rodionova, Ashwani Kumar, Hongbo Guo, Olga Kagan, Oxana Pogoutse, Hiroyuki Aoki, Viktor Deineko, J Harry Caufield, Erik Holtzapple, Zhongge Zhang, Ake Vastermark, Yogee Pandya, Christine Chieh-Lin Lai, Majida El Bakkouri, Yogesh Hooda, Megha Shah, Dan Burnside, Mohsen Hooshyar, James Vlasblom, Sessandra V Rajagopala, Ashkan Golshani, Stefan Wuchty, Jack F Greenblatt, Milton Saier, Peter Uetz, Trevor F Moraes, John Parkinson, Andrew Emili
Global landscape of cell envelope protein complexes in Escherichia coli. Nature biotechnology 36 (1) (2017)
Edyta Marcon, Harshika Jain, Anandi Bhattacharya, Hongbo Guo, Sadhna Phanse, Shuye Pu, Gregory Byram, Ben C Collins, Evan Dowdell, Maria Fenner, Xinghua Guo, Ashley Hutchinson, Jacob J Kennedy, Bryan Krastins, Brett Larsen, Zhen-Yuan Lin, Mary F Lopez, Peter Loppnau, Shane Miersch, Tin Nguyen, Jonathan B Olsen, Marcin Paduch, Mani Ravichandran, Alma Seitova, Gouri Vadali, Maryann S Vogelsang, Jeffrey R Whiteaker, Guoqing Zhong, Nan Zhong, Lei Zhao, Ruedi Aebersold, Cheryl H Arrowsmith, Andrew Emili, Lori Frappier, Anne-Claude Gingras, Matthias Gstaiger, Amanda G Paulovich, Shohei Koide, Anthony A Kossiakoff, Sachdev S Sidhu, Shoshana J Wodak, Susanne Gräslund, Jack F Greenblatt, Aled M Edwards
Assessment of a method to characterize antibody selectivity and specificity for use in immunoprecipitation. Nature methods 12 (8) (2015)