Sam Perli, PhD
Postdoctoral Scholar
Business Service Ctr
Chancellor/EVC/FAS
I am a postdoctoral fellow working with Prof. Shinya Yamanaka at Gladstone Institutes and UCSF on developing computational and molecular tools for dissecting and engineering Biology as well as developing next generation applications of pluripotent stem cells. I have previously worked with Prof. Timothy Lu @ MIT, where I obtained my PhD.
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Prior to that, I earned a Masters degree in Computer Science from MIT working with Prof. Dina Katabi as a Presidential Fellow and finished my Bachelor's degree in Electrical Engineering @ IIT Madras and was awarded an Institute medal
Awards
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- Dmitris N. Chorafas award for outstanding PhD thesis, 2015
- Thomas and Sarah Kailath Fellowship, MIT, 2013-2014
- Thomas and Sarah Kailath Fellowship, MIT, 2011-2012
- Harvey Fellowship, 2010-2013
- MIT Presidential Fellowship, MIT, 2008-2009
- Institute Silver Medal, IIT Madras, 2008
- Siemens Prize for best academic record, IIT Madras, 2008
Education & Training
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- PhD Molecular Biology Massachusetts Institute of Technology 06/2015
- SM Computer Science Massachusetts Institute of Technology 05/2010
- B. Tech Electrical Engineering Indian Institute of Technology Madras 06/2008
Interests
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- Stem Cells
- Genome Engineering
- Synthetic Biology
- Computational Biology
Websites
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- Lab website (labs.gladstone.org)
Publications (14)
Top publication keywords:
Synthetic BiologyMemoryGene EditingEndonucleasesSingle-Cell AnalysisCell EngineeringRNA Polymerase IICRISPR-Cas SystemsCell TrackingDNAGene Regulatory NetworksEndogenous RetrovirusesDNA Barcoding, TaxonomicMutagenesisClustered Regularly Interspaced Short Palindromic Repeats
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CRISPR-Cas systems: Challenges and future prospects.
Progress in molecular biology and translational science 2021 Gohil N, Bhattacharjee G, Lam NL, Perli SD, Singh V -
Critical Roles of Translation Initiation and RNA Uridylation in Endogenous Retroviral Expression and Neural Differentiation in Pluripotent Stem Cells.
Cell reports 2020 Takahashi K, Jeong D, Wang S, Narita M, Jin X, Iwasaki M, Perli SD, Conklin BR, Yamanaka S -
Ratiometric logic in living cells via competitive binding of synthetic transcription
factors, ACM NanoCom
Ratiometric logic in living cells via competitive binding of synthetic transcription factors, ACM NanoCom 2017 Samuel D. Perli and Timothy K. Lu -
Analog synthetic gene networks, ACM NanoCom
Analog synthetic gene networks, ACM NanoCom 2016 Samuel D. Perli, Timothy K. Lu -
Continuous genetic recording with self-targeting CRISPR-Cas in human cells.
Science (New York, N.Y.) 2016 Perli SD, Cui CH, Lu TK
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Foundations and Emerging Paradigms for Computing in Living Cells.
Journal of molecular biology 2016 Ma KC, Perli SD, Lu TK -
Multiplexed barcoded CRISPR-Cas9 screening enabled by CombiGEM.
Proceedings of the National Academy of Sciences of the United States of America 2016 Wong AS, Choi GC, Cui CH, Pregernig G, Milani P, Adam M, Perli SD, Kazer SW, Gaillard A, Hermann M, Shalek AK, Fraenkel E, Lu TK -
Multiplexed and programmable regulation of gene networks with an integrated RNA and CRISPR/Cas toolkit in human cells.
Molecular cell 2014 Nissim L, Perli SD, Fridkin A, Perez-Pinera P, Lu TK -
Tunable and multifunctional eukaryotic transcription factors based on CRISPR/Cas.
ACS synthetic biology 2013 Farzadfard F, Perli SD, Lu TK -
Designing extensible protein-DNA interactions for synthetic biology, BioCAS
Designing extensible protein-DNA interactions for synthetic biology, BioCAS 2011 Kristjan E. Kaseniit, Samuel D. Perli and Timothy K. Lu -
PixNet : LCD-Camera pairs as communication links, ACM SIGCOMM
PixNet : LCD-Camera pairs as communication links, ACM SIGCOMM 2010 Samuel David Perli, Nabeel Ahmed and Dina Katabi -
PixNet: interference-free wireless links using LCD-camera pairs, ACM MobiCom
PixNet: interference-free wireless links using LCD-camera pairs, ACM MobiCom 2010 Samuel David Perli, Nabeel Ahmed and Dina Katabi -
Interference Alignment and Cancellation, ACM SIGCOMM
Interference Alignment and Cancellation, ACM SIGCOMM 2009 Shyamnath Gollakota, Samuel D. Perli and Dina katabi -
Network Coding for TCP Throughput Enhancement over a Multi-Hop Wireless
Network, IEEE COMSWARE
Network Coding for TCP Throughput Enhancement over a Multi-Hop Wireless Network, IEEE COMSWARE 2008 P. Samuel David and Anurag Kumar