Sriram Kosuri: Difference between revisions

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[[Image:Sri Kosuri.jpg|thumb|right|Sri at work]]
[[Image:Sri Kosuri.jpg|thumb|right|Sri at work]]
===Bio===  
===Bio===  
I am curently a postdoc in [[User:Geochurch|George Church]]'s [[Church Lab|lab]] in the Department of Genetics at Harvard Medical School and the [http://wyss.harvard.edu/ Wyss Institute].  From September 2007 to February 2009, I worked at a small Cambridge-area startup called [http://joulebio.com/ Joule Biotechnologies].  I am also on the Board of Directors for OpenWetWare.  I previously did a short postdoctoral stint in [http://laublab.mit.edu/ Mike Laub's lab] working on cell cycle in ''Caulobacter crescentus''.  Prior to the Laub lab, I was a graduate student in [[Drew Endy]]'s lab and worked on understanding the development of a simple virus (T7) that infects ''E. coli''. As an undergraduate at [http://www.berkeley.edu UC Berkeley], I worked with [http://www.lbl.gov/~aparkin Adam Arkin], Dale Kaiser, and Roy Welch on modeling traveling wave formation in ''M. xanthus''.
I am an Assistant Professor at [http://www.ucla.edu/ UCLA] in the [http://www.chemistry.ucla.edu/ Chemistry and Biochemistry Department]. I was previously  a member of the [http://wyss.harvard.edu/viewpage/72/advanced-technology-team Advanced Technology Team] in the [http://wyss.harvard.edu/viewpage/101/synthetic-biology Synthetic Biology Platform] at the [http://wyss.harvard.edu/ Wyss Institute]. I was a postdoc in [[User:Geochurch|George Church]]'s [[Church Lab|lab]] in the [http://genetics.med.harvard.edu/ Department of Genetics] at Harvard Medical School and the Wyss Institute from 2009-2011.  From 2007-2009, I was the first employee of a biofuel startup called [http://jouleunlimited.com/ Joule Unlimited].  I got my ScD in [http://web.mit.edu/be/index.shtml Biological Engineering] at MIT in [[Drew Endy]]'s lab and worked on understanding the development of a simple virus (T7) that infects ''E. coli''. As an undergraduate in [http://bioeng.berkeley.edu/ Bioengineering] at UC Berkeley, I worked with [http://www.lbl.gov/~aparkin Adam Arkin], Dale Kaiser, and Roy Welch on modeling traveling wave formation in ''M. xanthus''. I also co-founded OpenWetWare. 


==Science==
==Science==
===Publications===
===Publications===
'''Large-scale de novo DNA synthesis: technologies and applications'''<br>
[[Sriram Kosuri]] & [[George_Church|George M Church]]<br>
''Nature Biotechnology'', (2014) [http://dx.doi.org/10.1038/nmeth.2918 doi: 10.1038/nmeth.2918]
'''Causes and effects of N-terminal codon bias in bacterial genes'''<br>
[[User:Daniel_Goodman|Daniel B Goodman]], [[George_Church|George M Church]], [[Sriram Kosuri]]<br>
''Science'', (2013) [http://dx.doi.org/10.1126/science.1241934 doi:10.1126/science.1241934]
'''Probing the Limits of Genetic Recoding in Essential Genes'''<br>
Marc Lajoie*, [[Sriram Kosuri]]*, Joshua Mosberg, Christopher Gregg, Di Zhang, [[George_Church|George M Church]]<br>
''Science'', (2013) [http://dx.doi.org/10.1126/science.1241460 doi:10.1126/science.1241460]
'''Composability of regulatory sequences controlling transcription and translation in ''E. coli'''''<br>
[[Sriram Kosuri]]*, [[User:Daniel_Goodman|Daniel B Goodman]]*, [[User:Guillaume_Cambray|Guillaume Cambray]], Vivek K Mutalik, Yuan Gao, [[User:Aparkin|Adam P. Arkin]], [[User:Endy|Drew Endy]], [[George_Church|George M Church]]<br>
''PNAS'', (2013) [http://dx.doi.org/10.1073/pnas.1301301110 doi:10.1073/pnas.1301301110]
'''CAS9 transcriptional activators for target specificity screening and paired nickases for cooperative genome engineering'''<br>
Prashant Mali, John Aach, P Benjamin Stranges, Kevin M Esvelt, Mark Moosburner, [[Sriram Kosuri]], Luhan Yang, [[George_Church|George M Church]]<br>
''Nature Biotechnology'', (2013) [http://dx.doi.org/10.1038/nbt.2675 doi:10.1038/nbt.2675]
'''Next-Generation Digital Information Storage in DNA'''<br>
George M. Church, Yuan Gao, [[Sriram Kosuri]]<br>
''Science'' (2012) [http://dx.doi.org/10.1126/science.1226355 doi:10.1126/science.1226355]
'''When It Rains, It Pores'''<br>
[[Sriram Kosuri]] & A. Michael Sismour<br>
''ACS Synthetic Biology'' (2012) [http://dx.doi.org/10.1021/sb300015f doi:10.1021/sb300015f]
'''Gene Assembly from Chip-Synthesized Oligonucleotides'''<br>
[[User:Nikolai_Eroshenko|Nikolai Eroshenko]]*, [[Sriram Kosuri]]*, Adam H Marblestone, Nicholas Conway, & [[George_Church|George Church]]<br>
''Current Protocols in Chemical Biology'' (2012) [http://dx.doi.org/10.1002/9780470559277.ch110190 doi:10.1002/9780470559277.ch110190]
'''Efficient construction of sequence-specific TAL effectors for modulating mammalian transcription'''<br>
'''Efficient construction of sequence-specific TAL effectors for modulating mammalian transcription'''<br>
Feng Zhang, Le Cong, Simona Lodato, [[Sriram Kosuri]], [[George_Church|George Church]] & Paola Arlotta <br>
Feng Zhang*, Le Cong*, Simona Lodato, [[Sriram Kosuri]], [[George_Church|George Church]] & Paola Arlotta <br>
''Nature Biotechnology (2011) [http://dx.doi.org/10.1038/nbt.1775 doi:10.1038/nbt.1775]
''Nature Biotechnology'' (2011) [http://dx.doi.org/10.1038/nbt.1775 doi:10.1038/nbt.1775]


'''Scalable gene synthesis by selective amplification of DNA pools from high-fidelity microchips'''<br>
'''Scalable gene synthesis by selective amplification of DNA pools from high-fidelity microchips'''<br>
[[Sriram Kosuri]], [[User:Nikolai_Eroshenko|Nikolai Eroshenko]], Emily LeProust, Michael Super, Jeffrey Way, Jin Billy Li & [[George_Church|George Church]]<br>
[[Sriram Kosuri]]*, [[User:Nikolai_Eroshenko|Nikolai Eroshenko]]*, Emily LeProust, Michael Super, Jeffrey Way, Jin Billy Li & [[George_Church|George Church]]<br>
''Nature Biotechnology'' (2010)  '''28''':1295  [http://dx.doi.org/10.1038/nbt.1716 doi:10.1038/nbt.1716]
''Nature Biotechnology'' (2010)  '''28''':1295  [http://dx.doi.org/10.1038/nbt.1716 doi:10.1038/nbt.1716]
[http://dx.doi.org/10.1038/nbt.1723 News & Views], [http://www.nature.com/nbt/journal/v28/n12/covers/index.html Cover Art]
[http://dx.doi.org/10.1038/nbt.1723 News & Views], [http://www.nature.com/nbt/journal/v28/n12/covers/index.html Cover Art]
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'''Refactoring bacteriophage T7'''<br>
'''Refactoring bacteriophage T7'''<br>
[[Leon Chan|Leon Y. Chan]], [[Sriram Kosuri]] and [[Drew Endy]]<br>
[[Leon Chan|Leon Y. Chan]]*, [[Sriram Kosuri]]* and [[Drew Endy]]<br>
''Molecular Systems Biology'' 13 September 2005 DOI:10.1038/msb4100025<br>
''Molecular Systems Biology'' 13 September 2005 DOI:10.1038/msb4100025<br>
[http://www.nature.com/msb/journal/v1/n1/full/msb4100025.html URL]
[http://www.nature.com/msb/journal/v1/n1/full/msb4100025.html URL]
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[http://hdl.handle.net/1721.1/27501 October 2004 version]
[http://hdl.handle.net/1721.1/27501 October 2004 version]


===Interests===
*Developing technologies on making biology easier to engineer. 
*Enabling the design, construction, and use of biological organisms for the purposes of further scientific understanding; keeping extremely aware of the use of engineered biological organisms for other purposes.
*Understanding those aspects of biological design that allow for certain robust features of development in the face of large intrinsic and extrinsic variation specifically on non-evolutionary time-scales (I am currently giving up on the past.  That may change in the future.).
*Property rights as related to biological information and organisms; understanding and reforming current and future frameworks; I really like these [http://sciencecommons.org people]
*OpenWetWare of course!
=== Past Projects ===
[[Rebuilding T7]]
[[TABASCO]] -- A single molecule base-pair resolved gene expression simulator
Measure and Models of T7 Infection
[[How does T7 deal with Uncertainty]]
[[User:Skosuri/T7.2 tests|T7.2 Tests]]
===Interesting Stuff===
The beginnings of a [[/blog|blog]].
See my [[Sriram Kosuri/Interesting Stuff|interesting stuff page]]
[[Sriram Kosuri/Post-doctoral Fellowships|Post-doctoral Fellowships]]
[[Media:CGR Research Plan.pdf|A failed Research Plan for a job at Harvard's CGR]]
[http://hdl.handle.net/1721.1/35864 My Thesis!]
[[Special:Contributions/Skosuri|My contributions to OWW]]
[[Sriram Kosuri/temp]]


==Contact==
==Contact==
'''Phone''': still waiting<br>
'''Phone''': 617-432-8283<br>
'''OWW users''': Post a message on my [[User talk:Skosuri|talk page]], or send me an [[Special:Emailuser/Skosuri|email]].<br>
'''OWW users''': Post a message on my [[User talk:Skosuri|talk page]], or send me an [[Special:Emailuser/Skosuri|email]].<br>
'''Email''': [[Image:Sri Kosuri's Email.jpg|500px]]<br>
'''Email''': [[Image:Sri Kosuri's Email.jpg|500px]]<br>
'''Postal''':<br>
'''Postal''':<br>
Harvard Medical School<br>
Wyss Institute<br>
Genetics Department<br>
CLSB 508-7<br>
New Research Building (NRB) Rooms 232 <br>
3 Blackfan Circle<br>
77 Ave. Louis Pasteur<br>
Boston, MA 02115  USA <br>
Boston, MA 02115  USA <br>


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[[Category:Steering Committee member]]
[[Category:Steering Committee member]]
[[Category:People at MIT]]

Latest revision as of 09:17, 1 May 2014

Personal

Sri at work

Bio

I am an Assistant Professor at UCLA in the Chemistry and Biochemistry Department. I was previously a member of the Advanced Technology Team in the Synthetic Biology Platform at the Wyss Institute. I was a postdoc in George Church's lab in the Department of Genetics at Harvard Medical School and the Wyss Institute from 2009-2011. From 2007-2009, I was the first employee of a biofuel startup called Joule Unlimited. I got my ScD in Biological Engineering at MIT in Drew Endy's lab and worked on understanding the development of a simple virus (T7) that infects E. coli. As an undergraduate in Bioengineering at UC Berkeley, I worked with Adam Arkin, Dale Kaiser, and Roy Welch on modeling traveling wave formation in M. xanthus. I also co-founded OpenWetWare.

Science

Publications

Large-scale de novo DNA synthesis: technologies and applications
Sriram Kosuri & George M Church
Nature Biotechnology, (2014) doi: 10.1038/nmeth.2918

Causes and effects of N-terminal codon bias in bacterial genes
Daniel B Goodman, George M Church, Sriram Kosuri
Science, (2013) doi:10.1126/science.1241934

Probing the Limits of Genetic Recoding in Essential Genes
Marc Lajoie*, Sriram Kosuri*, Joshua Mosberg, Christopher Gregg, Di Zhang, George M Church
Science, (2013) doi:10.1126/science.1241460

Composability of regulatory sequences controlling transcription and translation in E. coli
Sriram Kosuri*, Daniel B Goodman*, Guillaume Cambray, Vivek K Mutalik, Yuan Gao, Adam P. Arkin, Drew Endy, George M Church
PNAS, (2013) doi:10.1073/pnas.1301301110

CAS9 transcriptional activators for target specificity screening and paired nickases for cooperative genome engineering
Prashant Mali, John Aach, P Benjamin Stranges, Kevin M Esvelt, Mark Moosburner, Sriram Kosuri, Luhan Yang, George M Church
Nature Biotechnology, (2013) doi:10.1038/nbt.2675

Next-Generation Digital Information Storage in DNA
George M. Church, Yuan Gao, Sriram Kosuri
Science (2012) doi:10.1126/science.1226355

When It Rains, It Pores
Sriram Kosuri & A. Michael Sismour
ACS Synthetic Biology (2012) doi:10.1021/sb300015f

Gene Assembly from Chip-Synthesized Oligonucleotides
Nikolai Eroshenko*, Sriram Kosuri*, Adam H Marblestone, Nicholas Conway, & George Church
Current Protocols in Chemical Biology (2012) doi:10.1002/9780470559277.ch110190

Efficient construction of sequence-specific TAL effectors for modulating mammalian transcription
Feng Zhang*, Le Cong*, Simona Lodato, Sriram Kosuri, George Church & Paola Arlotta
Nature Biotechnology (2011) doi:10.1038/nbt.1775

Scalable gene synthesis by selective amplification of DNA pools from high-fidelity microchips
Sriram Kosuri*, Nikolai Eroshenko*, Emily LeProust, Michael Super, Jeffrey Way, Jin Billy Li & George Church
Nature Biotechnology (2010) 28:1295 doi:10.1038/nbt.1716 News & Views, Cover Art

TABASCO: A single molecule, base-pair resolved gene expression simulator
Sriram Kosuri, Jason Kelly and Drew Endy
BMC Bioinformatics 2007, 8:480 doi:10.1186/1471-2105-8-480
URL

Refactoring bacteriophage T7
Leon Y. Chan*, Sriram Kosuri* and Drew Endy
Molecular Systems Biology 13 September 2005 DOI:10.1038/msb4100025
URL PDF reprint News & Views October 2004 version


Contact

Phone: 617-432-8283
OWW users: Post a message on my talk page, or send me an email.
Email:
Postal:
Wyss Institute
CLSB 508-7
3 Blackfan Circle
Boston, MA 02115 USA

Calendar


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