User:Nikolai Eroshenko

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I am building new technologies for basic and applied biology. Long-term research interests include:
I am building new technologies for basic and applied biology. Long-term research interests include:
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* fully synthetic (i.e. non-immunogenic) gene therapy vectors that integrate genes into a precise location on the genome
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* human transgene vectors that integrate genes into precise locations on the genome
* cheaper, faster, and more accurate gene synthesis
* cheaper, faster, and more accurate gene synthesis
* library vs. library screens which quantify the strength of protein-protein and protein-DNA interactions
* library vs. library screens which quantify the strength of protein-protein and protein-DNA interactions
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== Publications ==
== Publications ==
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<span style="font-size:115%">'''Gene assembly from chip-synthesized oligonucleotides''' ([http://dl.dropbox.com/u/5389110/GeneAssemblyFromChipSynthesizedOligonucleotides%20(1).pdf PDF]) </span>
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5. '''Nikolai Eroshenko'''*, Rukmani Ramachandran*, Vamsi Yadavalli, Raj R. Rao (2013) [http://www.jbioleng.org/content/pdf/1754-1611-7-7.pdf Effect of substrate stiffness on early human embryonic stem cell differentiation.] J Biol Eng 7:7
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Nikolai Eroshenko*, Sriram Kosuri*, Adam H. Marblestone, Nicholas Conway, George Church, ''Current Protocols in Chemical Biology'' 4 (2012)
 
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* <span style="font-size:85%"> Gene Assembly by Subpool PCR (GASP) oligo design [https://bitbucket.org/skosuri/gasp/src/364d21def3ec/cleaned-up-scripts/gaspserver/ scripts] and [http://synbiosis.med.harvard.edu:8080/gaspserver.rpy server] </span>
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4. Shilpa Iyer, Ena Xiao, Khaled Alsayegh, '''Nikolai Eroshenko''', Marion J. Riggs, James P. Bennett. Jr & Raj R. Rao (2012) [http://www.nature.com/gt/journal/v19/n5/full/gt2011134a.html Mitochondrial gene replacement in human pluripotent stem cell derived neural progenitors.] Gene Ther 19:469
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<span style="font-size:115%"> '''Mitochondrial gene replacement in human pluripotent stem cell derived neural progenitors''' ([http://dl.dropbox.com/u/5389110/gt2011134a.pdf PDF])</span>
 
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Shilpa Iyer, Ena Xiao, Khaled Alsayegh, Nikolai Eroshenko, Marion J. Riggs, James P. Bennett. Jr & Raj R. Rao, ''Gene Therapy'' AOP (2011)  
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3. '''Nikolai Eroshenko'''*, Sriram Kosuri*, Adam H. Marblestone, Nicholas Conway, George Church (2012) [http://dl.dropbox.com/u/5389110/GeneAssemblyFromChipSynthesizedOligonucleotides%20(1).pdf Gene assembly from chip-synthesized oligonucleotides.] Curr Prot Chem Biol 4:1
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<span style="font-size:115%">'''Scalable gene synthesis by selective amplification of DNA pools from high-fidelity microchips''' ([http://dl.dropbox.com/u/5389110/nbt.1716.pdf PDF])</span>
 
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Sriram Kosuri*, Nikolai Eroshenko*, Emily LeProust, Michael Super, Jeffrey Way, Jin Billy Li & George Church, ''Nature Biotechnology'' 28:1295 (2010)  
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2. Sriram Kosuri*, '''Nikolai Eroshenko'''*, Emily LeProust, Michael Super, Jeffrey Way, Jin Billy Li & George Church (2010) [http://dl.dropbox.com/u/5389110/nbt.1716.pdf Scalable gene synthesis by selective amplification of DNA pools from high-fidelity microchips.] Nat Biotechnol 28:1295
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* <span style="font-size:85%">[http://www.nature.com/nbt/journal/v28/n12/extref/nbt.1716-S1.pdf Supplementary Text and Figures] (.pdf)
 
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* <span style="font-size:85%">[http://www.nature.com/nbt/journal/v28/n12/extref/nbt.1716-S2.xls Supplementary Sequences] (.xls)
 
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* <span style="font-size:85%">[http://dl.dropbox.com/u/5389110/Science-2010-News%20Focus-1605-7.pdf Runner-up for Science 2011 Breakthrough of the Year]
 
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* <span style="font-size:85%">Commentary: [http://dl.dropbox.com/u/5389110/nbt.1723.pdf Nature Biotechnology]; [http://dl.dropbox.com/u/5389110/nrg2924.pdf Nature Reviews Genetics]
 
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<span style="font-size:115%">'''Role of bioinspired polymers in determination of pluripotent stem cell fate''' ([http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2756563/pdf/nihms-132034.pdf PDF]) </span>
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1. Sheena Abraham, '''Nikolai Eroshenko''' & Raj R. Rao (2009) [http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2756563/pdf/nihms-132034.pdf Role of bioinspired polymers in determination of pluripotent stem cell fate.] Regen Med 4:561
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Sheena Abraham, Nikolai Eroshenko & Raj R. Rao, ''Regenerative Medicine'' 4:561 (2009)
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==Patents==
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1. George Church, Sriram Kosuri, '''Nikolai Eroshenko''' (pending) [http://patentscope.wipo.int/search/docservicepdf_pct/id00000019172253.pdf Orthogonal amplification and assembly of nucleic acid sequences] US Patent App 2011057075 (Harvard)
==Labs==
==Labs==
[http://arep.med.harvard.edu/ George Church] (2009-now)
[http://arep.med.harvard.edu/ George Church] (2009-now)
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[http://wyss.harvard.edu/ Wyss Institute] (2009-now)
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[http://wyss.harvard.edu/ Wyss Institute] (2009-2011)
[http://www.engineering.vcu.edu/rao-lab/New_Rao_Site/Raohome.php Raj Rao] (2006-2008)
[http://www.engineering.vcu.edu/rao-lab/New_Rao_Site/Raohome.php Raj Rao] (2006-2008)
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eroshenkona AT gmail  
eroshenkona AT gmail  
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Nikolai Eroshenko  
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77 Ave. Louis Pasteur  
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Nikolai Eroshenko <br>
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NRB 238  
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77 Ave. Louis Pasteur<br>
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NRB 238 <br>
Boston, MA 02115
Boston, MA 02115

Revision as of 08:42, 21 March 2013

Contents

Research

I am building new technologies for basic and applied biology. Long-term research interests include:

  • human transgene vectors that integrate genes into precise locations on the genome
  • cheaper, faster, and more accurate gene synthesis
  • library vs. library screens which quantify the strength of protein-protein and protein-DNA interactions

Publications

5. Nikolai Eroshenko*, Rukmani Ramachandran*, Vamsi Yadavalli, Raj R. Rao (2013) Effect of substrate stiffness on early human embryonic stem cell differentiation. J Biol Eng 7:7


4. Shilpa Iyer, Ena Xiao, Khaled Alsayegh, Nikolai Eroshenko, Marion J. Riggs, James P. Bennett. Jr & Raj R. Rao (2012) Mitochondrial gene replacement in human pluripotent stem cell derived neural progenitors. Gene Ther 19:469


3. Nikolai Eroshenko*, Sriram Kosuri*, Adam H. Marblestone, Nicholas Conway, George Church (2012) Gene assembly from chip-synthesized oligonucleotides. Curr Prot Chem Biol 4:1


2. Sriram Kosuri*, Nikolai Eroshenko*, Emily LeProust, Michael Super, Jeffrey Way, Jin Billy Li & George Church (2010) Scalable gene synthesis by selective amplification of DNA pools from high-fidelity microchips. Nat Biotechnol 28:1295


1. Sheena Abraham, Nikolai Eroshenko & Raj R. Rao (2009) Role of bioinspired polymers in determination of pluripotent stem cell fate. Regen Med 4:561

Patents

1. George Church, Sriram Kosuri, Nikolai Eroshenko (pending) Orthogonal amplification and assembly of nucleic acid sequences US Patent App 2011057075 (Harvard)

Labs

George Church (2009-now)

Wyss Institute (2009-2011)

Raj Rao (2006-2008)

Curtis Taylor (2006-2007)

Education

Harvard University (2008-now) PhD candidate, Bioengineering

Virginia Commonwealth University (2005-2008) BS, Biomedical Engineering

Contact

eroshenkona AT gmail


Nikolai Eroshenko
77 Ave. Louis Pasteur
NRB 238
Boston, MA 02115

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