User:Chinmay Shukla: Difference between revisions

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<html><br>Email:<a href="mailto:chinmay21191@gmail.com">chinmay21191@gmail.com</a><br></html>
<html><br>Email:<a href="mailto:chinmay21191@gmail.com">chinmay21191@gmail.com</a><br></html>
<!-- [[Special:Emailuser/Chinmay Shukla|Email me through OpenWetWare]] -->
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==Research Projects==
<html>
<ul>
<li><b>SNO  1</b></li>
[Dr. Nitish R Mahapatra, <a href="http://www.biotech.iitm.ac.in/faculty/nitish.htm"> Cardiovascular Genetics Lab </a> , IIT Madras, Jan 2012 - April 2013]
<p><b>Abstract:</b> Human phospholipid scramblase (hPLSCR1) is a transmembrane protein involved in
rapid bidirectional scrambling of phospholipids across the plasma membrane in response
to elevated intracellular Ca<sup>2+</sup> levels. Over-expression of recombinant hPLSCR1
in <i>E. coli</i> BL21(DE3) leads to its accumulation as misfolded, aggregated protein and
forms as inclusion bodies (IBs). Varying amounts N-Lauroyl sarcosine were used to
solubilise IBs and correctly folded hPLSCR1 was extracted from them. In Vitro reconstitution
studies confirm the functional activity of the protein. Far UV–CD studies reveal
the secondary structure of protein is predominantly an alpha–helix. High recovery yields
of purified hPLSCR1 were obtained without applying any renaturation techniques. NLS
solubilised IBs can be directly used for scramblase assay without any further purification.</p></ul>
<html><br><ul>
<li><b>Constraint-Based Network Analysis of Sugar Fermentation in <i>Saccharomyces cerevisiae</i></b></li>
[Dr.Jennifer L. Reed's Lab, University of Wisconsin, Madison, June - July 2009]
<p><b>Abstract: </b>There is considerable interest in recent years in the bioconversion of forestry and agricultural residues
into ethanol and value added chemicals. High ethanol yields from lignocellulosic residues are dependent
on efficient use of all the available sugars including glucose and xylose. The well-known fermentative
yeast Saccharomyces cerevisiae is the preferred microorganism for ethanol production and various
genome scale metabolic networks have been reconstructed for S. cerevisiae in the recent years. In this
study, S. cerevisiae’s network is analyzed by constraint based modeling techniques and the organism’s
inability to ferment xylose is studied. This inability is due to the cofactor imbalance occurring at the XR
and XDH reactions in the xylose uptake pathway. <!--Two genes were found when up-regulated in the
regulatory network; xylitol secretion was not predicted.--> Also, various strains were designed
computationally for improving the S. cerevisiae’s ethanol yield on glucose fermentation.</p>
</ul>
</html>
==Industrial Experience==
<html>
<ul>
<li><b>Small scale cell culture performance of  recombinant Chinese Hamster Ovary cells – A study of metabolite profiles</b></li> [Dr. Reddy’s Laboratories; Hyderabad, May – July 2008]
<ol type:"1">
<li>Study of growth characteristics and metabolic profiles of rCHO cells in Spinner flask (250ml and 500ml) and fermenter (2l).</li>
<li>Study of growth characteristics and metabolite profiles when the initial media had different ratio of fresh to spent media volume.</li>
<li>Study of growth characteristics and metabolite profiles when the initial media had different initial glutamine concentration. </li>
<li>Determination of glutamine degradation rate in a pfCHO media incubated at 37 degC.</li>
</ol>
</ul>
<a href="http://openwetware.org/images/4/47/Dr_reddys_Abdul_report.pdf">Click here to view the report</a>.
<br>
</html>


==Education==
==Education==
Line 57: Line 106:


</ul></html>
</ul></html>
===--[[User:Chinmay Shukla|Chinmay Shukla]] 19:35, 7 July 2012 (EDT)===


==Useful Links==
==Useful Links==

Revision as of 16:35, 7 July 2012

Curriculum Vitae

Contact Info

Chinmay Shukla

<html><b>Chinmay Shukla</b></html> <html><br></html> 352 Godavari Hostel, Indian Institute of Technology, Madras, Tamilnadu, India. <html><br>Email:<a href="mailto:chinmay.shukla@biotech.iitm.ac.in">chinmay.shukla@biotech.iitm.ac.in</a></html> <html><br>Email:<a href="mailto:chinmay21191@gmail.com">chinmay21191@gmail.com</a><br></html>

Research Projects

<html> <ul> <li><b>SNO 1</b></li> [Dr. Nitish R Mahapatra, <a href="http://www.biotech.iitm.ac.in/faculty/nitish.htm"> Cardiovascular Genetics Lab </a> , IIT Madras, Jan 2012 - April 2013] <p><b>Abstract:</b> Human phospholipid scramblase (hPLSCR1) is a transmembrane protein involved in rapid bidirectional scrambling of phospholipids across the plasma membrane in response to elevated intracellular Ca<sup>2+</sup> levels. Over-expression of recombinant hPLSCR1 in <i>E. coli</i> BL21(DE3) leads to its accumulation as misfolded, aggregated protein and forms as inclusion bodies (IBs). Varying amounts N-Lauroyl sarcosine were used to solubilise IBs and correctly folded hPLSCR1 was extracted from them. In Vitro reconstitution studies confirm the functional activity of the protein. Far UV–CD studies reveal the secondary structure of protein is predominantly an alpha–helix. High recovery yields of purified hPLSCR1 were obtained without applying any renaturation techniques. NLS solubilised IBs can be directly used for scramblase assay without any further purification.</p></ul>

<html><br><ul> <li><b>Constraint-Based Network Analysis of Sugar Fermentation in <i>Saccharomyces cerevisiae</i></b></li> [Dr.Jennifer L. Reed's Lab, University of Wisconsin, Madison, June - July 2009] <p><b>Abstract: </b>There is considerable interest in recent years in the bioconversion of forestry and agricultural residues into ethanol and value added chemicals. High ethanol yields from lignocellulosic residues are dependent on efficient use of all the available sugars including glucose and xylose. The well-known fermentative yeast Saccharomyces cerevisiae is the preferred microorganism for ethanol production and various genome scale metabolic networks have been reconstructed for S. cerevisiae in the recent years. In this study, S. cerevisiae’s network is analyzed by constraint based modeling techniques and the organism’s inability to ferment xylose is studied. This inability is due to the cofactor imbalance occurring at the XR and XDH reactions in the xylose uptake pathway. <!--Two genes were found when up-regulated in the regulatory network; xylitol secretion was not predicted.--> Also, various strains were designed computationally for improving the S. cerevisiae’s ethanol yield on glucose fermentation.</p> </ul> </html>

Industrial Experience

<html> <ul> <li><b>Small scale cell culture performance of recombinant Chinese Hamster Ovary cells – A study of metabolite profiles</b></li> [Dr. Reddy’s Laboratories; Hyderabad, May – July 2008] <ol type:"1"> <li>Study of growth characteristics and metabolic profiles of rCHO cells in Spinner flask (250ml and 500ml) and fermenter (2l).</li> <li>Study of growth characteristics and metabolite profiles when the initial media had different ratio of fresh to spent media volume.</li> <li>Study of growth characteristics and metabolite profiles when the initial media had different initial glutamine concentration. </li> <li>Determination of glutamine degradation rate in a pfCHO media incubated at 37 degC.</li> </ol> </ul> <a href="http://openwetware.org/images/4/47/Dr_reddys_Abdul_report.pdf">Click here to view the report</a>. <br> </html>

Education

<html> <ul> <li><b>Master of technology in Biotechnology, <a href="http://www.iitm.ac.in/">IIT Madras </a> (2013)<br> Bachelor of technology in Biotechnology, <a href="http://www.iitm.ac.in/">IIT Madras </a> (2012)</b></li> Current CGPA: 8.93/10 (Branch ranking – 2nd)<br> <li><b>Board of Higher Secondary Education (2008)<br> School: St. Xaviers Loyola Hall </b></li> Graduated with 86.1%<br> <li><b>Board of Secondary Education (2006)<br> School: St. Xaviers Loyola Hall </b></li> Graduated with 93.6%<br> </ul></html>

Academic Projects

<html><ul> <li><b>Transcriptional Regulation of Retinoblastoma gene</b></li> [<a href="http://www.biotech.iitm.ac.in/Mahalingam">Prof. S Mahalingam </a>, IIT Madras]

<li><b>Photosynthesis: A Mathematical Model <a href="http://www.biotech.iitm.ac.in/faculty/CFA%20exercises.htm">(CFA Project) </a> </b></li> [<a href="http://www.biotech.iitm.ac.in/faculty/gk.php">Prof. G K Suraishkumar </a>, IIT Madras]

<li><b> Analyzing the transport Phenomenon in Leeches <a href="http://www.biotech.iitm.ac.in/faculty/CFA%20exercises.htm">(CFA Project) </a> </b></li> [<a href="http://www.biotech.iitm.ac.in/faculty/gk.php">Prof. G K Suraishkumar </a>, IIT Madras]

</ul></html>

Scholastic Achievements

<html><ul> <li>Consistently risen and currently at <b>Branch Position 2</b> in my class of 40 students.</li> <li><b>Khorana Scholar 2012:</b> Received a scholarship of $ 4500 through the DBT-Govt. of India, IUSSTF and UW-Madison to be among the top 30 students in India to undertake research at University of Wisconsin, Madison during May-July 2012.</li> <li>Awarded the <b>Dr. Anita Mehta-Damani Prize </b> for the best academic record in the 5th and 6th semesters in Biotechnology</li> <li>Awarded the <b>Sri S Vishwanathan Prize </b> for securing the highest Cumulative Grade Point Average [CGPA] in Management minor of the B.Tech / Dual Degree / MA programme during 2010-2012 </li> <li>Secured a position in the <b>top 1% students in JEE 2008</b> (Joint Entrance Examination for IITs) written by over 300,000 students.</li> </ul></html>

Co-curricular & Extracurricular Activities

    <html> <li>Served the <a href="http://www.tenet.res.in/">TeNet group </a> for developing e learning software as a part of NSS, 2008-09.</li> <li>Head of <a href="http://www.biofest.org"> Events, Biofest 2012 </a> the inaugural technical festival of Department of Biotechnology, IIT Madras.</li> <li>Captain and Member of the hostel <b>chess team.</b></li> </ul></html>

    --Chinmay Shukla 19:35, 7 July 2012 (EDT)

    Useful Links

    <html> <a href="http://www4.clustrmaps.com/user/b43f7305"><img src="http://www4.clustrmaps.com/stats/maps-no_clusters/openwetware.org-wiki-User-Chinmay_Shukla-thumb.jpg" alt="Locations of visitors to this page" /> </a> </html>

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