User:S. Saini: Difference between revisions
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'''Principal Investigator''' | '''Principal Investigator''' | ||
# Supreet Saini (Associate Professor) | PhD & MS (University of Illinois, Urbana-Champaign) | B.Tech. (IIT Delhi) | saini AT che.iitb.ac.in | # Supreet Saini (Associate Professor) | PhD & MS (University of Illinois, Urbana-Champaign) | B.Tech. (IIT Delhi) | saini AT che.iitb.ac.in | ||
'''Post Doc''' | |||
# Phaniendra Alugoju (2019 - date) | PhD, Pondicherry Central University | phaniendra.a AT gmail.com | |||
# Saniya Deshmukh (2019 - date) | PhD, Pune University | |||
'''Graduate Students (for PhD)''' | '''Graduate Students (for PhD)''' | ||
# R G Brajesh (2015 - date) | MTech (Biotechnology) Anna University | brajeshrg AT gmail.com | # R G Brajesh (2015 - date) | MTech (Biotechnology) Anna University | brajeshrg AT gmail.com | ||
# Dibyendu Dutta (2016 - date) | MSc & BSc (Systems Biology) Hyderabad University | debudutta1 AT gmail.com | # Dibyendu Dutta (2016 - date) | MSc & BSc (Systems Biology) Hyderabad University | debudutta1 AT gmail.com | ||
# Anjali Mahilkar (2017 - date) | MSc IIT Kanpur | anjali.mahilkar AT gmail.com | # Anjali Mahilkar (2017 - date) | MSc IIT Kanpur | anjali.mahilkar AT gmail.com | ||
# Rajesh Kannan (2017 - date) | MTech IIT Chennai | rajeshkannan.e AT gmail.com | # Rajesh Kannan (2017 - date) | MTech IIT Chennai | rajeshkannan.e AT gmail.com | ||
# Sukhjeet Kaur (2019 - date) | |||
# Sravanti Kasarlawar (2019 - date) | |||
'''Graduate Students (for Masters)''' | '''Graduate Students (for Masters)''' | ||
# Rishi Yadav (2019 - date) | |||
'''Undergraduates''' | '''Undergraduates''' | ||
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'''Visiting Students''' | '''Visiting Students''' | ||
==Past Members== | |||
'''Graduate Students (for PhD)''' | '''Graduate Students (for PhD)''' | ||
# | # Debika Choudhury (2011 - 2018) | [(to join as) Post Doc Nikhil Nair's group at Tufts] | debika217 AT gmail.com | ||
# Kirti Jain (2011 - 2017) | [Post Doc, Calin Guet's group at IST (Vienna) | kirtijn1 AT gmail.com | |||
# Manish Kumar (2011 - 2015) [Post Doc, Jens Nielsen's group at Chalmers (Sweden) | manish1.biotech AT gmail.com] | # Manish Kumar (2011 - 2015) [Post Doc, Jens Nielsen's group at Chalmers (Sweden) | manish1.biotech AT gmail.com] | ||
# Mahendra Prajapat (2011 - 2016) [Post Doc, | # Mahendra Prajapat (2011 - 2016) [Post Doc, NIH (US) | prajapatmk.work AT gmail.com] | ||
# Chandrani Das (2012 - 2018) [Scientist, Biosciences R&D Division, TCS (Pune) | chandrani.das AT TCS.com] | |||
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'''Visiting Students''' | '''Visiting Students''' | ||
# [2018] Nishant Gerald (Manipal), Aakanksha Chand (Mumbai Univ.) | |||
# [2016] Isha Shroff (D Y Patil University) | # [2016] Isha Shroff (D Y Patil University) | ||
# [2014] Sumedha Mangal (IIT BHU), Vaibhav Pathak (IIT BHU), Balaji Kumar (IIT Madras), Shriyam (Banasthali University) | # [2014] Sumedha Mangal (IIT BHU), Vaibhav Pathak (IIT BHU), Balaji Kumar (IIT Madras), Shriyam (Banasthali University) | ||
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<!-- Replace the PubMed ID's ("pmid=#######") below with the PubMed ID's for your publications. You can add or remove lines as needed --> | <!-- Replace the PubMed ID's ("pmid=#######") below with the PubMed ID's for your publications. You can add or remove lines as needed --> | ||
# Phenomenological models as effective tools to discover cellular design principles <b> Archives of Microbiology </b> (2019) | |||
# Mathematical modeling of movement on fitness landscapes <b> BMC Systems Biology </b> (2019) | |||
# Estimating optimal lysogenic propensity for viruses in stressed environments <b> bioRxiv </b> (2018) | |||
# Mathematical modelling of quorum sensing in bacteria <b> INAE Letters </b> (2018) | |||
# Short term evolutionary dynamics of Escherichia coli in different carbon environments <b> bioRxiv </b> (2018) | |||
# Dynamic control of arabinose and xylose utilization in E. coli <b> Canadian J. of Chemical Engineering </b> (2018) | |||
# Dynamics and control of flagella assembly in Salmonella typhimurium <b> Frontiers in Cellular and Infection Microbiology </b> (2018) | |||
# Mathematical Modelling of Actin treadmill in Apicomplexans <b> bioRxiv </b> (2018) | |||
# Logic of two antagonizing intra-species quorum sensing systems in bacteria <b> Biosystems </b> (2018) | |||
# Current status and challenges in biobutanol production. <b>Bioenergy and Biofuels </b> (<i>Book Chapter</i>) (2018) | |||
# Cross-regulation among arabinose, xylose and rhamnose utilization in <i> E. coli </i> <b> Letters in Applied Microbiology </b> (2017) | |||
# Robustnes vs Evolvability analysis for regulatory feed-forward loops. <b> J. Bioinformatics and Computational Biology </b> (2017) | |||
# Rob And MarA Alter Susceptibility Of Escherichia coli To Antibiotics In Presence Of Salicylate. <b> bioRxiv </b> (2017) | # Rob And MarA Alter Susceptibility Of Escherichia coli To Antibiotics In Presence Of Salicylate. <b> bioRxiv </b> (2017) | ||
# Optimal parameter values for control of gene regulation. <b> Molecular BioSystems </b> (2017) A non-technical description of the work is at: [https://atlasofscience.org/many-solutions-to-the-same-problem-cellular-response-to-environmental-challenges/] | |||
# Optimal parameter values for control of gene regulation. <b> Molecular BioSystems </b> (2017) | |||
# Sugar Co-utilization in Microorganisms. <b> Current Developments in Biotechnology and Bioengineering </b> (<i>Book Chapter</i>) (2016) | # Sugar Co-utilization in Microorganisms. <b> Current Developments in Biotechnology and Bioengineering </b> (<i>Book Chapter</i>) (2016) | ||
# Building Metabolic Models From First Principles. <b> Current Developments in Biotechnology and Bioengineering </b> (<i>Book Chapter</i>) (2016) | # Building Metabolic Models From First Principles. <b> Current Developments in Biotechnology and Bioengineering </b> (<i>Book Chapter</i>) (2016) | ||
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# FliZ Is a posttranslational activator of FlhD4C2-dependent flagellar gene expression. <b> Journal of Bacteriology </b> (2008) | # FliZ Is a posttranslational activator of FlhD4C2-dependent flagellar gene expression. <b> Journal of Bacteriology </b> (2008) | ||
# Pressure drop and heat transfer study in tube-in-tube helical heat exchanger. <b> Chemical Engineering Science </b> (2006) | # Pressure drop and heat transfer study in tube-in-tube helical heat exchanger. <b> Chemical Engineering Science </b> (2006) | ||
==Conference Presentations/Invited Talks== | ==Conference Presentations/Invited Talks== | ||
# Speciation Experiments in Yeast. <b> IISc Bangalore </b>, (2019). | |||
# Understanding ecological diversity via evolutionary experiments in laboratory. <b> India Biodiversity Meeting </b>, Indian Statistical Institute, Kolkata (2019). | |||
# Dynamics of intrinsic antibiotic resistance in Escherichia coli via the mar-sox-rob regulon. <b> ASM Annual Meeting </b>, Atlanta, US (2018). | |||
# Historical developments in evolutionary biology <b> St. Xavier's </b> Mumbai (2018) | |||
# Coordinated control of virulence in enteric pathogens. <b> Biological Engineering Society (BES) Annual Conference </b>, NSIT Delhi (2017). | # Coordinated control of virulence in enteric pathogens. <b> Biological Engineering Society (BES) Annual Conference </b>, NSIT Delhi (2017). | ||
# Dynamics of intrinsic antibiotic resistance in Escherichia coli via the mar-sox-rob regulon. <b> Center for DNA Fingerprinting and Diagnostics (CDFD)</b>, Hyderabad (2017). | # Dynamics of intrinsic antibiotic resistance in Escherichia coli via the mar-sox-rob regulon. <b> Center for DNA Fingerprinting and Diagnostics (CDFD)</b>, Hyderabad (2017). | ||
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# Impact of network map and architecture on gene expression dynamics. <b> Foundations of Systems Biology in Engineering (FOSBE)</b>, Tsuruoka (Japan) (2012) | # Impact of network map and architecture on gene expression dynamics. <b> Foundations of Systems Biology in Engineering (FOSBE)</b>, Tsuruoka (Japan) (2012) | ||
# Dynamics and Control of the Clostridium acetobutylicum metabolic network. <b> Clostridium XII</b>, Nottingham (United Kingdom) (2012) | # Dynamics and Control of the Clostridium acetobutylicum metabolic network. <b> Clostridium XII</b>, Nottingham (United Kingdom) (2012) | ||
==Contact== | ==Contact== | ||
# Supreet Saini, Associate Professor | # Supreet Saini, Associate Professor, Department of Chemical Engineering, IIT Bombay, Mumbai - 400 076 | Email: saini AT che.iitb.ac.in | Phone: 91 22 2576 7216 | ||
# | # Chemical Engineering Lab 01, 2nd Floor, DESE-CESE Building, IIT Bombay, Mumbai - 400 076 | Phone: 91 22 2576 4235 |
Latest revision as of 06:16, 16 April 2019
I am a new member of OpenWetWare!
Research interests
- Network Dynamics
- Statistics and Dynamics of Evolution in Microbial Populations
- Bacterial Pathogenesis
Openings
- PhD Positions. Interested students are requested to write to Supreet with their CV.
- Post-doctoral researchers interested in theoretical & computational biology are requested to contact Supreet with their CV and research proposal.
Research Group
Principal Investigator
- Supreet Saini (Associate Professor) | PhD & MS (University of Illinois, Urbana-Champaign) | B.Tech. (IIT Delhi) | saini AT che.iitb.ac.in
Post Doc
- Phaniendra Alugoju (2019 - date) | PhD, Pondicherry Central University | phaniendra.a AT gmail.com
- Saniya Deshmukh (2019 - date) | PhD, Pune University
Graduate Students (for PhD)
- R G Brajesh (2015 - date) | MTech (Biotechnology) Anna University | brajeshrg AT gmail.com
- Dibyendu Dutta (2016 - date) | MSc & BSc (Systems Biology) Hyderabad University | debudutta1 AT gmail.com
- Anjali Mahilkar (2017 - date) | MSc IIT Kanpur | anjali.mahilkar AT gmail.com
- Rajesh Kannan (2017 - date) | MTech IIT Chennai | rajeshkannan.e AT gmail.com
- Sukhjeet Kaur (2019 - date)
- Sravanti Kasarlawar (2019 - date)
Graduate Students (for Masters)
- Rishi Yadav (2019 - date)
Undergraduates
Project Research Fellows
Visiting Students
Past Members
Graduate Students (for PhD)
- Debika Choudhury (2011 - 2018) | [(to join as) Post Doc Nikhil Nair's group at Tufts] | debika217 AT gmail.com
- Kirti Jain (2011 - 2017) | [Post Doc, Calin Guet's group at IST (Vienna) | kirtijn1 AT gmail.com
- Manish Kumar (2011 - 2015) [Post Doc, Jens Nielsen's group at Chalmers (Sweden) | manish1.biotech AT gmail.com]
- Mahendra Prajapat (2011 - 2016) [Post Doc, NIH (US) | prajapatmk.work AT gmail.com]
- Chandrani Das (2012 - 2018) [Scientist, Biosciences R&D Division, TCS (Pune) | chandrani.das AT TCS.com]
Graduate Students (for Masters)
- Nikhil Raj (2014 - 2016)
- Rohit Garg (2014 - 2016)
- Nitesh Meena (2013 - 2015)
- Ashish (2012 - 2014) [Co-Founder, The Zero Games Pvt. Ltd, ashish.19766 AT gmail.com]
- Gauri Shankar Choudhury (2012 - 2014)
Project Research Staff
- Balaji Kumar (2016) [Graduate Student, Penn State]
- Divyae Prasad (2014)
Undergraduates
- [2014] Piyush Lakhmani, Amit Aggarwal
- [2013] Chaitanya Gupta, Amit Pradhan
Visiting Students
- [2018] Nishant Gerald (Manipal), Aakanksha Chand (Mumbai Univ.)
- [2016] Isha Shroff (D Y Patil University)
- [2014] Sumedha Mangal (IIT BHU), Vaibhav Pathak (IIT BHU), Balaji Kumar (IIT Madras), Shriyam (Banasthali University)
Publications
- Phenomenological models as effective tools to discover cellular design principles Archives of Microbiology (2019)
- Mathematical modeling of movement on fitness landscapes BMC Systems Biology (2019)
- Estimating optimal lysogenic propensity for viruses in stressed environments bioRxiv (2018)
- Mathematical modelling of quorum sensing in bacteria INAE Letters (2018)
- Short term evolutionary dynamics of Escherichia coli in different carbon environments bioRxiv (2018)
- Dynamic control of arabinose and xylose utilization in E. coli Canadian J. of Chemical Engineering (2018)
- Dynamics and control of flagella assembly in Salmonella typhimurium Frontiers in Cellular and Infection Microbiology (2018)
- Mathematical Modelling of Actin treadmill in Apicomplexans bioRxiv (2018)
- Logic of two antagonizing intra-species quorum sensing systems in bacteria Biosystems (2018)
- Current status and challenges in biobutanol production. Bioenergy and Biofuels (Book Chapter) (2018)
- Cross-regulation among arabinose, xylose and rhamnose utilization in E. coli Letters in Applied Microbiology (2017)
- Robustnes vs Evolvability analysis for regulatory feed-forward loops. J. Bioinformatics and Computational Biology (2017)
- Rob And MarA Alter Susceptibility Of Escherichia coli To Antibiotics In Presence Of Salicylate. bioRxiv (2017)
- Optimal parameter values for control of gene regulation. Molecular BioSystems (2017) A non-technical description of the work is at: [1]
- Sugar Co-utilization in Microorganisms. Current Developments in Biotechnology and Bioengineering (Book Chapter) (2016)
- Building Metabolic Models From First Principles. Current Developments in Biotechnology and Bioengineering (Book Chapter) (2016)
- Analysis of a strategy for cooperating cells to survive the presence of cheaters Molecular BioSystems (2016)
- MarRA, SoxSR, and Rob encode a signal dependent regulatory network in Escherichia coli. Molecular BioSystems (2016)
- Progress toward isolation of strains and genetically engineered strains of microalgae for production of biofuel and other value added chemicals: A review. Energy Conversion and Management (2016)
- Analysis of optimality of the standard genetic code. Molecular BioSystems, Preprint: bioRxiv (2016)
- Revisiting Demand Rules for Gene Regulation. Molecular BioSystems, Preprint: bioRxiv (2016)
- Control of marRAB operon in Escherichia coli via autoactivation and autorepression. Biophysical Journal (2015)
- Mathematical model of flagella gene expression dynamics in Salmonella enterica serovar typhimurium. Systems and Synthetic Biology (2015)
- Elementary mode analysis reveals that Clostridium acetobutylicum modulates its metabolic strategy under external stress. Molecular BioSystems (2014)
- Acetone-butanol-ethanol fermentation analysis using only high performance liquid chromatography. Analytical Methods (2014)
- Characterization of Performance and Dynamics of Genetic Networks. IFAC Computer Applications in Biotechnology (2013)
- Role of feedback and network architecture in controlling virulence gene expression in Bordetella. Molecular BioSystems (2013)
- Role of extracellular cues to trigger the metabolic phase shifting from acidogenesis to solventogenesis in Clostridium acetobutylicum. Bioresource Technology (2013)
- Academic Ethics at the Undergraduate Level: Case Study from the Formative Years of the Institute. Journal of Academic Ethics (2013)
- Interplay between Fur and HNS in controlling virulence gene expression in Salmonella typhimurium. Computers in Biology and Medicine (2012)
- Continuous control of flagellar gene expression by the σ28-FlgM regulatory circuit in Salmonella enterica. Molecular Microbiology (2011)
- The interaction dynamics of a negative feedback loop regulates flagellar number in Salmonella enterica serovar Typhimurium. Molecular Microbiology (2010)
- FliZ induces a kinetic switch in flagellar gene expression. Journal of Bacteriology (2010)
- Role of cross talk in regulating the dynamic expression of the flagellar Salmonella pathogenicity island 1 and type 1 fimbrial genes. Journal of Bacteriology (2010)
- The role of coupled positive feedback in the expression of the SPI1 type three secretion system in Salmonella. PLoS Pathogens (2010)
- SprB is the molecular link between Salmonella pathogenicity island 1 (SPI1) and SPI4. Journal of Bacteriology (2010)
- Role of FimW, FimY, and FimZ in regulating the expression of type i fimbriae in Salmonella enterica serovar Typhimurium. Journal of Bacteriology (2009)
- Role of feedback loops in dictating flagellar gene regulation dynamics in Salmonella typhimurium. FOSBE Proceedings IET Systems Biology (2009)
- The rate of protein secretion dictates the temporal dynamics of flagellar gene expression. Molecular Microbiology (2008)
- FliZ Is a posttranslational activator of FlhD4C2-dependent flagellar gene expression. Journal of Bacteriology (2008)
- Pressure drop and heat transfer study in tube-in-tube helical heat exchanger. Chemical Engineering Science (2006)
Conference Presentations/Invited Talks
- Speciation Experiments in Yeast. IISc Bangalore , (2019).
- Understanding ecological diversity via evolutionary experiments in laboratory. India Biodiversity Meeting , Indian Statistical Institute, Kolkata (2019).
- Dynamics of intrinsic antibiotic resistance in Escherichia coli via the mar-sox-rob regulon. ASM Annual Meeting , Atlanta, US (2018).
- Historical developments in evolutionary biology St. Xavier's Mumbai (2018)
- Coordinated control of virulence in enteric pathogens. Biological Engineering Society (BES) Annual Conference , NSIT Delhi (2017).
- Dynamics of intrinsic antibiotic resistance in Escherichia coli via the mar-sox-rob regulon. Center for DNA Fingerprinting and Diagnostics (CDFD), Hyderabad (2017).
- Dynamics and evolution of antibiotic resistance in enteric bacteria. Mathematical Models in Infection, Immunity, and Inflammation, IISc Bangalore (2017).
- Dynamics and control of intrinsic antibiotic resistance in enteric bacteria. India Biodiversity Meeting, ISI (Kolkata) & Government College of Textile & Technology (Berhampore) (2016)
- Robustness vs. evolvability in rapidly evolving bacterial populations. Seminar on Computational & Mathematical Biology , ICT, Mumbai (2016)
- Quorum sensing and bacterial strategies. NNMCB Meeting , IISER, Pune (2015)
- Control of mar-sox-rob regulon in E. coli and Salmonella. Bacterial Expressions II , NCBS, Bangalore (2015)
- Does genetic robstness aid adaptability in rapidly evolving microbial populations? Evolutionary Biology Meeting, Marseille, France (2015)
- Crosstalk between arabinose and xylose utilization systems in E. coli. ASM General Meeting, US (2015)
- Control of Mar, Sox, Rob regulon in E. coli. ASM General Meeting, US (2015)
- Evolvability vs. Robustness in rapidly evolving microbial populations. Society of Biological Chemists (India) Annual Meeting, Bhubaneswar (2014)
- Transcriptional interference as a mechanism to control gene expression. IMSc, Chennai (2014)
- Revisiting Demand Rules for Gene Regulation. Center for Excellence in Basic Sciences, Mumbai (2014)
- Characterizing Clostridium acetobutylicum metabolism using constraint-based modeling approach under stress. Clostridium XIII, China (2014)
- Revisiting Demand Rules for Gene Regulation. FEBS-EMBO Meeting, Paris (2014)
- Dynamic regulation of Pathogenicity Islands and Multiple Antibiotic Resistance loci in Salmonella typhimurium. FEBS-EMBO Meeting, Paris (2014)
- Logic of Interacting Quorum Sensing Systems in Bacteria. q-Bio, Santa Fe (2014)
- Introduction to Computational and Systems Biology. Workshop on Bioinformatics Applications and Interdisciplinary Technologies, Haffkine Institute, Mumbai (2014)
- Counting and control in bacteria via Secretion. Bacterial Expressions, NCBS (Bangalore) (2013)
- Impact of network map and architecture on gene expression dynamics. Foundations of Systems Biology in Engineering (FOSBE), Tsuruoka (Japan) (2012)
- Dynamics and Control of the Clostridium acetobutylicum metabolic network. Clostridium XII, Nottingham (United Kingdom) (2012)
Contact
- Supreet Saini, Associate Professor, Department of Chemical Engineering, IIT Bombay, Mumbai - 400 076 | Email: saini AT che.iitb.ac.in | Phone: 91 22 2576 7216
- Chemical Engineering Lab 01, 2nd Floor, DESE-CESE Building, IIT Bombay, Mumbai - 400 076 | Phone: 91 22 2576 4235