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Subashika Govindan

PhD in Neuroscience

SUMMARY

Developmental neurobiologist with 9 years research experience. Possess skills to execute projects independently, resourceful in designing new projects, proficient in scientific writing & communication. Experience in studying biological questions using in-vitro, in-vivo and  in-silico tools. Looking forward to develop in-silico models to study cell states/fates using  RNA sequencing data and epigenomics. 

Work History

JUNE 2012MAY 2016

Ph.D Scholar

Prof.Denis Jabaudon Lab, University of Geneva, Geneva, Switzerland.
Jul 2010Apr 2012

Junior Research Fellow

Prof.Shyamala Mani Lab, Centre for Neuroscience,Indian Institute of Science, Bangalore, India.
Apr 2009Jun 2009

Technical Executive

BiointeQ Bioscience Private Ltd, Chennai, India
Jun 2008Mar 2009

Project Fellow

Biotechnology division, M.S.S.R.F,Chennai, India.

Education

20122016

Ph.D in Neuroscience

University of Geneve, Geneva, Switzerland
 20092010

Masters Level Neuroscience Course (Integrated Ph.D course)

National Brain Research Centre,Gurgaon, India
 2004 2008

B.Tech Biotechnology

Bharathidasan Institute of technology, Bharathidasan university, Trichy, India.

Projects

  • Imaging thalamocortical and cortico-thalamic circuitry of Lhx2 Knock out mice. Aiding in data interpretation and protocol establishment for 3D whole brain imaging. Established Collaboration between Prof.Shubha Tole, TIFR, Mumbai, India and Veli-Pekka Ronkainen, Manager, Imaging center, Biocenter, University of Oulu, Oulu, Finland. August 2016 - til date
  • Establishing model system to studying developmental neurological an multi-organ disorders. Establishing primary neuronal cultures, whole brain culture, slice cultures and organ cultures to study genetic disorders by gain & loss of function experiments. Collaboration with Academy Research Fellow Reetta Hintala, University of Oulu, Oulu, Finland. Jun 2016 - til date. 

  • Lhx2 and its role in cortical development. Identifying Lhx2 dependent cortical development mechanism. Aiding in experimental design, setup and data analysis for transcriptomics and whole brain imaging experiments. Collaboration with Prof.Shubha Tole, TIFR, Mumbai. Dec 2015 - til date.
  • Dissecting neuronal differentiation through real-time singe cell transcriptomic approach. Independently developed a real time flourescent birthdating technique called "FlashTag". Utilised single cell transcriptomics and performed functional gene analysis through loss or gain of gene function experiments and gene ontology analysis. Prof. Denis Jabaudon Labarotary, Unige, Switzerland. Jun 2012 - Feb 2016. (PhD research work).
  • Asymmetric cell division of granule neuron progenitors in the external granule layer of the mouse cerebellum. Performed histology, live imaging and primary cultures of mouse and human cerebellum.Prof. Shyamala Mani Laboratory, IISc, India. July 2010 to Apr 2012
  • Identifying different areas in brain responsible for reading hindi and english with neutralization on phonemics and semantics. Designed cognitive tasks and analysed FMRI DATA of human subjects. Prof.Nandini Singh Laboratory, NBRC, India.Feb 2010 - Apr 2010
  • Effect of DC electric field on organotypic cultures of retina for regeneration. Independently designed the project and innovated customized electric chamber to apply electric pulses on organotypic cultures of degenerating retina for regeneration. Performed histology. Prof.Narendra k Dhingra Laboratory, NBRC, India. Aug 2009 - Nov 2009.
  • Identification of oil biosynthetic genes in Jatropha curcas by expressed sequence tag analysis and functional genomics. Performed sanger sequencing of seed stage specific cDNA library preparation and performed in-silico gene function analysis. Supervisor: C  Dr.H.M.Shankararama subramanium, M.S.S.R.F, India. Dec 2007 - Mar 2009

Oral & Poster Presentations

  • Becoming a new neuron in the cerebral cortex. GovindanS, Telley L. Jabaudon D. Presenting author. CIG Symposium "From a single cell to a complex organism" 2016, Lausanne, Switzerland, Oral presentation
  • Real-time transcriptomics of newborn neurons in the developing neocortex. GovindanS, Telley L. Jabaudon D. Presenting author. ISDN 2016, Juan les Pain, France. Poster presentation.
  • Becoming a neuron in the necortex. Govindan S, Telley S. Jabaudon D. Presenting author. SFN 2015, Chicago, USA. Poster presentation.
  • Becoming a neuron in the necortex. Govindan S, Ludovic Telley. Jabaudon D. Presenting author. LNAM 2015. Les-Diablerets, Switzerland. Oral and Poster presentation.
  • Becoming a neuron in the necortex. Govindan S, Ludovic Telley. Jabaudon D. Presenting author. EMBO workshop on Cortical development in health and disease 2015, Rehovot,Israel. Poster presentation
  • Dissecting cellular diversity during corticogenesis. Govindan S, Ludovic Telley. Jabaudon D. Presenting author. Phd Retreat Program, 2014, Villars sur ollon, Switzerland. Oral presentation & Poster presentation.
  • Dissecting cellular diversity during corticogenesis. Govindan S, Jabaudon D. S. IGE3 2nd annual meeting, 2013, Geneve, Switzerland, Oral presentation as IGE3 student award award winner.
  • Molecular controls over the development of Sensory and Motor Thalamocortical connectivity. Pouchelon G, Govindan S, Lorenczy B, Jabaduon D. Presenting author -   Govindan S. Annual SSN meeting 2012, Geneva, Switzerland. Poster presentation.
  • Expression of sonichedgehog during cell proliferation in the human cerebellum. P. Haldipur, S. Govindan, S. Iyengar, C. Sarkar, P. Gressens, S. Mani. Presenting author - Govindan S. ISDN 2012, Mumbai, India.

Awards & Grants

  • IGE3 Student Awards, December 2013 along with 2-year scholarship from IGE3, Geneve, Switzerland.
  • Jean Falk Vairant funding, June 2012 from Lemanic Neuroscience School, Lausanne Switzerland.

Skills

Molecular Biology Techniques: DNA, RNA and protein Purification, PCR, Sanger sequencing, western blotting, Real time PCR, molecular cloning.

Cell culture Techniques:Primary neuronal cultures, cerebellar cultures, organotypic slice cultures, microdissection, whole brain cultures, ex-utero electroporation, microcontact printing for cell culture, FAC - sorting, experience in cell preperation for C1-Fluidigm chip, cell cycle analysis and time lapse imaging.

Histology Techniques: Cryosectioning, vibratome sectioning, microtome sectioning, Immunohistochemisty (DAB and Fluorescence), fluorescence, confocal and light sheet imaging, perfusion, DiI implantation in fixed brains

In vivo Techniques:In utero thalamic and cortical electroporation, Flash Tag, stereotactic injections, transplantation of cells in-vivo, c-row barrel deprivation, untrasound guided injection of mice pups, animal handling, retrograde labelling using DiI and CTB.

Informatics:  Illustrator, Photoshop, Prism, Basics coding skills in Matlab,  R, C, C++ and Unix.

Bioinformatics: RNA sequencing analysis (single cell and bulk), Gene enrichment analysis (SCDE), cell clustering and lineage analysis(Pagoda, Waterfall and Monocle package), Gene ontology enrichment analysis. Trained in ChiP seq analysis.  

Training and WORKSHOPS

 "RNA-sequencing:From quality control to pathway analysis". 15-16 february 2016, BERN. Organised by Swiss institute of Bioinformatics.

 "Chip-seq data analysis: from quality check to motif discovery and more. An introduction to the tools and databases of the EPD team". 4-8 april 2016, Lausanne. Organised by Swiss Institute of Bioinformatics.

Bioinformatics of long read sequencing - getting ready for the third generation. 5 July 2016, Bern. Organised by Swiss Institute of Bioinformatics.

"De novo Transcriptome assembly - Trinity". 10-11 september 2016, BERN. Organised by Swiss institute of Bioinformatics.

"Single cell sequencing". 12-14th september 2016, BERN. Organised by Swiss institute of Bioinformatics. 

"Exposure Hackathon", scientific film making workshop. 2-4th December, Lausanne. Organised by The Catylyst, BSNL, UNIL and EPFL. 

LANGUAGES

Spoken: English, Tamil, Hindi, finished A1 level in french.

Written: English, Tamil and Hindi.

Other information

Permit: Swiss B permit                  Nationality: Indian                   Date of Birth: 21.09.1986

References

  • Prof.Denis Jabaudon,
    Department Of Basic Neuroscience,
    CMU,University Of Geneve, Geneve 1211
    denis.jabaudon@unige.ch
  • Prof.Alexandre Dayer,
    Department Of Basic Neuroscience,
    CMU,University Of Geneve, Geneve 1211
    Alexandre.Dayer@unige.ch