Work History

Work History
Sep 2012 - Sep 2015

PhD Bioinformatics

University of Nice-Sophia Antipolis, Nice France

LINE-1 retrotransposon mediated structural variations in normal and cancer genomes, and how this impacts the transcriptome of tumor cells.

Apr 2011 - Sep 2012

Engineer Bionformatics

French National Institute of Health - INSERM, Nice France

Whole Genome, RNA sequencing and Chip-Seq data analysis. Bioinformatics analysis pipeline development using PERL, C++, Shell, Java. System administration of bioinformatics super computing facility.

Aug 2008 - Feb 2011

Bioinformatics Software Developer

Synamatix Sdn Bhd, Kuala Lumpur Malaysia

Development of Bioinformatics software applications using Java, C++, PERL.

Apr 2006 - May 2008

Bioinformatics Analyst

Jalaja Technologies Pvt Ltd, Bangalore India

Development of Bioinformatics pipelines, Analysis of Next Generation sequencing data and PERL scripting.

Education

Education
Sep 2012 - Sep 2015

PhD Bioinformatics

University of Nice-Sophia Antipolis, Nice France

LINE-1 retrotransposon mediated structural variations in normal and cancer genomes, and how this impacts the transcriptome of tumor cells.

May 2004 - May 2006

M.Sc Bioinformatics

University of Madras, Chennai India

Bioinformatics, programming and wet lab experiments.

Skills

Skills

System administration, DELL R920, DELL R720, Redhat RHEL 7, CentOS 6, Fedora Core 5

2 year experience in system administration of Bioinformatics core facility DELL R920 and DEL720 Server’s with Redhat and CentOS OS respectively.

Hidden Markov Models, Artificial Neural Networks

6 months experience in developing bioinformatics applications using ANN and HMM. Creating learning set and fine tuning prediction model.

RNA-Seq, Chip-Seq, Whole Genome and Exome sequencing data analysis

More than 5 years experience in performing Next generation data analysis and pipeline development.

C++, Java JSP/JSF,Swing, PERL, Shell Programming, MySQL, PHP, JSON, XML, JavaScript, R-Tool statistics

3 years of hardcore industry level software development experience using Java Swing, Java JSP and C++. PERL scripting. Full software cycle experience with more than 10000 lines of professional coding proven record. 

Bioinformatics, Molecular Biology,  Genomics 

Concept theoretical level information and also Master degree time wet-lab experience of Molecular biology experiments like SDS-page, DNA extraction, PCR etc.

Portfolio

Publications

  1. Mir. AA,Philippe C, Cristofari G (2014) euL1db: the European database of L1HS retrotransposon insertions in humans. Nucleic Acids Res. 2015 Jan 28;43(Database!issue):D43R7. doi: 10.1093/nar/gku1043. Epub 2014 Oct!28.

  2. Monot C, Kuciak M, Viollet S, Mir AA, Gabus C, et!al. (2013) The!Specificity and Flexibility of L1 Reverse Transcription Priming at Imperfect T-Tracts. PLoS Genet 9(5): e1003499. doi:10.1371/journal.pgen.1003499.

Conferences - Talks / Posters

1- July, 2013:  Eighteenth National Congress on Transposable elements in Montpellier, France.

2- April, 2012: International Congress on Transposable Elements (ICTE) 2012 in Saint Malo, France.

3- December, 2006: International Conference on Bioinformatics – INCOB in New Delhi, India.

Teaching Experience

Mentoring :  Master-2 Thesis student: A. Giulia (2013) – Bioinformatics – Erasmus student from Italy.

Additional trainings

1- May, 2015:  Advanced RNA-Seq and Chip-seq  data analysis – EMBL-EBI, Hinxton campus, United Kingdom

2- July–Sept, 2007 Java Sun Certification - Sun Microsystems, Bangalore- India.

Awards & Grants

1- 2012: European Research Council grant for starting PhD in Gael Cristofari Lab.
2- 2006: 
Best Student of the year award for Master thesis, University of Madras Chennai, India.

Research

LINE-1 retrotransposon mediated structural variations in normal and cancer genomes, and how this impacts the transcriptome of tumor cells.

CONTACT


Email:
ashfaqmir@gmail.com


Civil status 

Nationality: Indian
Marital status:Unmarried, No children

 

Sports

Roller skating, Weight training, Billiards,  Volley Ball and Chess.