irma lozada chávezz - Bioinformatics Leipzig
irma lozada chávezz - Bioinformatics Leipzig
irma lozada chávezz - Bioinformatics Leipzig
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IRMA LOZADA CHÁVEZ<br />
PERSONAL REFERENCES<br />
Last Name: Lozada-Chávez<br />
First Name: Irma<br />
Gender: Female<br />
Age: 32<br />
Date of Birth: January 14 th , 1980<br />
Place of Birth: Mexico City, MEXICO<br />
Citizenship: Mexican<br />
Marital Status: Single<br />
Home pages:<br />
http://www.bioinf.uni-leipzig.de/~i<strong>lozada</strong>/<br />
http://www.divulgacion.ccg.unam.mx<br />
Permanent Address:<br />
Av. Ricardo Flores Magón 501-A, 101-B.<br />
Col. Atlampa. Del. Cuauhtémoc.<br />
C.P. 06450. MÉXICO<br />
e-mail: <strong>irma</strong>.<strong>lozada</strong>.chavez@gmail.com<br />
Current Office Address:<br />
<strong>Bioinformatics</strong> Group<br />
Institute for Informatics<br />
University of <strong>Leipzig</strong><br />
Härtelstraβe 16-18<br />
D-04107 <strong>Leipzig</strong>, GERMANY<br />
e-mail: i<strong>lozada</strong>@bioinf.uni-leipzig.de<br />
Phone: +49 341 97 16694<br />
Fax: +49 341 97 16679<br />
EDUCATION<br />
Irma Lozada - Currículum vitae - 1<br />
1999-2004<br />
Bachelor of Science in Biology<br />
Global Course Average: 9.10/10<br />
Faculty of Sciences<br />
National Autonomous University of Mexico (UNAM)<br />
Mexico City, MEXICO<br />
2004-2005<br />
Diploma Course in Science Communication<br />
Global Course Average: 9.8/10<br />
General Direction of Science Communication<br />
National Autonomous University of Mexico (UNAM)<br />
Mexico City, MEXICO<br />
2004-2006<br />
Master of Science in Biochemistry<br />
Global Course Average: 8.8/10<br />
Institute of Biotechnology & Center for Genomic Sciences<br />
National Autonomous University of Mexico (UNAM)<br />
Cuernavaca, Morelos. MEXICO<br />
ACADEMIC OBJECTIVES<br />
My first principal goal in science involves the development<br />
of an interdisciplinary approach oriented to the understanding<br />
of the major evolutionary patterns and mechanisms that<br />
occurred in the Early Evolution of Life.<br />
My second main goal would be focused on obtaining a<br />
permanent position as a researcher and professor in an<br />
academic institution.<br />
RESEARCH AREAS OF INTEREST<br />
Origin and Evolution of Life<br />
Astrobiology<br />
Biochemistry<br />
Biological, Viral and Molecular Evolution<br />
Genomic, Biomathematics and <strong>Bioinformatics</strong><br />
Science Communication, Education and Outreach
CURRENT POSITION<br />
Ph.D. student<br />
<strong>Bioinformatics</strong> Group<br />
Interdisciplinary Center for <strong>Bioinformatics</strong><br />
and Department of Computer Science<br />
University of <strong>Leipzig</strong>, Germany<br />
Responsible: Dr. Peter F. Stadler<br />
Project:<br />
Living Multicellular Complexity based on<br />
Non-Coding RNA Regulation::<br />
“An Estimation of the Evolutionary<br />
Tendencies and Mechanisms”<br />
Current Research Lines<br />
Genomic and Metabolic Reconstruction<br />
of Cellular Communities living in the Early<br />
Evolution of Life.<br />
Comparative Genomics and Evolution of<br />
Viral Genomes: Low Complexity<br />
Sequences, Quasispecies, Viral Packaging.<br />
Comparative Genomics and Evolution of<br />
Prokaryotic and Eukaryotic Genomes:<br />
Orthologues, Paralogues, Phylogeny and<br />
Metabolic Pathways.<br />
Bacterial Phylogeny and Genomic<br />
Adaptive Mechanisms to hypersaline<br />
environments.<br />
Origin and Evolution of the<br />
Transcriptional Regulatory Networks in<br />
Bacteria.<br />
Origin and Evolution of regulatory nonprotein-coding<br />
RNAs in Eukarya.<br />
Genomic Origin and Evolution of Simple<br />
and Complex Multicellular Organisms on<br />
Earth.<br />
BOOK CHAPTERS<br />
"Astrobiology: a transdisciplinary<br />
perspective of life on the Universe".<br />
Editors: Navarro-González R, Ramirez SI,<br />
Cordero-Tercero MG. In Spanish (currently<br />
in edition). Of my authorship:<br />
CHAPTER 5: The essential pillars of life on<br />
Earth and the universal definition of life.<br />
CHAPTER 6: Origin of life on Earth.<br />
CHAPTER 7: Evolution of life on Earth.<br />
CHAPTER 12: The influence of the<br />
Evolutionary Theory on the search of life in<br />
the Universe.<br />
SCIENTIFIC RESEARCH: Publications<br />
Irma Lozada - Currículum vitae - 2<br />
2006 Lozada-Chávez I., Chandra J.S. and Collado-Vides J. Bacterial<br />
regulatory networks are extremely flexible in evolution. Nucleic<br />
Acids Research, 2006, 34(12): 3434-3445. (112 citations)<br />
2007 Contreras-Moreira B., Lozada-Chávez I., Espinosa A.V. Structural<br />
(and sequence-based) analysis of transcriptional regulation. JNB<br />
Structural <strong>Bioinformatics</strong>: http://digital.csic.es/handle/10261/3500<br />
2008 Lozada-Chávez I., Espinosa A.V., Collado-Vides J. and Contreras-<br />
Moreira B.. The role of DNA-binding specificity in the evolution of<br />
bacterial regulatory networks. Journal Molecular Biology 379(3):<br />
627-643. (29 citations)<br />
2009 Jiménez-Cardoso E., Eligio-García L., Cortés-Campos A., Flores-Luna<br />
A., Valencia-Mayoral P. and Lozada-Chávez I. Changes in betagiardin<br />
sequence of Giardia intestinalis sensitive and resistant to<br />
albendazole strains. Parasitology Research 105:25–33. (6 citations)<br />
2009 Lozada-Chávez I., Montoya L., Rodriguez N., Marin I. and Amils R.<br />
Metanogenic Diversity Through mcrA Gene in Hypersaline<br />
Conditions. Origins of Life and Evolution of Biospheres 39, SI: 382-383<br />
2009 Balleza E., López-Bojorquez L.N., Martínez-Antonio A., Resendis-<br />
Antonio O., Lozada-Chávez I., et al. Regulation by transcription<br />
factors in bacteria: beyond description. FEMS Microbiology Reviews,<br />
33(1):133-51. (31 citations)<br />
2011 Montoya L., Lozada-Chávez I., Amils R., Rodriguez N. and Marin I.<br />
The sulfate-rich and extreme saline sediment of the ephemeral t<br />
irez lagoon: a biotope for acetoclastic sulfate-reducing bacteria<br />
and hydrogenotrophic methanogenic archaea. International<br />
Journal of Microbiology, 2011: 753758. doi:10.1155/2011/753758<br />
2012 Lozada-Chávez I., Stadler P.F. and Prohaska S.J. “Hyphotesis for the<br />
modern RNA world”: a pervasive non-coding RNA-based genetic<br />
regulation is a prerequisite for the emergence of complex<br />
multicellularity. Origins of Life and Evolution of Biospheres,<br />
41(6):587-607<br />
2012 Lozada-Chávez I. The influence of the Evolutionary Theory on the<br />
search of life in the Universe (in Spanish). In “Astrobiología y<br />
Filosofía IV”. Letras de Deusto, 42(134):9-125. ISSN 0210-3516.<br />
---- Ramírez S.I., Terrazas H., Montoya L., Lozada-Chávez I., et al. Growing<br />
of Bacillus isolates under Europa's salt conditions (in preparation)<br />
---- Lozada-Chávez A.N., Lozada-Chávez I., José V.M., et al. RNA viruses<br />
evolve as quasispecies (in preparation)<br />
Academic Theses<br />
2004 Irma Lozada-Chávez. The Functional Role of the Low Complexity<br />
Sequences in Viral Proteomes. B.Sc. in Biology Thesis (In Spanish).<br />
Faculty of Sciences, UNAM. Advisors: Dr. Arturo Becerra Bracho<br />
and Dr. Antonio Lazcano Araujo.<br />
2006 Irma Lozada-Chávez. Evolution of the Transcriptional Regulatory<br />
Networks is Extremely Flexible in Bacteria. M.Sc. in Biochemistry<br />
Thesis (In Spanish). Center for Genomic Sciences. UNAM. Advisor:<br />
Dr. Julio Collado-Vides.
ACADEMIC SCHOLARSHIPS<br />
2001-2004<br />
National System of Researchers (SNI),<br />
MEXICO (http://www.conacyt.mx/<br />
SNI/Index_SNI.html)<br />
Assistant of Research level SNI III.<br />
Researcher in charge:<br />
Dr. Antonio Lazcano Araujo<br />
2004-2006<br />
National Council of Science and<br />
Technology (CONACyT),<br />
MEXICO (http://www.conacyt.mx/)<br />
Student of Master Degree in Biochemistry,<br />
MEXICO.<br />
Researcher in charge:<br />
Dr. Julio Collado-Vides<br />
2009-2012<br />
National Council of Science and<br />
Technology (CONACyT),<br />
MEXICO (http://www.conacyt.mx/)<br />
Student of Ph.D. Degree in <strong>Bioinformatics</strong>,<br />
GERMANY.<br />
Researcher in charge:<br />
Dr. Peter F. Stadler<br />
SCIENTIFIC SOCIETIES<br />
2001-Present<br />
Founder Member and Executive Council of<br />
Mexican Society of Astrobiology (SOMA)<br />
http://athena.nucleares.unam.mx/~soma/<br />
E-mail: socmexastrobio@gmail.com<br />
Annual Scientific Meetings:<br />
http://www.nucleares.unam.mx/~soma/ocs<br />
/index.php/reunion/7reunion<br />
First Mexican School in Astrobiology:<br />
http://www.nucleares.unam.mx/~soma/esc<br />
uela.htm<br />
Positions in the Executive Council:<br />
- Public Outreach Secretary<br />
- Bulletin Executive Editor<br />
http://astrobioespanol.org/Astrobiologia_e<br />
n_Espanol/Novedades/Novedades.html<br />
2002-Present<br />
Associate Member of the International<br />
Astrobiology Society (ISSOL - International<br />
Society for the Study of the Origin of Life)<br />
http://www.issol.org/<br />
SCIENTIFIC MEETINGS<br />
Irma Lozada - Currículum vitae - 3<br />
2001 Committee organizer & Attendee Mexico City, MEXICO<br />
First Mexican Reunion of Astrobiology<br />
2002 Talk Puerto Vallarta, JAL, MEXICO<br />
“Identification of Low Complexity Sequences-LCS in Viral Proteins”<br />
Symposium of Comparative and Evolutionary Genomics<br />
2002 Poster Cuernavaca, MOR, MEXICO<br />
“The Functional Role of the LCS in Viral Proteomes”<br />
Irma Lozada-Chávez and Arturo Becerra Bracho.<br />
Second Mexican Reunion of Astrobiology<br />
2002 Attendee Acapulco, GRO, MEXICO<br />
Second National Meeting of Virology<br />
2002 Poster Oaxaca, OAX, MEXICO<br />
“The Evolutionary Role of the LCS in Viral Proteomes”<br />
Irma Lozada-Chávez and Arturo Becerra Bracho<br />
The 10 th ISSOL Meeting & 13 th OL International Conference<br />
2004 Attendee Tucson, AZ, EUA<br />
Astrobiology Graduate Conference 2004-NASA<br />
2004 Organizing Committee & Talk Mexico City, MEXICO<br />
“Evolution of Genomes in the Early Evolution of Life”<br />
Third Mexican Reunion of Astrobiology<br />
2005 Poster Beijing, BJ, CHINA<br />
“Evolutionary Conservation of Transcriptional Regulatory Network<br />
across Bacterial Species - A perspective from Escherichia coli K12”<br />
Irma Lozada-Chávez & Julio Collado-Vides<br />
The 11 th ISSOL Meeting & 14 th OL International Conference<br />
2006 Poster Maine, BOS, USA<br />
“Bacterial Regulatory Network is Extremely Flexible in Evolution”<br />
Irma Lozada-Chávez & Julio Collado-Vides<br />
Keenen Graduated Research Symposium &<br />
Gordon Research Conferences in Origin of Life 2006<br />
2007 Organizing Committee & Talk Mexico City, MEXICO<br />
“Genetic Regulation in the Early Evolution of Life”<br />
Fourth Mexican Reunion of Astrobiology<br />
2007 Poster Barcelona, SPAIN<br />
“Identification of Methanogenic Archaea in Hypersaline Sediment”<br />
Lilia Montoya, Irma Lozada-Chávez and Ricardo Amils<br />
National Meeting of Microbiology<br />
2008 Talk & Poster Valencia, SPAIN<br />
“Structural and sequence analysis of transcriptional regulation”<br />
Bruno Contreras, Irma Lozada-Chávez and Vladimir Espinosa<br />
VIII National Conference of <strong>Bioinformatics</strong> 2008<br />
2008 Posters Florence, ITALY<br />
- “Evolution of Bacterial Regulatory Networks: the role of<br />
DNA-binding specificity”<br />
Irma Lozada-Chávez, Bruno Contreras and Julio Collado<br />
- “Metanogenic Diversity through mcrA gene in hypersaline<br />
conditions”<br />
Irma Lozada-Chávez, Lilia Montoya and Ricardo Amils<br />
The 12 th ISSOL Meeting & 15 th OL International Conference<br />
2008 Organizing Committee & Talk Mexico City, MEXICO<br />
“Diversity of metanogenic organisms living in the hypersaline Tirez<br />
lake, an analog of Europa”<br />
Fifth Mexican Reunion of Astrobiology
EXTRACURRICULAR<br />
ACADEMIC COURSES<br />
Viral Vectors in Genic Therapy and Basic<br />
Research.<br />
National Institute of Cancer, MEXICO<br />
Institute of Biomedic Research, UNAM<br />
15 hours 1998<br />
Winter School in Biomathematics<br />
Faculty of Sciences, UNAM, MEXICO<br />
30 hours 2000<br />
UNIX environment<br />
General Direction in Services of Academic<br />
Compute (DGSCA), UNAM, MEXICO<br />
30 hours 2002<br />
PERL Programming Language<br />
General Direction in Services of Academic<br />
Compute (DGSCA), UNAM, MEXICO<br />
30 hours 2003<br />
International Course of <strong>Bioinformatics</strong>:<br />
“Genomics and Proteomics”<br />
Institute of Cellular Physiology, UNAM<br />
25 hours 2004<br />
Puerto Vallarta, JAL, MEXICO<br />
Winter School in Genomics 2006<br />
Center for Genomic Sciences, UNAM<br />
35 hours 2006<br />
Cuernavaca, MOR, MEXICO<br />
EMBO Practical Course:<br />
“Computational RNA Biology”<br />
Institute I.E.S.C. Corsica, FRANCE<br />
60 hours 2010<br />
Advanced School of Astrobiology:<br />
“Making Connections”<br />
Sao Paulo, Brazil<br />
(Best poster award of the school)<br />
120 hours 2011<br />
PRINCIPAL TEST SCORES<br />
2007-GRE General: 580/800<br />
2007-GRE Subject (Biology): 690/900<br />
English/2007-TOEFL ibt: 90/120<br />
OTHER LANGUAGES:<br />
Spanish: native language<br />
French: lower intermediate<br />
Portuguese: lower beginner<br />
SCIENTIFIC MEETINGS (continuation)<br />
Irma Lozada - Currículum vitae - 4<br />
2009 Talks Bled, Slovenia<br />
2010 “The Evolution of Gene Regulatory Networks” (I & II)<br />
The 24th TBI – Winterseminar –<br />
Computational Mathematics and Theoretical Biology<br />
2009 Attendee Berlin, Germany<br />
Consortium on Regulatory RNA in prokaryotes.<br />
2009 Organizing Committee Mexico City, MEXICO<br />
Sixth Mexican Reunion of Astrobiology<br />
2009 Talks Decin, Check Republic<br />
2010-11 “The evolution of non-coding RNA-based genetic regulation” (I & II)<br />
2012 “Differential evolution of non‐coding DNA across eukaryotes and<br />
its relationship with multicellular complexity”<br />
Herbstseminar Bioinformatik 2011<br />
2010 Organizing Committee Mexico City, MEXICO<br />
Seventh Mexican Reunion of Astrobiology<br />
2010 Attendee Bremen, Germany<br />
Scientific Commission B and F<br />
38th COSPAR Scientific Assembly<br />
2011 Attendee London, England<br />
“The chemical origins of life and its early evolution”<br />
The Royal Society<br />
2011 Talk Montpellier, France<br />
“The modern RNA word”: evolution of regulatory non-coding RNAs<br />
and their contribution to the emergence of living complexity<br />
Posters<br />
- The evolution of RNA genomes from a “quasispecies” perspective<br />
A. Nabor Lozada-Chávez, Irma Lozada-Chávez and Marco V. José<br />
(Best poster award in the field of Evolutionary Perspectives)<br />
- “Astrobiology in Mexico”: The Mexican Society of Astrobiology<br />
Roberto Vázquez, Irma Lozada-Chávez, Sandra I. Ramírez, et al.<br />
ISSOL – The International Astrobiology Society and<br />
Bioastronomy (IAU C51) Joint International Conference<br />
2012 Poster Atlanta, Georgia, USA<br />
“The Mexican Society of Astrobiology (SOMA)”<br />
Antígona Segura, Sandra Ramírez, Irma Lozada-Chávez, et al.<br />
Astrobiology Science Conference 2012<br />
2012 Organizing Committee Cuernavaca, MOR, MEXICO<br />
Eighth Mexican Reunion of Astrobiology<br />
www.soma.nucleares.unam.mx<br />
TEACHING EXPERIENCE<br />
2001 Undergraduate Teaching Assistant (80 hours)<br />
Course of Genetics level I<br />
Faculty of Sciences, UNAM. Mexico City, MEXICO<br />
2002 Undergraduate Teaching Assistant (80 hours)<br />
Course of Molecular Biology of the Cell level III<br />
Faculty of Sciences, UNAM. Mexico City, MEXICO<br />
2004 Teacher Trainer (28 hours)<br />
Course of Evolution, Phylogeny and Genomics<br />
National High School (EPN), UNAM<br />
2006 Post-graduate Teacher (40 hours)<br />
2007 Course of Basic Molecular Biology applied to <strong>Bioinformatics</strong><br />
2008 National Institute of Health (NIH), MEXICO
SPECIFIC REFERENCES<br />
(for currículum vitae)<br />
Dr. Peter F. Stadler<br />
Titular Researcher,<br />
<strong>Bioinformatics</strong> Group, Institute for Informatics<br />
University of <strong>Leipzig</strong>, Germany<br />
E-mail: stadler@bioinf.uni-leipzig.de<br />
Dra. Antígona Segura Peralta<br />
Associate Researcher<br />
Institute of Nuclear Sciences, UNAM<br />
President of the Mexican Society of<br />
Astrobiology (SOMA)<br />
E-mail: antigona@nucleares.unam.mx<br />
Dr. Arturo Becerra Bracho<br />
Titular Researcher,<br />
Faculty of Sciences, UNAM<br />
E-mail: abb@hp.fciencias.unam.mx<br />
Dr. Bruno Contreras-Moreira<br />
Titular Researcher,<br />
Experimental Station de Aula Dei<br />
Superior Council of Scientific Research in Spain<br />
E-mail: bcontreras@eead.csic.es<br />
Dra. Sandra I. Ramírez Jiménez<br />
Titular Researcher,<br />
Center of Chemical Research, UAEM<br />
E-mail: ramirez_sandra@uaem.mx<br />
Dr. Julio Collado-Vides<br />
Titular Researcher,<br />
Center for Genomic Sciences, UNAM<br />
E-mail: collado@ccg.unam.mx<br />
Dr. Rafael Navarro-González<br />
Titular Researcher,<br />
Institute of Nuclear Sciences, UNAM<br />
Expresident of SOMA<br />
E-mail: navarro@nuclecu.unam.mx<br />
Dra. Enedina Jiménez Cardoso<br />
Titular Professor of Teaching and Academic<br />
Development in <strong>Bioinformatics</strong><br />
National Institute of Health (Mexico)<br />
E-mail: enedina@servidor.unam.mx<br />
EXTRACURRICULAR ACTIVITIES<br />
Dancer of classic, contemporary, jazz<br />
and other cultural styles<br />
Music student in violin<br />
Digital and graphic design<br />
Painting & Swimming<br />
September 2012<br />
TEACHING EXPERIENCE (continuation)<br />
Irma Lozada - Currículum vitae - 5<br />
2007 Undergraduate Teacher (10 hours)<br />
Course of <strong>Bioinformatics</strong>. Center for Genomic Sciences, UNAM<br />
2009 Undergraduate and Graduate Teacher (3 hours)<br />
2010 Curse of Astrobiology for teachers: Life on Earth<br />
SOMA & UNAM. http://sites.google.com/site/tallerdeastrobiologia/<br />
2010 Post-graduate Teacher (6 hours)<br />
Course on Evolution of Life on Earth<br />
Faculty of Biology, Autonomous Metropolitan University (UAM)<br />
2011 Undergraduate and Graduate Teacher (2 hours)<br />
First Mexican School of Astrobiology: Fundamental Concepts on<br />
Biology, SOMA & UNAM<br />
ACTIVITIES IN SCIENCE COMMUNICATION<br />
2003 Committee organizer and Speaker: “The Low Complexity Sequences in<br />
Virus: A Model for the Increment of the Genetic Material in Early Cellular<br />
Systems”. Conference: Astrobiology in Mexico: is Life outside Earth<br />
possible? Faculty of Sciences, UNAM<br />
2004 Committee organizer and Speaker: “A Resource of Evolution in the<br />
Life: The Genome”. Conferences: Popularization of Life Sciences<br />
2004-2005. Museum of Geology, UNAM<br />
2005 Committee organizer and Speaker<br />
2006 “The Origin and Evolution of Life on the Earth”. Conferences and Radio<br />
Interviews: What do you know of…? The House of Science, UAEM<br />
2006 Guest Speaker: “The Genomic Sciences in our Life Style”.Conferences:<br />
Life Sciences and Technology. The House of Science, UAEM<br />
2006 Founder and Executive Editor:<br />
Present Web Site for the Scientific Communication of the Center for Genomic<br />
Sciences, UNAM. http://www.divulgacion.ccg.unam.mx/<br />
2007 Guest Speaker: “The Origin of Life Now: The Search of an<br />
Interdisciplinary Answer”. Conferences: NIBIRU: Astronomic Society<br />
2007. Faculty of Sciences, UNAM<br />
2007 Guest Participant in Discussion Panel: ”Genetics, Genomics and their<br />
Applications in our Lives”. Conferences: Science Outreach. Museum of<br />
UNIVERSUM, UNAM. http://www.universum.unam.mx/<br />
2007 Paper of Science Communication (In Spanish): ”The On and Off of<br />
Life: The Milk and Genetic Regulation”. Published online in:<br />
http://www.divulgacion.ccg.unam.mx/?q=quees<br />
Center for Genomic Sciences, UNAM<br />
2010 Guest Speaker: “The genome and the tombola of life”. Conferences:<br />
Talking about science. Institute of Science and Technology of Mexico<br />
City (ICYTDF)<br />
http://www.icyt.df.gob.mx/programas-sustantivos/ciudad-educadaen-ciencia-y-tecnologia/21/110-platicando-sobre-ciencia<br />
2010 Posters:<br />
Mexican Society of Astrobiology: Key concepts on Astrobiology<br />
2011 http://www.bioinf.uni-leipzig.de/~i<strong>lozada</strong>/posters_astrobiology_low/<br />
National Public Outreach Festival: The Night of the stars<br />
http://nochedelasestrellas.blogspot.com/<br />
2011 Coordinator in chief<br />
Public Outreach Festival: The Day of Astrobiology, December 3rd<br />
SOMA & ICYTDF, Mexico City: More than 2,000 attendees<br />
http://www.nucleares.unam.mx/~soma/documentos/programa_activi<br />
dades_DiaAB2011.pdf
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