Dr. Sailu Yellaboina’s Profile


Dr. Sailu Yellaboina
Associate Professor,
CR Rao Advanced Institute of Mathematics, Statistics & Computer Science (AIMSCS), 
University of Hyderabad Campus,
Central University Post office
Hyderabad -500 046,AP,India
91-40-2301 3118, 64631798
Email: yellaboinas@crraoaimscs.res.inbio.sailu@gmail.com
Fax: 040-23013118




The goal of our group is to develop computational methods to integrate variety of biological datasets such as genomic and proteomic data to gain systems level understanding of biological systems with special focus on infectious diseases, metabolic diseases, cancer and stem cells. Presently, we are working on following different projects to develop methods and software tools for data integration, data mining and data visualization.

  1. To develop software environment for transfer of the biological data among the sequenced genomes of evolutionarily related organisms.
  2. Expanding protein complexes and pathways using binary protein-protein interactions.
  3. Development of a tool for meta-analysis and integration of genomic datasets.
  4. Understanding the drug resistance mechanisms in cancer.
  5. Self-renewal mechanisms in stem cells and cancer.

PUBLICATIONS
  1. Johannes Freudenberg, Swati Ghosh, Brad Lackford, Sailu Yellaboina, Xiofeng Zheng, Suresh Cuddapah, Suresh Cuddapah, Paul A Wade, Guang Hu, Raja Jothi. Acute depletion of Tet1-dependent 5-hydroxymethylcytosine levels results in loss of embryonic stem cell identity [In press]
  2. Yellaboina S, Tasneem A, Zaykin DV, Raghavachari B, Jothi R: DOMINE: a comprehensive collection of known and predicted domain-domain interactions. Nucleic Acids Res, 2011, 39:D730-735.
  3. Hayles B, Yellaboina S, Wang D: Comparing transcription rate and mRNA abundance as parameters for biochemical pathway and network analysis. PLoS One, 2010 5(3):e9908.
  4. Yellaboina S, Dudekula DB, Ko M: Prediction of evolutionarily conserved interologs in Mus musculus. BMC Genomics 2008, 9:465.
  5. Akhter Y, Yellaboina S, Farhana A, Ranjan A, Ahmed N, Hasnain SE: Genome scale portrait of cAMP-receptor protein (CRP) regulons in mycobacteria points to their role in pathogenesis. Gene 2008, 407(1-2):148-158.
  6. Yellaboina S, Goyal K, Mande SC: Inferring genome-wide functional linkages in E. coli by combining improved genome context methods: comparison with high-throughput experimental data. Genome Res 2007, 17(4):527-535.
  7. Ranjan S, Seshadri J, Vindal V, Yellaboina S, Ranjan A: iCR: a web tool to identify conserved targets of a regulatory protein across the multiple related prokaryotic species. Nucleic Acids Res 2006, 34:W584-587.
  8. Ranjan S, Yellaboina S, Ranjan A: IdeR in mycobacteria: from target recognition to physiological function. Crit Rev Microbiol 2006, 32(2):69-75.
  9. Yellaboina S, Ranjan S, Vindal V, Ranjan A: Comparative analysis of iron regulated genes in mycobacteria. FEBS Lett 2006, 580(11):2567-2576.
  10. Prakash P, Yellaboina S, Ranjan A, Hasnain SE: Computational prediction and experimental verification of novel IdeR binding sites in the upstream sequences of Mycobacterium tuberculosis open reading frames. Bioinformatics 2005, 21(10):2161-2166.
  11. Yellaboina S, Ranjan S, Chakhaiyar P, Hasnain SE, Ranjan A: Prediction of DtxR regulon: identification of binding sites and operons controlled by Diphtheria toxin repressor in Corynebacterium diphtheriae. BMC Microbiol 2004, 4:38.
  12. Yellaboina S, Seshadri J, Kumar MS, Ranjan A: PredictRegulon: a web server for the prediction of the regulatory protein binding sites and operons in prokaryote genomes. Nucleic Acids Res 2004, 32:W318-320.
INVITED TALKS
  1. National Centre for Biological Sciences, July 2011 – Integrating genomic datasets to understand the mechanisms in embryonic stem cells.
  2. In Vitro Biology Meeting, June 2011 – Integrative approach to understand the mechanisms in embryonic stem cells.
  3. National Institutes of Health (NIH), FARE (Fellows Award for Research Excellence) seminar, Oct 2010 – Identification of Novel regulators of embryonic stem cell maintenance.
  4. Yale University, May 2009 – Meta-analysis of embryonic stem cell microarray data with protein-protein interaction and DNA-binding profiling data.
  5. National Institutes of Health and Environmental Sciences (NIEHS, NIH), May 2009 – Prediction of protein-protein interactions and meta-analysis of embryonic stem cell microarray data.
  6. Pacific Northwest National Laboratory (PNNL), April 2009 – Prediction of regulons and protein-protein interactions by analysis of bacterial genome sequences.
  7. Penn center for Bioinformatics (PCBI), May 2008 – Prediction of protein-protein interactions by genome context methods and evolutionarily conserved interologs.
  8. University of Massachusetts Medical School (UMASS), March 2008 – Prediction of protein-protein interactions and meta-analysis of embryonic stem cell microarray data.
  9. University of Texas Health Science Center (UTHSC), March 2008 – Prediction of protein-protein interactions and meta-analysis of embryonic stem cell microarray data.
  10. National Institute of Health and Aging (NIA), November 2007 – Prediction of protein – protein interactions and co-expression networks in Mus Musculas.
  11. University of Hyderabad (HCU), December 2005 – In-silico prediction of regulons in bacterial genomes.
  12. Center for DNA Fingerprinting and Diagnostics (CDFD), June 2003, Prediction of Iron dependent modules in Mycobacterium tuberculosis.
CONFERENCE PROCEEDINGS AND POSTER PRESENTATIONS
  1. Young Investigator Meeting – 2011 (YIM2011) organized by IndiaBioscience
  2. Keystone Symposia – Stem Cells in Development, Tissue Homeostasis and Disease (B3) January 30 – February 4, 2011
  3. Attended CSHL meeting on Systems Biology: Global regulation of gene expression March 23 – 27, 2010
  4. Yellaboina S, Dudekula DB, Sharov Al and Ko MSH: Identification of Mouse ES cell specific modules by combining meta-analysis of microarray data with protein – protein interaction data. NIA retreat, 2008.
  5. Yellaboina S, Dudekula DB, Sharov Al and Ko MSH: Prediction of interologs in Mus musculus. NIA retreat, 2006
  6. Chakhaiyar P, Yellaboina S, A. Ranjan, Seyed E. Hasnain. 2002. Identification and partial characterization of novel genes of Mycobacterium tuberculosis regulated by iron. Presented at the All India Cell Biology Conference, December 12-14, 2002. Advanced Centre for Treatment, Research & Education in Cancer, Mumbai, India.
  7. Yellaboina S, C.K.Mitra and Anusharka Sen. (1999) Distribution of Amino acids along protein sequences. International Conference on Life Sciences in Next Millenium, December 11-14, 1999. University of Hyderabad, Hyderabad. India.
EMPLOYMENT & EDUCATION

Associate professor
Duration: July, 2011 – to date
CR Rao’s Advanced Institute of Mathemetics, Statistics and Computer science, University of Hyderabad, Central University P.O., Prof. C.R.Rao Road, Gachibowli, Hyderabad-500046
Discipline: Bioinformatics/Systems biology

Post Doctoral Fellowship
Duration: Aug 2009 – June, 2011
Lab: Systems Biology Group, National Institute of Environmental Sciences (NIEHS), National Institutes of Health (NIH), Research Triangle Park, NC, USA
Discipline: Bioinformatics/Systems biology of embryonic stem (ES) cells
Project: Integrating genomic datasets to identify the novel regulators of embryonic stem cells

Post Doctoral Fellowship
Duration: October 2008 – Aug 2009
Lab: University of Tennessee Health Science Centre (UTHSC), Memphis, TN, USA
Discipline: Bioinformatics/Systems genetics of mouse
Project: Analysis of expression quantitative trait loci to understand casual mechanisms of stem cell differentiation and disease process

Post Doctoral Fellowship
Duration: June 2006 – September 2008
Lab: Laboratory of Genetics, National Institute of Aging, National Institutes of Health (NIH),
Discipline: Bioinformatics/Systems biology of ES cells
Project: Systems biology approach to understand self-renewal and pluripotency of stem cells

Project Associate
Duration: August 2005 – July 2006
Lab: Structural Biology Group, Centre for DNA Fingerprinting and Diagnostics (CDFD), Hyderabad
Discipline: Bioinformatics/Structural Biology/protein-protein interactions
Project: Inference of genome-wide functional linkages

Doctor of Philosophy
Duration: July 1999 – July 2005 
Lab: Computational Genomics, CDFD, Hyderabad
Discipline: Bioinformatics/Gene regulatory networks
Title of PhD thesis: In-silico prediction of regulons in bacterial genomes

ACADEMIC QUALIFICATIONS

  1. 1999: Qualified CSIR (Council of Scientific and Industrial Research) exam, Life Sciences/ Recipient of a 5-year fellowship from CSIR for pursuing a career in scientific research
  2. 1998: Qualified ICAR (Indian Council for Scientific and Agricultural Research) – National Eligibility Test for Lectureship in Animal Biochemistry.
  3. 1998: Qualified Graduate Aptitude Test in Engineering.

AWARDS & HONOURS

  1. Travel grant awarded to attend Young Investigators meeting 2011(YIM2011)
  2. Fellows Award for Research Excellence, 2010. (FARE) for outstanding scientific research at NIH
  3. Visiting Fellowship by National Institutes of Health(NIH, NIEHS), 2009 – 2011
  4. Visiting Fellowship by National Institutes of Health (NIH, NIA), 2006 to 2008
  5. Travel grant awarded by the Department of Biotechnology, India, 2003