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RESEARCH | CURRICULUM VITAE | PUBLICATIONS      

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Name:  ANALABHA BASU 

Email:   ab1

Present Position:  Associate Professor

Highest educational Qualification:  Ph.D.

Publications :

                        * Corresponding Author

 

Chakraborty S*, BASU A* (2019) Reconstruction of ancestral footfalls in South Asia using genomic data. Journal of Biosciences (in Press)

Bandesh K, Prasad G, Giri AK, Kauser Y, Upadhyay M, INDICO, BASU A, Tandon N, Bharadwaj D (2019) GWAS of Total Cholesterol, LDL, HDL and Triglycerides in Indians confirms universality of established variants. Journal of Human Genetics 64(6), 573

Prasad G, Giri AK , INDICO, BASU A, Tandon N, Bharadwaj D (2019) Genome-wide association study for C-reactive protein in Indians replicates known associations of common variants. Journal of Genetics 98(1), 20

Palodhi A, Ghosh S, Biswas NK, BASU A, Majumder PP, Maitra A (2019) Profiling of genomic alterations of mitochondrial DNA in gingivobuccal oral squamous cell carcinoma: Implications for disease progress. Mitochondrion (46), 361-369

Paine SK, BASU A, Gon Choudhury R, Bhattacharya B, Chatterjee S, Bhattacharya C (2018) Multiplex PCR from Menstrual Blood: A Non-Invasive Cost Effective Approach to Reduce Diagnostic Dilemma for Genital Tuberculosis. Molecular Diagnosis and Therapy 22 (3), 391-396

Giri AK, Bhardwaj S, Banerjee P, Chakraborty S, Parekatt V, Rajashekar D, Tomar A, Ravindran A, BASU A, Tandon N, Bharadwaj D (2017) DNA methylation profiling reveals the presence of population-specific signatures correlating with phenotypic characteristics. Molecular Genetics and Genomics. 292(3):655-662.

Sengupta D, Choudhury A, BASU A*, Ramsay M (2016) Population stratification and underrepresentation of Indian subcontinent genetic diversity in the 1000 Genomes Project dataset. Genome Biol Evol. 8 (11): 3460-3470.

BASU A* (2016) The Dazzling Diversity and the Fundamental Unity: Peopling and the Genomic Structure of Ethnic India. Indian Journal of History of Science 51.2.2  406-416

Vishal M, Sharma A, Kaurani L, Alfano G, Mookherjee S, Narta K, Agrawal J, Bhattacharya I, Roychoudhury S, Ray J, Waseem N, Bhattacharya S, BASU A, Sen A, Ray K, Mukhopadhyay A (2016) Genetic association and stress mediated down regulation in trabecular meshwork implicates MPP7 as a novel candidate gene in primary open angle glaucoma. BMC Medical Genomics 9: 15

BASU A*, Sarkar-Roy N, Majumder PP (2016) Genomic reconstruction of the history of extant populations of India reveals five distinct ancestral components and a complex structure. Proc Natl Acad Sci U S A. Feb 9;113(6):1594-9.

Datta S, Ray A, Singh R, Mondal P, BASU A, De Sarkar N, Majumder M, Maiti G, Baral A, Jha GN, Mukhopadhyay I, Panda C, Chowdhury S, Ghosh S, Roychoudhury S, Roy B (2015) Sequence and expression variations in 23 genes involved in mitochondrial and non-mitochondrial apoptotic pathways and risk of oral leukoplakia and cancer. Mitochondrion. 25: 28-33

Esteban ME, BASU A, Calo CM, Moral P (2015) Biomedical Insights of Human Genetic Diversity in Complex Diseases. BioMed Research International Volume 2015 (2015) http://dx.doi.org/10.1155/2015/974809,  Editorial

Biswas NK, Chandra V, Sarkar-Roy N Das T, Bhattacharya RN, Tripathy LN, Basu SK, Kumar S, Das S, Chatterjee A,  Mukherjee A, Basu P, Maitra A, Chattopadhyay A,  BASU A and Dhara S (2015) DNA repair, amino acid degradation and sonic hedgehog signaling pathways are associated with cellular senescence versus quiescence in GBM neoplastic cells in response to TMZ . Scientific Reports 5

Chandra V, Das T, Gulati P, Biswas NK, Rote S, Chatterjee U, Ghosh SN, Deb S, Saha SK, Chowdhury AK, Ghosh S, Rudin CM, Mukherjee A, BASU A and Dhara S (2015) An objective clustering of GBM patients to identify clinically relevant subgroups with hedgehog pathway activity. PLoS One 10(3)
 
Chatterjee A, BASU A,Chowdhury A, Das K, Sarkar-Roy N, Majumder PP and Basu P (2015) Comparative analyses of genetic risk prediction methods reveal extreme diversity of genetic predisposition to nonalcoholic fatty liver disease (NAFLD) among ethnic populations of India. Journal of Genetics 94(1):105-113

Karmakar B, Dhara K, Dey KK, BASU A, Ghosh AK (2015) Tests for Statistical Significance of a Treatment Effect in the Presence of Hidden Sub-populations. Statistical Methods and Applications 24(1), 97-119

Datta S, Ghosh A, Dasgupta D, Ghosh A, Roychoudhury S, Roy G, Das S, Das K, Gupta S, Basu K, BASU A, Datta S, Chowdhury A, Banerjee S (2014) Novel Point and Combo-Mutations in the Genome of Hepatitis B Virus-Genotype D: Characterization and Impact on Liver Disease Progression to Hepatocellular Carcinoma. PLoS One 9(10): e110012.

Majumder PP, BASU A (2014) A Genomic view of peopling and population structure of India Cold Spring Harb Perspect Biol. pii: a008540.

Giri AK, Khan NM, Grover S, Kaur I, BASU A, Tandon N, Scaria V, IGV Consortium, INDICO, Kukreti R, Brahmachari SK, Bharadwaj D (2014) Genetic epidemiology of pharmacogenetic variations in CYP2C9, CYP4F2 and VKORC1 genes associated with warfarin dosage in the Indian population. Pharmacogenomics 15(10), 1337–1354

Giri AK, Khan NM, BASU A, Tandon N, Scaria V, Bharadwaj D.(2014) Pharmacogenetic landscape of clopidogrel in north Indians suggest distinct interpopulation differences in allele frequencies. Pharmacogenomics 15(5):643-53

India Project Team of the International Cancer Genome Consortium (2013) Mutational landscape of gingivo-buccal oral squamous cell carcinoma reveals new recurrently-mutated genes and molecular subgroups. Nature Communications 4:2873. doi: 10.1038/ncomms3873.

Banerjee D, Banerjee A, Mookherjee S, Vishal M, Mukhopadhyay A, Sen A, BASU A*, Ray K (2013) Mitochondrial genome analysis of primary open angle glaucoma patients. PLoS One 5;8(8):e70760

(As Corresponding Author)

Tabassum R, Chauhan G, Dwivedi OP, Mahajan A, Jaiswal A, Kaur I, Bandesh K, Chidambaram M, Sharma A, Chavali S, Sengupta S, Ramakrishnan L,Venkatesh P, Aggarwal SK, Ghosh S, Prabhakaran D, Srinath RK Saxena M, Banerjee M, Mathur S, Bhansali A, Shah VN, Madhu SV, Marwaha RK, BASU A, Scaria V, McCarthy MI, DIAGRAM, INDICO, Venkatesan R, Mohan V, Tandon N, Bharadwaj D (2013) Genome wide association study for type 2 diabetes in Indians identifies a new susceptibility locus at 2q21. Diabetes 62(3):977-86

Majumdar A, Bhattacharya S, BASU A, Ghosh S (2013) A novel Bayesian semi-parametric algorithm for inferring population structure and adjusting for case-control association tests. Biometrics 69(1):164-73.

Paine SK, BASU A, Mondal LK, Sen A, Choudhuri S, Chowdhury IH, Saha A, Bhadhuri G, Mukherjee A, Bhattacharya B (2012) Association of  VEGF, TGFβ1 and IFN-γ gene polymorphism with proliferative diabetic retinopathy in type2 diabetic subjects. Molecular Vision 18:2749-57

Narayanasamya K, Chery L, BASU A, Duraisingh MT, Escalante A, Fowble J, Guler JL, Herricks T, Kumar A, Majumder PP, Maki J, Mascarenhas A, Rodrigues J, Roy B, Sen S, Shastri J, Smith J, Valecha N, White J, Rathod PK (2012) Malaria Evolution in South Asia: Knowledge for Control and Elimination. Acta Tropica 121: 256-266

Narang A, Jha P, Rawat V, Mukhopadhayay A, Dash D, BASU A*, Mukerji M (2011) Recent Admixture in an Indian Population of African Ancestry. American Journal of Human Genetics 89(1): 111 – 120. (As Corresponding Author)

Paine SK, Sen A, Choudhuri S, Mondal LK, Chowdhury IH, BASU A, Mukherjee A and Bhattacharya B (2011) Association of TNF-α, IL-6 and IL-10 promoter polymorphism with proliferative diabetic retinopathy in type2 diabetic subjects. Retina 32:1197-1203

Jha P, Kanchan K, Qidwai T, Pati SS, Mohanty S, Mishra SK, Sharma SK, Awasthi S, Venkatesh V, Jain S, BASU A, Shuhua X, IGVC, Mukerji M, Habib S (2011) Deletion of the APOBEC3B gene strongly impacts susceptibility to falciparum malaria. Infection, Genetics and Evolution 12:142-148.

Farheen S, BASU A, Majumder PP (2011) Haplotype variation in the ACE gene in global populations, with special reference to India, and an alternative model of evolution of haplotypes. The HUGO Journal  5:35-45

Zakharia F, BASU A, Absher D, Assimes T, Fortmann S, Go A, Hlatky M, Iribarren C, Knowles J, Li J, Narasimhan B, Olshen R, Sidney S, Southwick A, Myers R, Quertermous T, Risch N, Tang H (2009) Characterizing the Admixed African Ancestry of African Americans. Genome Biology 10(12):R141. Epub 2009 Dec 22.

Risch N, Choudhry S, Via M, BASU A, Sebro R, Eng C, Beckman K, Thyne S, Chapela R, Rodriguez-Santana JR, Rodriguez-Cintron W, Avila PC, Ziv E, Gonzalez Burchard E (2009) Ancestry-related assortative mating in Latino populations. Genome Biology 10(11): R132. Epub 2009 Nov 20.

Theusch E, BASU A, Gitschier J (2009) Genome-wide study of families with absolute pitch reveals linkage to 8q24.21 and locus heterogeneity. American Journal of Human Genetics 85(1):112-19.

BASU A*, Tang H, Lewis CE, North K, Curb DJ,  Quertermous T, Mosley TH, Boerwinkle E, Zhu X, Risch N (2009) Admixture Mapping of Quantitative Trait Loci for Blood Lipids in African Americans. Human Molecular Genetics 18(11):2091-98.  (As Corresponding Author)

BASU A, Tang H, Arnett D, Gu CC, Mosley TH, Kardia S, Luke A, Tayo B, Cooper R, Zhu X, Risch N (2009) Admixture Mapping of Quantitative Trait Loci for BMI in African Americans: Evidence for Loci on Chromosomes 3q, 5q and 15q. Obesity 17(6): 1226-31.

BASU A*, Tang H, Zhu X, Gu CC, Hanis C, Boerwinkle E, Risch N (2008) Genome-wide distribution of ancestry in Mexican Americans. Human Genetics 124(3):207-214. (As Corresponding Author)

Assimes TL, Knowles JW, BASU A, Iribarren C, Southwick A, Tang H, Absher D, Li J, Fair JM, Rubin GD, Sidney S, Fortmann SP, Go AS, Hlatky MA, Myers RM, Risch N, Quertermous T (2008) Susceptibility locus for clinical and subclinical coronary artery disease at chromosome 9p21 in the multi-ethnic ADVANCE study. Human Molecular Genetics 17(15):2320-28.

Assimes TL, Knowles JW, Priest JR, BASU A, Volcik KA, Southwick A, Tabor HK, Hartiala J, Allayee H, Grove ML, Tabibiazar R, Sidney S, Fortmann SP, Go A, Hlatky M, Iribarren C, Boerwinkle E, Myers R, Risch N, Quertermous T (2008) Common polymorphisms of ALOX5 and ALOX5AP and risk of coronary artery disease. Human Genetics 123(4):399-408.

Assimes TL, Knowles JW, Priest JR, BASU A, Borchert A, Volcik KA, Grove ML, Tabor HK, Southwick A, Tabibiazar R, Sidney S, Boerwinkle E, Go AS, Iribarren C, Hlatky MA, Fortmann SP, Myers RM, Kuhn H, Risch N, Quertermous T (2008) A near null variant of 12/15-LOX encoded by a novel SNP in ALOX15 and the risk of coronary artery disease. Atherosclerosis 198(1):136-44.

Chan TF, Poon A, BASU A, Addleman NR, Chen J, Phong A, Byers PH, Klein TE, Kwok PY (2008) Natural variation in four human collagen genes across an ethnically diverse population. Genomics 91(4):307-14.

BASU A, Chaudhuri P, Majumder PP. (2005) Identification of polymorphic motifs using probabilistic search algorithms. Genome Research 15(1):67-77

BASU A, Mukherjee N, Roy S, Sengupta S, Banerjee S, Chakraborty M, Dey B, Roy M, Roy B, Bhattacharyya NP, Roychoudhury S, Majumder PP (2003) Ethnic India: a genomic view, with special reference to peopling and structure. Genome Research 13(10):2277-90

BASU A, Majumder PP. (2003) A comparison of two popular statistical methods for estimating the time to most recent common ancestor (TMRCA) from a sample of DNA sequences. Journal of Genetics 82(1-2):7-12

Roychoudhury S, Roy S, BASU A, Banerjee R, Vishwanathan H, Usha Rani M, Sil SK, Mitra M and Majumder PP. (2001) Genomic structures and population histories of linguistically distinct tribal groups of India. Human Genetics 109(3): 339-50

Book Chapters

BASU A (2015) Admixture in Human Populations.
Encyclopedia of Biostatistics(print) AND Wiley StatsRef-Statistics Reference Online
Editors: N. Balakrishnan, P. Brandimarte, T. Colton, B. Everitt, G. Molenberghs, W. Piegorsch, F. Ruggeri and J. Teugels
 
BASU A (2015) Admixture Mapping Encyclopedia of Biostatistics(print) AND Wiley StatsRef-Statistics Reference Online
Editors: N. Balakrishnan, P. Brandimarte, T. Colton, B. Everitt, G. Molenberghs, W. Piegorsch, F. Ruggeri and J. Teugels

Majumder PP, BASU A (2014) A Genomic view of peopling and population structure of India Cold Spring Harb Perspect Biol.
Editor: Aravinda Chakravarti

BASU A, Majumder PP (2012) Genomic Diversity of Ethnic Populations of India.
Biological Diversity: Origin, Evolution and Conservation, page 299-313
Editors: AK Sharma, D Ray, SN Ghosh
 
BASU A, Majumder PP (2012) Population Genetics.
Textbook of Biochemistry, Biotechnology, Allied & Molecular Medicine
Editors: G. P. Talwar, Seyed E. Hasnain, Shiv K. Sarin
Prentice Hall of India