1. Laha S, Das S, Banerjee U, Ganguly T, Senapati S, Chatterjee G and Chatterjee R# "Genome-wide RNA-seq, DNA methylation and small RNA-seq analysis unraveled complex gene regulatory networks in Psoriasis pathogenesis" Gene 2024; 933 (2025) 148903. 

2. Das S, Karuri S, Chakraborty J, Basu B, Chandra A, Aravindan S, Chakraborty A, Paul D, Ray JG, Lechner M, Beck S, Teschendorff AE and Chatterjee R# "Universal Penalized Regression (Elastic-net) model with differentially methylated promoters for Oral cancer prediction" European Journal of Medical Research 2024; (In Press). 
3. Das S, Laha S, Roy C, Chatterjee P, Chandra A, Senapati S, Chatterjee G and Chatterjee R# "Circular RNA deregulation drives psoriasis pathogenesis via interfering with canonical microRNAs" Archives of Dermatological Research 2024; 316(7):442. 
4. Ganguly T, Laha S, Senapati S, Chatterjee G and Chatterjee R# "Serum miRNA profiling identified miRNAs associated with disease severity in psoriasis" Experimental Dermatology 2024; 33(1): e14973. 
5. Das S, Chandra A, Das A, Senapati S, Chatterjee G and Chatterjee R# " Identifying the genetic associations among the psoriasis patients in eastern India" Journal of Human Genetics 2024; 69: 205–213. 

6. Mazumder S, Basu B, Ray JG and Chatterjee R# "MiRNAs as non-invasive biomarkers in the serum of Oral Squamous Cell Carcinoma (OSCC) and Oral Potentially Malignant Disorder (OPMD) patients" Archives of Oral Biology 2023; 147: 105627. 
7. Ghosh D, Ganguly T and Chatterjee R# "Emerging roles of non-coding RNAs in psoriasis pathogenesis" Functional & Integrative Genomics 2023; 23(2): 129 .  
8. Pal P, Roy S, Chowdhury A, Chatterjee R, Ray K, Ray J "Parkinson’s Disease-associated 18 bp Promoter Variant of DJ-1 Alters REST Binding and Regulates its Expression" Neuroscience Letters 2023; 795: 137051. 

9. Chakraborty J and Chatterjee R# "Comparative genomics analysis of statistically significant genomic islands of Helicobacter pylori strains for better understanding the disease prognosis" Biosci Rep (2022) 42 (3): BSR20212084. 
10. Sarkar S, Das, S, Choudhury K, Mukherjee S and Chatterjee R# "Seroprevalence and dynamics of anti-SARS-CoV-2 antibody among healthcare workers following ChAdOx1 nCoV-19 vaccination" Epidemiology and Infection 2022; 150, e83, 1–9. 
11. Chakraborty J, Roy RP, Chatterjee R# and Chaudhuri P "Performance Assessment of Genomic Island Prediction Tools with an Improved Version of Design-Island". Computational Biology and Chemistry 2022 (In press). 
12. Pal A, Chaturvedi A Chandra A, Chatterjee R, Senapati S, Frangi AF and Garain U "MICaps: Multi-instance capsule network for machine inspection of Munro's microabscess" Computers in Biology and Medicine 2022; 140: 105071. 
13. Saha D, Chowdhury PK, Panja A, Pal D, Nayek K, Chakraborty G, Sharma P, Das R, Basu S, Chatterjee R and Basu A "Effect of deletions in the α-globin gene on the phenotype severity of β-thalassemia" Hemoglobin 2022; 46(2): 118-123. 

14. Chandra A, Das S, Mazumder S, Senapati S, Chatterjee G and Chatterjee R# "Functional Mapping of Genetic Interactions between Human Leukocyte Antigen (HLA)-Cw6 and Late Cornified Envelope 3A in Psoriasis" Journal of Investigative Dermatology 2021; 141(11): 2630-2638.  
15. Laha S and Chatterjee R# "Temporal variations in country-specific mutational profiles of SARS-CoV-2: effect on vaccine efficacy" Future Virology 2021; 16(12): 805-819. 
16. Roy S, Ghosh S, Banerjee M, Laha S, Bhattacharjee D, Sarkar R, Ray S, Banerjee A, Ghosh R, Halder A, Ghosh A, Chatterjee R, Datta S, Dhali GK and Banerjee S "A combination of circulating microRNA-375-3p and chemokines CCL11, CXCL12, and G-CSF differentiate Crohn’s disease and intestinal tuberculosis" Scientifc Reports 2021; 11:23303. 
17. Sarkar P, Malik S, Laha S, Das S, Bunk S, Ray JG, Chatterjee R, Saha A "Dysbiosis of Oral Microbiota during Oral Squamous Cell Carcinoma Development" Front. Oncol. - Head and Neck Cancer 2021; 11(614448). 
18. Laha S, Saha, C, Dutta S, Basu M, Chatterjee R, Ghosh S, Bhattacharyya NP "In silico analysis of altered expression of long non-coding RNA in SARS-CoV-2 infected cells and their possible regulation by STAT1, STAT3 and interferon regulatory factors" Heliyon 2021, 7(3) (e06395). 
19. Saha C, Laha S, Chatterjee R and Bhattacharyya NP "Co-Regulation of Protein Coding Genes by Transcription Factor and Long Non-Coding RNA in SARS-CoV-2 Infected Cells: An In Silico Analysis" Non-coding RNA 2021; 7(4):74. 
20. Kirtania R, Banerjee S, Laha S, Shankar BU, Chatterjee R, Mitra S "DeepSGP: Deep Learning for Gene Selection and Survival Group Prediction in Glioblastoma" Electronics 2021, 10(12), 1463.  
21. Behera A, Chatterjee G, Chandra A and Chatterjee R "Association of Human Leukocyte Antigen-Cw6 (HLA-Cw6) in Psoriasis Patients with Disease Severity and Morphological Patterns: A Cross-sectional Study in a Tertiary Care Referral Centre in Eastern India" Journal of Clinical & Diagnostic Research, 2021; 15(8):1-3. 
22. Chanda K, Laha S, Chatterjee R, Mukhopadhyay D "Amyloid precursor protein intra-cellular domain (AICD), Aβ and their confounding synergistic effects differentially regulate the degradome of cellular models of Alzheimer's disease" Gene reports 2021; 23(101082). 

23. Laha S, Chakraborty J, Das S, Manna SK, Biswas S and Chatterjee R# "Characterizations of SARS-CoV-2 mutational profile, spike protein stability and viral transmission" Infection, Genetics and Evolution 2020;  
24. Ghosh S, Chakraborty J, Goswami A, Bhowmik S, Roy S, Ghosh A, Dokania S, Kumari P, Datta S, Chowdhury A, Bhattacharyya SN, Chatterjee R and Banerjee S "A novel microRNA boosts hyper-β-oxidation of fatty acids in liver by impeding CEP350-mediated sequestration of PPARα and thus restricts chronic hepatitis C" RNA Biology 2020;  
25. Ghosh S, Bhowmik S, Majumdar S, Goswami A, Chakraborty J, Gupta S, Aggarwal S, Ray S, Chatterjee R, Bhattacharyya SN, Dutta M, Datta S, Chowdhury A, Dhali GK and Banerjee S "The Exosome Encapsulated microRNAs as Circulating Diagnostic Marker for Hepatocellular Carcinoma with Low Alpha fetoprotein" International Journal of Cancer 2020;  
26. Banerjee D, Chaudhuri RD, Niyogi S, Roy Chowdhuri S, Poddar Sarkar M, Chatterjee R, Chakrabarti P and Sarkar S "Metabolic impairment in response to early induction of C/EBPβ leads to compromised cardiac function during pathological hypertrophy" Journal of Molecular and Cellular Cardiology 2020; 139:148-163.  

27. Datta A, Das P, Dey S, Ghuwalewala S, Ghatak D, Alam SK, Chatterjee R# and Roychoudhury S# (#corresponding authors) "Genome-Wide Small RNA Sequencing Identifies MicroRNAs Deregulated in Non-Small Cell Lung Carcinoma Harboring Gain-of-Function Mutant p53" Genes 2019; 10: 852.  
28. Majumder S, Dutta S, Roy JG, Chaudhuri K and Chatterjee R# "Liquid biopsy: miRNA as a potential biomarker in oral cancer" Cancer Epidemiology 2019; 58:137-145.  
29. Chatterjee R#, Das S, Chandra A and Basu B, "Epigenome-wide DNA methylation profiles in oral cancer" in the 'Computational Epigenetics and Diseases', Elsevier, edited by Loo Keat Wei & in the series TRANSLATIONAL EPIGENETICS edited by Trygve Tollefsbol, 2019; volume 9: 219-231 (doi: 10.1016/B978-0-12-814513-5.00014-3).  
30. Chen Y, Manna SK, Golla S, Krausz KW, Cai Y, Garcia-Milian R, Chakraborty T, Chakraborty J, Chatterjee R, Thompson DC, Gonzalez FJ and Vasillou V "Glutathione deficiency-elicited reprogramming of hepatic metabolism protects against alcohol-induced steatosis" Free Radical Biology and Medicine 2019; 143: 127-139.  
31. Ray JG, Chatterjee R and Chaudhuri K “Oral Submucous Fibrosis: a global challenge. Rising incidence; risk factors; management and research priorities.” Periodontology 2000, 2019; 80(1):200-212  
32. Das S, Majumder PP, Chatterjee R, Chatterjee A and Mukhopadhyay M "A powerful method to integrate genotype and gene expression data for dissecting the genetic architecture of a disease" Genomics 2019;111(6):1387-1394.  
33. Kumar P, Chakraborty J, Sukumar G, Dalgard C, Chatterjee R, and Biswas R "Comparative RNA-seq analysis reveals dys-regulation of major canonical pathways in ERG-inducible LNCaP cell progression model of prostate cancer" Oncotarget 2019; 10:4290-4306.  

34. Chandra A, Senapati S, Roy S, Chatterjee G and Chatterjee R# "Epigenome-wide DNA methylation regulates cardinal pathological features of psoriasis" Clinical Epigenetics 2018; 10:108.  
35. Gallagher PS, Larkin M, Thillainadesan G, Dhakshnamoorthy J, Balachandran V, Xiao H, Wellman C, Chatterjee R, Wheeler D and Grewal SIS "Iron homeostasis regulates facultative heterochromatin assembly in adaptive genome control" Nature Structural & Molecular Biology 2018; 25:372–383. 
36. Chanda K, Das S, Chakraborty J, Bucha S, Maitra A, Chatterjee R, Mukhopadhyay D, and Bhattacharyya NP "Altered Expression of Long Non-Coding RNAs Meg3 and Neat1 in Cell and Animal models of Huntington’s Disease" RNA Biology 2018;15(10):1348-1363.  
37. Pal A, Chaturvedi A, Garain U, Chandra A, Chatterjee R and Senapati S. (2018) "Severity Assessment of Psoriatic Plaques Using Deep CNN Based Ordinal Classification". In: Stoyanov D. et al. (eds) OR 2.0 Context-Aware Operating Theaters, Computer Assisted Robotic Endoscopy, Clinical Image-Based Procedures, and Skin Image Analysis. CARE 2018, CLIP 2018, OR 2.0 2018, ISIC 2018. Lecture Notes in Computer Science, vol 11041. Springer, Cham [DOI: https://doi.org/10.1007/978-3-030-01201-4_27]  
38. Pal A, Garain U, Chandra A, Chatterjee R, Senapati S "Psoriasis skin biopsy image segmentation using deep convolutional neural network" Computer Methods and Programs in Biomedicine 2018; 159:59-69.  
39. Pal A, Chaturvedi A, Garain U, Chandra A, Chatterjee R and Senapati S. (2018) "CapsDeMM: Capsule Network for Detection of Munro’s Microabscess in Skin Biopsy Images". In: Frangi A.F., Schnabel J.A., Davatzikos C., Alberola-López C., Fichtinger G. (eds) Medical Image Computing and Computer Assisted Intervention – MICCAI 2018. MICCAI 2018. Lecture Notes in Computer Science, vol 11071. Springer, Cham. [DOI: https://doi.org/10.1007/978-3-030-00934-2_44]  

40. Basu B, Chakraborty J, Chandra A, Katarkar A, Baldevbhai JRK, Dhar Chowdhury D, Ray JG, Chaudhuri K and Chatterjee R# "Genome-wide DNA methylation profile identified a unique set of differentially methylated immune genes in Oral Squamous cell carcinoma patients of India" Clinical Epigenetics, 2017; 9(1):13. 
41. Das A, Chandra A, Chakraborty J, Chattopadhyay A, Senapati S, Chatterjee G and Chatterjee R# "Associations of ERAP1 coding variants and domain specific interaction with HLA-C*06 in the early onset psoriasis patients of India" Human Immunology, 2017; 78(11–12): 724-730.  
42. Chandra A, Senapati S, Ghosh S, Chatterjee G and Chatterjee R# "Association of IL12B risk haplotype and lack of interaction with HLA-Cw6 among the psoriasis patients in India" Journal of Human Genetics, 2017; 62: 389-395. 
43. Datta A, Ghatak D, Das S, Banerjee T, Paul A, Butti R, Gorain M, Ghuwalewala S, Roychowdhury A, Alam SK Kayum, Das P, Chatterjee R, Dasgupta M, Panda C, Kundu G, and Roychoudhury S "p53 gain-of-function mutations increase Cdc7-dependent replication initiation" EMBO Reports, 2017; 18: 2030-2050. 
44. De Mandal S, Chatterjee R and Senthil Kumar S "Dominant Bacterial phyla in Caves and their predicted functional roles in C and N cycle." BMC Microbiology, 2017; 17(1):90. 

45. Chandra A, Lahiri A, Senapati S, Basu B, Ghosh S, Mukhopadhyay I, Behra A, Sarkar S, Chatterjee G and Chatterjee R# "Increased Risk of Psoriasis due to combined effect of HLA-Cw6 and LCE3 risk alleles in Indian population" Scientific Reports, 2016; 6:24059.  
46. Das A, Chandra A, Lahiri A, Dutta S, Senapati S and Chatterjee R# "Genetics of psoriasis." eLS. John Wiley & Sons, Ltd: Chichester 2016; 1-9. 
47. Ghosh A, Ghosh A, Datta S, Dasgupta D, Das S, Ray S, Gupta S, Datta S, Chowdhury A, Chatterjee R, Mohapatra SK and Banerjee S "Hepatic miR-126 is a Potential Plasma Biomarker for Detection of Hepatitis B Virus Infected Hepatocellular Carcinoma" International Journal of Cancer, 2016; 138(11): 2732-2744. 
48. Pal A, Chaturvedi A, Garain U, Chandra A, Chatterjee R "Severity Grading of Psoriatic Plaques using Deep CNN based Multi-task Learning," in 23rd International Conference on Pattern Recognition, 2016. 

49. Chandra A, Ray A, Senapati S and Chatterjee R# "Genetic and epigenetic basis of Psoriasis pathogenesis" Molecular Immunology , 2015; 64(2): 313-323.  
50. Pal A, Roy A, Sen K, Chatterjee R, Garain U, and Senapati S "Mixture model based color clustering for psoriatic plaque segmentation," in Proc. 3rd Asian Conf. on Pattern Recognition (ACPR), pages. 376-380, 2015. 
51. Pal A, Garain U, Chatterjee R, and Senapati S "Psoriatic Plaque Segmentation in Skin Images," in Proc. 5th National Conference on Computer Vision, Pattern Recognition, Image Processing and Graphics (NCVPRIPG), IEEE CS Press, pages 1-4, 2015.  
2014 
52. Chatterjee R, He X, Di H, Fitzgerald P, Smith A, and Vinson C "High Resolution Genome-wide DNA Methylation Maps of Mouse Primary Female Dermal Fibroblasts and Keratinocytes" Epigenetics & Chromatin, 2014; 7(1): 35.  
53. He X*, Chatterjee R*, Smith A, Fitzgerald P and Vinson C "Nucleosomes are enriched at the boundaries of hypomethylated regions (HMRs) in mouse dermal fibroblasts and keratinocytes" Epigenetics & Chromatin, 2014; 7(1): 34.  
54. Dutta A*, Chatterjee R* and Chaudhuri K "Computational Prediction of Caenorhabditis elegans and Caenorhabditis briggsae miRNAs by modified miRsearch" Frontiers in Bioscience (Landmark edition), 2014; 19:504-514.  
55. Gao R*, Das B*, Chatterjee R, Abaan O, Agama K, Matuo R, Vinson C, Meltzer, P and Pommier Y "Epigenetic and genetic inactivation of tyrosyl-DNA-phosphodiesterase 1 (TDP1) in human lung cancer cells" DNA Repair , 2014; 13: 1-9.  
56. Chowdhury R, Karak P, Sen AK, Chatterjee R and Chaudhuri K "Arsenic Extrusion and Energy Derivation as Survival Mechanism in a Novel Exiguobacterium Isolated from Arsenic Contaminated Groundwater of West Bengal" AIJRFANS , 2014; 7(1): 19-27. 

57. Mann I*, Chatterjee R*, Zhao J*, He X, Hughes, TR and Vinson C "The C/EBPb|ATF4 heterodimer binds a novel methylated motif (CGATGCAA) both in vitro and in vivo" Genome Research, 2013; 23(6): 988-997.  
58. He X, Chatterjee R, John S, Bravo H, Sathyanarayana BK, Biddie S, FitzGerald P, Stamatoyannopoulos JA, Haigher GL and Vinson C "Contribution of nucleosome binding preferences and co-occurring DNA sequences to transcription factor binding" BMC Genomics, 2013; 14(1): 428.  
59. Rozenberg JM, Bhattacharya P, Chatterjee R, Glass K and Vinson C "Combinatorial recruitment of CREB, C/EBPb and cJun determines activation of promoters upon keratinocyte differentiation" Plos One, 2013; 11: e78179.  

60. Chatterjee R, Zhao J, He X, Shlyakhtenko A, Mann I, Waterfall J, Meltzer P, Sathyanarayana BK, FitzGerald P and Vinson C "Overlapping ETS and CRE motifs (G/CCGGAAGTGACGTCA) preferentially bound by GABP? and CREB proteins" G3: Genes, Genomes, Genetics, 2012; 2 (10): 1243-1256.  
61. Vinson C and Chatterjee R "CG methylation" Epigenomics, 2012; 4(6): 655-663.  
62. Chatterjee R and Vinson C "An activating function for CpG methylation: recruits sequence specific transcription factors essential for tissue specific gene expression" BBA - Gene Regulatory Mechanisms, 2012; 1819(7): 763-770.  
63. Rios-Doria E, Chatterjee R, Zhao J, Rishi V and Vinson C "Ubiquitin Tagged Dominant Negative Induces Degradation of B-ZIP Proteins" Biochemical and Biophysical Research Communications, 2012; 424(3): 624-628.  
64. Chattopadhyay S, Patra R, Chatterjee R, De R, Ramamurthy T, Chowdhury A, Nair G.B. and Mukhopadhyay AK "Analysis of the 3' end of cagA of Helicobacter pylori in India: Evidence for the evolution of this diverse human gastric pathogen" Gut Pathogens, 2012; 4:4 (doi:10.1186/1757-4749-4-4).  

65. Bell D, Sikdar N, Lee K, Price J, Chaterjee R, Park H, Ishiai M, Elliott G, Elkahloun A, Saribasak H, Sood R, Geahart P, Vinson C, Takata M, Lim D, and Myung K "Genetic and functional defects of mammalian ATAD5 (ELG1) predispose to tumor development." Plos Genetics, 2011; 7(8): e1002245.  
66. Chatterjee R, Bhattacharya P, Gavrilova O, Glass K, Moitra J, Myakishev M, Pack S, Jou W, Feigenbaum L, Eckhaus M, and Vinson C "Suppression of the C/EBP family of transcription factors in adipose tissue causes lipodystrophy" J Molecular Endocrinology, 2011; 46(3): 175-192.  
67. Chatterjee R, Ghosa, A, Sabui S, Das S and Chatterjee NS "Three dimensional modelling of C-terminal loop of CssA subunit in CS6 of enterotoxigenic Escherichia coli and its interaction with the 70KDa domain of Fibronectin" Bioinformation, 2011; 6(8): 307-310.  
68. Vinson C, Chatterjee R and Fitzgerald P "Transcription factor binding sites and other features in human and drosophila proximal promoters." (2011) In Timothy R. Hughes (Ed.), "A Handbook of Transcription Factors" Subcellular Biochemistry (Springer) (ISBN: 978-90-481-9068-3).  
69. Dutta A, Kundu J, Chatterjee R and Chaudhuri K "In-silico comparative study of the Genomic Islands of Vibrio cholerae MJ1236 with those of Classical and El Tor N16961 strains of Vibrio cholera" FEMS Microbiol Lett, 2011; 321(1): 75-81. 

70. Rishi V*, Bhattacharya P*, Chatterjee R*, Rozenberg J*, Zhao J*, Glass K, Fitzgerald P and Vinson C "CpG methylation of half-CRE Methyl sequences creates C/EBP? binding sites that activate some tissue-specific genes" Proceedings of the National Academy of Sciences, USA, 2010; 107(47): 20311-20316.  
71. Chowdhury R, Chatterjee R, Giri A, Mandal C and Chaudhuri K "Arsenic induced cell proliferation is associated with enhanced ROS generation, Erk signaling and Cyclin A expression" Toxicology Letters, 2010; 198(2): 263-271.  
72. De S, Ghosh S, Chatterjee R, Chen Y-Q, Moses L, Kesari A, Hoffman EP, and Dutta SK "PCB congener specific oxidative stress response by Microarray analysis using human liver cell line" Environment International, 2010; 36(8): 907-917.  
73. Dutta A, Chatterjee R, Roy Choudhury P, Roy P and Chaudhuri K. "In-Silico identification of putative P53 transcription factor DNA-binding sites and detection of hnRNP genes regulated by P53" The IUP Journal of Biotechnology, 2010; 4(2): 7-19.  
2009 
74. Chowdhury R, Sen AK, Karak P, Chatterjee R, Giri AK and Chaudhuri K "Isolation and characterization of an arsenic-resistant bacterium from a bore-well in West Bengal, India." Annals in Microbiology, 2009; 59(2): 253-258.  

75. Chatterjee R, Chaudhuri K and Chaudhuri P "On detection and assessment of statistical significance of Genomic Islands." BMC Genomics, 2008; 9: 150.  
76. Chatterjee R, Nag S and Chaudhuri K. "Identification of a new RTX gene cluster in Vibrio cholerae" FEMS Microbiol Lett, 2008; 284: 165-171.  

77. Chatterjee R and Chaudhuri K "Molecular Evolution of archaeal CRISPRs and Cas (CRISPR associated) genes." Online Journal of Bioinformatics, 2007; 8(2): 189-204.  
78. Chaudhuri K, Chatterjee R "MicroRNA detection and Target prediction: Integration of computational and experimental approaches." DNA and Cell Biol, 2007; 26(5): 321-337.  

79. Chatterjee R and Chaudhuri K "An approach for the identification of microRNA with an application to Anopheles gambiae." Acta Biochimica Polonica, 2006; 53(2): 303-309.  
80. Nag S, Chatterjee R, Chaudhuri K and Chaudhuri P "Unsupervised statistical identification of genomic islands using oligonucleotide distributions with an application to Vibrio genomes." Sadhana, 2006; 31(2): 105-115.