Publications
Doctoral thesis
Thesis title: In-silico studies of microRNAs regulation in higher eukaryotes from the perspective of molecular evolution.
Topics of Reasearch: Bioinformatics, Molecular Evolution, MicroRNAs, Human Diseases, Epigenetics.
Supervisor: Prof. T.C. Ghosh
Work place: Bose Institute (J.C. Bose Institute), Kolkata, India
University: Maulana Abul Kalam Azad University of Technology (formerly known as West Bengal University of Technology), West Bengal, India.
Manuscript submitted/in preparation
Volpe, M., Miralto, M., & Das, J. methylRv2: An EPICv2 user interface solution to DNA methylation array data analysis. 2024 (in preparation)
Volpe, M., Miralto, M., & Das, J TranscriptR: GUI for transcriptome data analysis. 2024 (in preparation)
Published in peer-reviewed journals
2024
2023
Braian, C., Karlsson, L., Das, J., & Lerm, M. Selected β-Glucans Act as Immune-Training Agents by Improving Anti-Mycobacterial Activity in Human Macrophages: A Pilot Study. J Innate Immun (2023) 15 (1): 751–764.
Link to the publication: PDF
Lundquist, H., Andersson, H., Chew, M. S., Das, J., Turkina, M. V., & Welin, A. The Olfactomedin-4-Defined Human Neutrophil Subsets Differ in Proteomic Profile in Healthy Individuals and Patients with Septic Shock. J Innate Immun (2023) 15 (1): 351–364.
Link to the publication: PDF
Lundquist, H., Andersson, H., Chew, M. S., Das, J., Turkina, M. V., & Welin, A. miRNome and Proteome Profiling of Human Keratinocytes and Adipose Derived Stem Cells Proposed miRNA-Mediated Regulations of Epidermal Growth Factor and Interleukin 1-Alpha. Int. J. Mol. Sci. 2023, 24(5), 4956.
Link to the publication: PDF Link to the publication: ePub
Verma, D., Kasic, N.‐K., Jeppsson, F., Eding, C. B., Lysiak, M., Fekri, S. Z., Das, J., & Enerback, C. Differential DNA Methylation of MicroRNA-Encoding Genes in Psoriatic Epidermis Highlights the Wnt Pathway. Journal of Investigative Dermatology, 143(5), S140.
Link to the publication
2022
Das J, Idh N, Sikkeland LI, Paues J, Lerm M. DNA methylome-based validation of induced sputum as an effective protocol to study lung immunity: construction of a classifier of pulmonary cell types. Epigenetics. 2022 Aug 3;17(8):882-93.
Link to the publication
Huoman J, Sayyab S, Apostolou E, Karlsson L, Porcile L, Rizwan M, Sharma S, Das J, Rosén A, Lerm M. Epigenetic rewiring of pathways related to odour perception in immune cells exposed to SARS-CoV-2 in vivo and in vitro. Epigenetics. 2022 Jun 26:1-7.
Link to the publication: PDF
Link to the publication: ePub
Łysiak M, Das J, Malmström A, Söderkvist P. Methylation associated with long- or short-term survival in glioblastoma patients from the Nordic phase 3 trial. Front Genet. 2022 Aug 25;13:934519.
Link to the publication: PDF
Link to the publication: ePub
2021
Karlsson L, Das J, Nilsson M, Tyrén A, Pehrson I, Idh N, Sayyab S, Paues J, Ugarte-Gil C, Méndez-Aranda M, Lerm M. A differential DNA methylome signature of pulmonary immune cells from individuals converting to latent tuberculosis infection. Scientific Reports. 2021 Sep 30;11(1):1-3.
Link to the publication
Kalsum S, Andersson B, Das J, Schön T, Lerm M. A high-throughput screening assay based on automated microscopy for monitoring antibiotic susceptibility of Mycobacterium tuberculosis phenotypes. BMC Microbiology. 2021 Dec;21(1):1-4.
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2019
Das J, Verma D, Gustafsson M, Lerm M. Identification of DNA methylation patterns predisposing for an efficient response to BCG vaccination in healthy BCG-naïve subjects. Epigenetics. 2019 Jun 3;14(6):589-601.
Link to the publication: PDF
Link to the publication: ePub
2018
Sen K, Bhattacharyya D, Sarkar A, Das J, Maji N, Basu M, Ghosh Z, Ghosh TC. Exploring the major cross-talking edges of competitive endogenous RNA networks in human Chronic and Acute Myeloid Leukemia. Biochimica et Biophysica Acta (BBA)-General Subjects. 2018 Sep 1;1862(9):1883-92.
Link to the publication
2014
Das, J., Podder, S., & Ghosh, T. C. (2014). Insights into the miRNA regulations in human disease genes. BMC genomics, 15(1), 1-7.
Link to the publication
2013
Das, J., Chakraborty, S., Podder, S., Ghosh, T.C., 2013. Complex-forming proteins escape the robust regulations of miRNA in human. FEBS letters 587, 2284–2287.
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2011
Gupta, S., Kumari, K., Das, J., Lata, C., Puranik, S., & Prasad, M. (2011). Development and utilization of novel intron length polymorphic markers in foxtail millet (Setaria italica (L.) P. Beauv.). Genome, 54(7), 586-602.
Link to the publication
BioRxiv/MedRxiv publication
Das J, Idh N, Pehrson I, Paues J, Lerm M. A DNA methylome biosignature in alveolar macrophages from TB-exposed individuals predicts exposure to mycobacteria. medrxiv. 2021 Jan 1.
Link to the publication
Pehrson I, Das J, Idh N, Karlsson L, Rylander H, af Segerstad HH, Reuterswärd E, Marttala E, Paues J, Méndez-Aranda M, Ugarte-Gil C. DNA methylomes derived from alveolar macrophages display distinct patterns in latent tuberculosis-implication for interferon gamma release assay status determination. MedRxiv. 2021 Jan 1.
Link to the publication
Huoman J, Sayyab S, Apostolou E, Karlsson L, Porcile L, Rizwan M, Sharma S, Das J, Rosen A, Lerm M. Mild SARS-CoV-2 infection modifies DNA methylation of peripheral blood mononuclear cells from COVID-19 convalescents. medRxiv. 2021 Jan 1.
Link to the publication
Pehrson I, Braian C, Karlsson L, Idh N, Danielsson EK, Andersson B, Paues J, Das J, Lerm M. DNA methylation profiling of immune cells from tuberculosis-exposed individuals overlaps with BCG-induced epigenetic changes and correlates with the emergence of anti-mycobacterial’corralling cells’. medRxiv. 2021 Jan 1.
Link to the publication
Lundquist H, Andersson H, Chew MS, Das J, Turkina MV, Welin A. The Olfm4-defined human neutrophil subsets differ in proteomic profile in septic shock. bioRxiv. 2022 Jan 1.
Link to the publication
Conference Abstract/Papers
- Shahin, H., Abdallah, S., Das, J., Steinvall, I., Sjöberg, F., Elmasry, M., & El‐Serafi, A. T. (2023). Mirnome and pro‐ teome profiling of human keratinocytes and adipose‐derived stem cells proposed mirna‐mediated regulations pertaining to stem cell differentiation and wound healing. Journal of Plastic, Reconstructive & Aesthetic Surgery, 87, S18–S19. https://doi.org/10.1016/j.bjps.2023.10.040. Abstracts from the 11th EURAPS Research Council Meeting in Stockholm, May 2023.
- D Verma, N Kasic, F Jeppsson, C Eding, M Lysiak, S Fekri, J Das and C Enerbäck. (2023). Altered methylation of microRNA in the psoriatic epidermis highlights the Wnt pathway. Journal of Investigative Dermatology, 143(5), S140.https://doi.org/10.1016/j.jid.2023.03.825. Abstracts from 1st International Societies for Investigative Dermatology Meeting, 10 May 2023–13 May 2023, Tokyo, Japan.
- D Verma, N Kasic, F Jeppsson, C Eding, M Lysiak, S Fekri, J Das and C Enerbäck. (2022). Differential DNA Methylation of microRNA-encoding Genes in Psoriatic Epidermis Highlights the Wnt Pathway. Journal of Investigative Dermatology, 142(12), S229.https://doi.org/10.1016/j.jid.2022.09.297. Abstracts from ESDR 2022 Meeting Abstract Supplement 28 September 2022 - 01 October 2022.
- Lysiak, M., Das, J., Soderkvist, P., & Malmstrom, A. (2022). Methylome analysis of short versus long‐term GBM survivors from the nordic randomised, phase 3 trial. Brain Tumor Res Treat, 10(Suppl). https://doi.org/10.14791/btrt.2022.10.F-1329. E-poster for World Federation of Neuro-oncology Societies (WFNOS 2022) March 24-27, 2022.
Patents
Lerm, M., & Das, J. (2022). Biomarker for detection of mycobacterial exposure and infection. WO Patent WO2022169394A1.
Lerm, M., Das, J., & Sayyab, S. (2022). Method for determining sars‐cov‐2 exposure with or without remaining symptoms. WO Patent WO2022119495A1.