Publications

2026

• N N, Ali AM, K P S, Mehto S, Antony C., 2026. Modulation of macrophage survival during Klebsiella pneumoniae infections. Front Cell Infect Microbiol.

• Buchholz, F., Upterworth, L.M., Tüffers, L., Groth, E., Haas, K., Schütz, D., Savietto-Scholz, A., Batra, A., Kirchoff, L., Dubey, B.N., Kalsdorf, B., Rabe, K., Lange, C., Sondermann, H., Rupp, J., Bramkamp, M., Roemhild, R., Schulenburg, H., 2026. Antibiotic-induced negative hysteresis is a widespread envelope stress response in Gram-negative bacteria. Nature Communications (In press).

• Das, S., Naik, Y., Mishra, U., Ganguly, M., Dubey, B.N., Jana, S., Mahanta, N., 2026. Dimerization of MilM Is Essential for Catalyzing Pyridoxal-5′-Phosphate (PLP)–Dependent Cγ-Hydroxylation of L-Arginine During Mildiomycin Biosynthesis. ACS Catalysis (Under consideration).

• Das, S., Naik, Y., Mishra, U., Ganguly, M., Dubey, B.N., Jana, S., Mahanta, N., 2026. Dimerization of MilM is essential for catalyzing the pyridoxal-5′-phosphate (PLP)–dependent Cγ-hydroxylation of L-arginine during mildiomycin biosynthesis. bioRxiv.

• Dubey, B.N., Rezaei Adariani, S., Gremer, L., Dvorsky, R., Nie, Y., Amin, E., Moll, J.M., Zhang, S., Smits, S.H.J., Graewert, M.A., Willbold, D., Groth, G., Nagel, L., Pospich, S., Ahmadian, M.R., 2026. Structural and functional insights into the p160 Rho-associated coiled-coil-containing protein kinase ROCK. Nature Communications (Under consideration).

• Singh, A.K., Chaube, B., Citrin, K.M., Fowler, J., Lee, S., Catarino, J., Knight, J., Lowery, S.C., Shree, S., Mahoney, K.E., Boutagy, N.E., Ruz-Maldonado, I., Harry, K., Shanabrough, M., Ross, T.T., Malaker, S.A., Suárez, S., Fernández-Hernando, C., Grabińska, K.A., Sessa, W.C., 2026. Impaired glycosylation promotes rapid transition to hepatocellular carcinoma in model of diet induced steatotic liver disease. Journal of Clinical Investigation (Accepted).

2025

• Bhandari, N., Acharya, D., Chatterjee, A., Yelshetti, S., Bhat, B., Chaube, B., Shukla, S., 2025. MRPL47 Deficiency Drives Mitochondrial Dysfunction via ROS/p38-MAPK/CDKN1A Signaling in Non-Small Cell Lung Cancer. bioRxiv.

• Bhandari, N., Devi, Y.G., Acharya, D., Bhat, V., Chatterjee, A., Yalshetti, S., Arandkar, S., Chaube, B.K., Shukla, S., 2025. MRPL47 Deficiency Drives Mitochondrial Dysfunction via ROS-p38-p21 Signaling in Non-Small Cell Lung Cancer. Journal of Biological Chemistry 111058.

• Bhat, P.P., Mehto, S., 2025. Molecular Diagnosis of Human Immunodeficiency Virus (HIV) Infection. In: Molecular Diagnostics for Viral Diseases, 109-125.

• Chatterjee, A., Acharya, D., Bhandari, N., Bhat, P., Chaube, B., Shukla, S., 2025. TGF Beta Regulated Small GTPase RHOV interact with PEAK1 and drive MYC Expression to Promote Cellular Proliferation, Migration and Etoposide resistance. bioRxiv.

• Dhar, K., Jena, K.K., Mehto, S., Sahu, R., Murmu, K.C., Mahajan, A.A., Behera, S., 2025. Programmed cell revival from imminent cell death enhances tissue repair and regeneration. The EMBO Journal, 1-46.

• Konthoujam, B., Bhandari, N., Ghagane, S.C., Nerli, R.B., Shukla, S., Ghosh, R., 2025. Rapid, Label-Free Detection of PSA using Graphene based Resistive Sensor. IEEE Sensors 25 (16).

• Levesque, M.V., Cartier, A., Lin, Y.C., Sah, R.K., Zhang, H., Chaube, B., Bhaumik, M., Körbelin, J., Suárez, Y., Fernández-Hernando, C., Hla, T., 2025. Inflamed endothelial cells express S1PR1 inhibitor CD69 to induce vascular leak. Journal of Biological Chemistry 110455.

• Malvankar, S., Jaiswal, P., Bhat, P.P., Mehto, S., 2025. Regulation of cancer by inflammasomes: from inflammation to tumorigenesis. Frontiers in Immunology.

2024

• Acharya, D., Chatterjee, A., Bhandari, N., Roy, P., Agrawal, M., Chaube, B.K., Shukla, S., 2024. GJB3, a gap junction gene, supports cell growth by mediating cystine uptake and regulating cellular stress pathways in SLC7A11 low adenocarcinomas. bioRxiv.

• Bagewadi, Z.K., et al., Singh, S.P., Karlo, J., Khan, A., 2024. Molecular expression, purification and structural characterization of recombinant L-Glutaminase from Streptomyces roseolus. International Journal of Biological Macromolecules 273, 133142.

• Boutagy, N.E., Gamez-Mendez, A., Fowler, J.W., Zhang, H., Chaube, B., Esplugues, E., Lee, S., Horikami, D., Zhang, J., Citrin, K.M., Singh, A.K., Coon, B.G., Suarez, Y., Fernandez-Hernando, C., Sessa, W.C., 2024. Dynamic metabolism of endothelial triglycerides protects against atherosclerosis in mice. Journal of Clinical Investigation e170453.

• Citrin, K.M., Chaube, B., Fernández-Hernando, C., Suárez, Y., 2024. Intracellular Endothelial metabolism in vascular functions and dysfunction. Trends in Endocrinology and Metabolism S1043-2760(24)00296-0.

• Haeuser, E., et al., Mehto, S., 2024. Global, regional, and national trends in routine childhood vaccination coverage from 1980 to 2023 with forecasts to 2030: a systematic analysis for the Global Burden of Disease Study 2023. The Lancet 406 (10500), 235-260.

• Karlo, J., Carrasco-Navarro, V., Koistinen, A., Singh, S.P., 2024. Tracking trash to treasure: in situ monitoring of single microbial cell oil biosynthesis from waste cooking oil using Raman spectroscopy and imaging. RSC advances 14 (45), 33323-33331.

• Karlo, J., Dhillon, A.K., Razi, S.S., Siddhanta, S., Singh, S.P., 2024. Imaging Based Raman Spectroscopy. In: Raman Spectroscopy: Advances and Applications, Springer Nature, 349-375.

• Karlo, J., Dhillon, A.K., Siddhanta, S., Singh, S.P., 2024. Reverse stable isotope labelling with Raman spectroscopy for microbial proteomics. Journal of Biophotonics 17 (2), e202300341.

• Karlo, J., Gupta, A., Singh, S.P., 2024. In situ monitoring of the shikimate pathway: a combinatorial approach of Raman reverse stable isotope probing and hyperspectral imaging. Analyst 149 (10), 2833-2841.

• Karlo, J., et al., Singh, S.P., 2024. Metallic Nanoparticles for Surface-Enhanced Raman Scattering Based Biosensing Applications. Photochem 4, 417-433.

• Karlo, J., Vijay, A., Phaneeswar, M.S., Singh, S.P., 2024. Sensing the Bactericidal and Bacteriostatic Antimicrobial Mode of Action Using Raman Deuterium Stable Isotope Probing (DSIP) in Escherichia coli. ACS omega 9 (22), 23753-23760.

• Konthoujam, B., Bhandari, N., Shridhar, G., Nerli, R., Shukla, S., Ghosh, R., 2024. Glutaraldehyde Functionalized Reduced Graphene Oxide based Resistive Sensors for Detection of PCA3. Journal of Materials Chemistry B (Accepted).

• Kumar, S., Bhandari, N., Shukla, S., Ghosh, R., 2024. Reduced Graphene Oxide/Gold Nanoparticles based Ultrasensitive Resistive Sensor for PCA3. Biosensors and Bioelectronics: X 100481.

• Malakar, P., Shukla, S., Mondal, M., Kar, R.K., Siddiqui, J.A., 2024. The nexus of long noncoding RNAs, splicing factors, alternative splicing and their modulations. RNA biology 21 (1), 1-20.

• Rudin, L., Dubey, B.N., Bornstein, M.M., Shyp, V., 2024. Inhibitory effect of plant flavonoid cyanidin on oral microbial biofilm. Microbiology Spectrum.

• Saikia, D., Karlo, J., Singh, S.P., 2024. Recent advances in smart biosensing technology for medical diagnosis. In: Smart and Intelligent Nanostructured Materials for Next-Generation Biosensors, Elsevier.

• Saikia, D., Tanan, C.B., Dhananjaya, G., Hungund, B.S., Mahanta, N., Singh, S.P., 2024. Validating phosphoethanolamine modification as a potential spectral marker of colistin resistance. Analyst 150 (2), 281-289.

• Saikia, D., Vijay, A., Cebajel Bhanwarlal, T., Singh, S.P., 2024. Validating the utility of heavy water (Deuterium Oxide) as a potential Raman spectroscopic probe for identification of antibiotic resistance. Spectrochimica Acta Part A 321, 124723.

• Thumu, S.C.R., et al., Marathe, S., Ramanan, N., 2024. SRF-deficient astrocytes provide neuroprotection in mouse models of excitotoxicity and neurodegeneration. eLife 13, e95577.

2023

• Bhandari, N., et al., Malakar, P., Shukla, S.K., 2023. Pan-cancer integrated bioinformatic analysis of RNA polymerase subunits reveal RNA Pol I member CD3EAP regulates cell growth by modulating autophagy. Cell Cycle.

• Brüderlin, M., Böhm, R., Fadel, F., Hiller, S., Schirmer, T., Dubey, B.N., 2023. Structural features discriminating hybrid histidine kinase Rec domains from response regulator homologs. Nature Communications 14, 1002.

• Chaube, B., Citrin, K.M., Sahraei, M., Singh, A.K., de Urturi, S.D., Ding, W., Pierce, R.W., Raaisa, R., Cardone, R., Kibbey, R., Fernández-Hernando, C., Suárez, Y., 2023. Suppression of angiopoietin-like 4 reprograms endothelial cell metabolism and inhibits angiogenesis. Nature Communications 14 (1), 8251.

• Chaube, B., Malvi, M., 2023. Editorial: Cancer Metabolism: Molecular Insights into Metabolic Crosstalk in the Tumor Microenvironment and Implications for Therapy. Frontiers in Oncology 13, 1289397.

• Chaube, B., Malvi, P. (Eds.), 2023. Cancer metabolism: Molecular insights, metabolic crosstalk in the tumor microenvironment, and implications for therapy. Frontiers Media SA.

• Chauhan, N.R., et al., Mehto, S., et al., Chauhan, S., 2023. Transgenic mouse models support a protective role of type I IFN response in SARS-CoV-2 infection-related lung immunopathology and neuroinvasion. Cell Reports 42 (11), 113275.

• Dubey, B.N., Shyp, V., Fucile, G., Sondermann, H., Jenal, U., Schirmer, T., 2023. Mutant structure of metabolic switch protein in complex with monomeric c-di-GMP reveals a potential mechanism of protein-mediated ligand dimerization. Scientific Reports 13, 2727.

• Karlo, J., Dhillon, A.K., Siddhanta, S., Singh, S.P., 2023. Monitoring of microbial proteome dynamics using Raman stable isotope probing. Journal of Biophotonics 16 (4), e202200341.

• Karlo, J., Prasad, R., Singh, S.P., 2023. Biophotonics in food technology: Quo vadis? Journal of Agriculture and Food Research 11, 100482.

• Khadirnaikar, S., Shukla, S., Prasanna, S.R.M., 2023. Integration of pan-cancer multi-omics data for novel mixed subgroup identification using machine learning methods. PLoS One.

• Khadirnaikar, S., Shukla, S., Prasanna, S.R.M., 2023. Development of Machine Learning Model for Pan-cancer Subgroup Identification using Multi-omics Data. Scientific Reports 13, 4636.

• Malakar, P., Singha, D., Choudhury, D., Shukla, S., 2023. Glutamine regulates the cellular proliferation and cell cycle progression by modulating the mTOR mediated protein levels of β-TrCP. Cell Cycle.

• Mehto, S., Kundu, S., Chauhan, S., Chauhan, S., 2023. RIPosomes are targets of IRGM-SQSTM1-dependent autophagy. Autophagy 19 (3), 1045-1047.

• Patil, P.P., et al., Shukla, S., et al., Roy, S., 2023. Computational and experimental pharmacology to decode the efficacy of Theobroma cacao L. against doxorubicin-induced organ toxicity. Frontiers in Pharmacology 14, 1174867.

• Razi, S.S., Singh, S.P., 2023. Aggregation-induced emission and piezochromic luminescence phosphors. In: Organic and Inorganic Materials Based Sensors, Wiley, 915-932.

• Rudin, L., Roth, N., Kneubühler, J., Ahmad, S., Dubey, B.N., Bornstein, M.M., Shyp, V., 2023. Inhibitory effect of natural flavone luteolin on Streptococcus mutans biofilm formation. Microbiology Spectrum 11 (5).

• Shettar, S.S., et al., Singh, S.P., et al., Saikia, D., 2023. Gene expression and molecular characterization of recombinant subtilisin from Bacillus subtilis with antibacterial, antioxidant and anticancer properties. International Journal of Biological Macromolecules 249, 125960.

• Singh, A.K., Chaube, B., et al., Sessa, W.C., 2023. Loss of cis-PTase function in the liver promotes a highly penetrant form of fatty liver disease that rapidly transitions to hepatocellular carcinoma. bioRxiv.

2022

• Bhat, N., et al., Chaube, B., et al., Mani, A., 2022. TCF7L2 transcriptionally regulates Fgf15 to maintain bile acid and lipid homeostasis through gut-liver crosstalk. FASEB Journal 36 (3), e22185.

• Chauhan, S., et al., Mehto, S., et al., Chauhan, S., 2022. Innate immunity and inflammophagy: balancing the defence and immune homeostasis. FEBS Journal 289 (14), 4112-4131.

• Gupta, P., et al., Singh, S.P., et al., Gautam, V., 2022. Green-Based Approach to Synthesize Silver Nanoparticles Using the Fungal Endophyte Penicillium oxalicum and Their Antimicrobial, Antioxidant, and in Vitro Anticancer Potential. ACS omega 7 (50), 46653-46673.

• Joshi, S., et al., Shukla, S., Ghosh, R., 2022. Simple diagnosis of cancer by detecting CEA and CYFRA 21‑1 in saliva using electronic sensors. Scientific Reports 12, 15315.

• Kumar, P., Khadirnaikar, S., Bhandari, N., Chatterjee, A., Shukla, S.K., 2022. An Epithelial-Mesenchymal plasticity signature identifies two novel LncRNAs with the opposite regulation. Frontiers in Cell and Developmental Biology.

• Mehto, S., et al., Chauhan, S., 2022. Selective autophagy of RIPosomes maintains innate immune homeostasis during bacterial infection. EMBO Journal 41 (23), e111289.

• Reddy Padala, S., et al., Singh, S.P., Kullaa, A.M., 2022. Irradiation Induced Biochemical Changes in Human Mandibular Bone: A Raman Spectroscopic Study. Applied Spectroscopy 76 (10), 1165-1173.

• Saikia, D., et al., Singh, S.P., 2022. Growth Kinetics Monitoring of Gram-Negative Pathogenic Microbes Using Raman Spectroscopy. Applied Spectroscopy 76 (10), 1263-1271.

• Saikia, D., et al., Singh, S.P., 2022. Unraveling the Secrets of Colistin Resistance with Label-Free Raman Spectroscopy. Biosensors 12 (9), 749.

• Yaraguppi, D.A., et al., Singh, S.P., et al., Saikia, D., 2022. Gene Expression and Characterization of Iturin A Lipopeptide Biosurfactant from Bacillus aryabhattai for Enhanced Oil Recovery. Gels 8 (7), 403.

2021

• Bhattacharjee, A., et al., Singh, S.P., et al., Murali Krishna, C., 2021. Risk prediction by Raman spectroscopy for disease-free survival in oral cancers. Head and Neck 36 (8), 1691-1700.

• Chatterjee, A., Khadirnaikar, S., Shukla, S.K., 2021. Development and validation of stemness associated LncRNA based prognostic model for lung adenocarcinoma patients. Cancer Biomarkers.

• Goedeke, L., et al., Chaube, B., et al., Fernandez-Hernando, C., 2021. MMAB promotes negative feedback control of cholesterol homeostasis. Nature Communications 12 (1), 6448.

• Jena, K.K., Mehto, S., et al., Chauhan, S., 2021. RNA-Binding RINGE3-Ligase DZIP3/hRUL138 Stabilizes Cyclin D1 to Drive Cell-Cycle and Cancer Progression. Cancer Research 81 (2), 315-331.

• Kashani, R.G., et al., Singh, S.P., Valdez, T.A., 2021. Shortwave infrared otoscopy for diagnosis of middle ear effusions: a machine-learning-based approach. Scientific Reports 11 (1), 12509.

• Khadirnaikar, S., Chatterjee, A., Shukla, S.K., 2021. Genetic and Epigenetic landscape of leukocyte infiltration identifies an immune prognosticator in lung adenocarcinoma. Cancer Biomarkers.

• Khadirnaikar, S., Chatterjee, A., Shukla, S.K., 2021. Identification and characterization of senescence phenotype in Lung adenocarcinoma with high drug sensitivity. American Journal of Pathology.

• Mehto, S., et al., Chauhan, S., 2021. Editorial: The Dynamics of Stress Granules. Frontiers in Cell and Developmental Biology 9, 789678.

• Nandi, A., Virmani, G., Marathe, S., 2021. Dbscorer: An open-source software for automated accurate analysis of rodent behavior in forced swim test and tail suspension test. Eneuro 8 (6).

• Nandi, A., Virmani, G., Marathe, S., 2021. Hippocampal astroglial hypertrophy in mice subjected to early life maternal deprivation. bioRxiv.

• Nath, P., et al., Mehto, S., et al., Chauhan, S., 2021. Inhibition of IRGM establishes a robust antiviral immune state to restrict pathogenic viruses. EMBO Reports 22 (11), e52948.

• Nath, P., et al., Mehto, S., et al., Chauhan, S., 2021. IRGM links autoimmunity to autophagy. Autophagy 17 (2), 578-580.

• Perna, A., Marathe, S., et al., Alberi, L., 2021. Revealing Notch-dependencies in synaptic targets associated with Alzheimer's disease. bioRxiv.

• Sethi, P., et al., Marathe, S., 2021. Automated morphometric analysis with SMorph software reveals plasticity induced by antidepressant therapy in hippocampal astrocytes. Journal of Cell Science 134 (12), jcs258430.

• Sethi, P., et al., Marathe, S., 2021. Automated Morphometric Analysis Reveals Plasticity Induced by Chronic Antidepressant Treatment in Hippocampal Astrocytes. bioRxiv.

• Shyp, V., Dubey, B.N., et al., Jenal, U., 2021. Reciprocal growth control by competitive binding of nucleotide second messengers to a metabolic switch in Caulobacter crescentus. Nature Microbiology 6, 59–72.

• Shukla, S., Khadirnaikar, S., 2021. RNA-Sequencing Analysis Pipeline for Prognostic Marker Identification in Cancer. Methods in Molecular Biology 2174, 119-131.

• Singh, A.K., Chaube, B., et al., Fernandez-Hernando, C., 2021. Hepatocyte-specific suppression of ANGPTL4 improves obesity-associated diabetes and mitigates atherosclerosis in mice. Journal of Clinical Investigation 140989.

• Singh, S.P., Siddhanta, S., 2021. Optical Imaging in Biology: Basics and Applications. In: Modern Techniques of Spectroscopy, Springer Nature, 637-660.

• Virmani, G., D'almeida, P., Nandi, A., Marathe, S., 2021. Subfield‐specific effects of chronic mild unpredictable stress on hippocampal astrocytes. European Journal of Neuroscience.

2020

• Dubey, B.N., et al., Schirmer, T., 2020. Hybrid histidine kinase activation by cyclic di-GMP-mediated domain liberation. PNAS 117 (2), 1000–1008.

• Jena, K.K., Mehto, S., et al., Chauhan, S., 2020. Autoimmunity gene IRGM suppresses cGAS-STING and RIG-I-MAVS signaling to control interferon response. EMBO Reports 21 (9), e50051.

• Kaczmarczyk, A., et al., Dubey, B.N., et al., Jenal, U., 2020. Precise transcription timing by a second messenger drives a bacterial G1/S cell-cycle transition. Nature Communications 11, 816.

• Kang, J.W., et al., Singh, S.P., et al., So, P.T.C., 2020. Direct observation of glucose fingerprint using in vivo Raman spectroscopy. Science Advances 6 (4), eaay5206.

• Khadirnaikar, S., Chatterjee, A., Kumar, P., Shukla, S.K., 2020. A greedy algorithm-based stem cell LncRNA signature identifies a novel subgroup of lung adenocarcinoma patients with poor prognosis. Frontiers in Oncology.

• Ravi, P., Singh, S.P., et al., Paulmurugan, R., 2020. Spectrochemical Probing of MicroRNA Duplex Using Spontaneous Raman Spectroscopy for Biosensing Applications. Analytical Chemistry 92 (21), 14423-14431.

• Sethi, P., et al., Marathe, S., 2020. Automated morphometric analysis with SMorph software reveals plasticity induced by antidepressant therapy in hippocampal astrocytes. Journal of Cell Science 134 (12).

• Singh, A.K., Chaube, B., et al., Fernandez-Hernando, C., 2020. Liver-specific suppression of ANGPTL4 improves obesity-associated diabetes and mitigates atherosclerosis in mice. bioRxiv.

• Singh, S.V., Chaube, B., et al., Bhat, M.K., 2020. Metformin induced lactic acidosis impaired response of cancer cells towards paclitaxel and doxorubicin: Role of monocarboxylate transporter. BBA Molecular Basis of Disease 166011.

2019

• Jena, K.K., Mehto, S., et al., Chauhan, S., 2019. TRIM16 governs the biogenesis and disposal of stress-induced protein aggregates to evade cytotoxicity. Autophagy 15 (5), 924-926.

• Kumar, P., Khadirnaikar, S., Shukla, S.K., 2019. PILAR1, a novel prognostic LncRNA, reveals the presence of a unique subtype of lung adenocarcinoma patients with KEAP1 mutations. Gene 691, 167-175.

• Kumar, P., Khadirnaikar, S., Shukla, S.K., 2019. A novel LncRNA-based prognostic score reveals the TP53-dependent subtype of lung adenocarcinoma with poor survival. Journal of Cellular Physiology.

• Khadirnaikar, S., Kumar, P., Shukla, S.K., 2019. Development and validation of an immune prognostic signature for ovarian carcinoma. Cancer Reports 2 (1), e1166.

• Khadirnaikar, S., et al., Shukla, S.K., 2019. Immune associated LncRNAs identify novel prognostic subtypes of renal clear cell carcinoma. Molecular Carcinogenesis 58 (4), 544-553.

• Mehto, S., et al., Chauhan, S., 2019. IRGM restrains NLRP3 inflammasome activation by mediating its SQSTM1/p62-dependent selective autophagy. Autophagy 15 (9), 1645-1647.

• Mehto, S., et al., Chauhan, S., 2019. The Crohn's Disease Risk Factor IRGM Limits NLRP3 Inflammasome Activation by Impeding Its Assembly and by Mediating Its Selective Autophagy. Molecular Cell 73 (3), 429-445.

• Sahraei, M., Chaube, B., et al., Suarez, Y., 2019. Suppression of miR-21 Activity in Tumor Associated Macrophages Promotes an Antitumor Immune Response. Journal of Clinical Investigation 129 (12), 5518-5536.

• Stampfli, A.R., et al., Dubey, B.N., et al., Seebeck, F.P., 2019. An alternative active-site architecture for O₂ activation in the ergothioneine biosynthetic enzyme EgtB. Journal of the American Chemical Society 141 (13), 5275–5285.

• Vo, J.N., et al., Shukla, S., et al., 2019. The Landscape of Circular RNA in Cancer. Cell 176 (4), 869-881.

2018

• Aryal, B., et al., Chaube, B., et al., Fernandez-Hernando, C., 2018. Absence of ANGPTL4 in adipose tissue improves glucose tolerance and attenuates atherogenesis. JCI Insight 3 (6).

• Jena, K.K., Mehto, S., et al., Chauhan, S., 2018. TRIM16 employs NRF2, ubiquitin system and aggrephagy for safe disposal of stress-induced misfolded proteins. Cell Stress 2 (12), 365-367.

• Jena, K.K., et al., Mehto, S., et al., Chauhan, S., 2018. TRIM16 controls turnover of protein aggregates by modulating NRF2, ubiquitin system, and autophagy. Molecular & Cellular Oncology 5 (6), e1532251.

• Jena, K.K., et al., Mehto, S., et al., Chauhan, S., 2018. TRIM16 controls assembly and degradation of protein aggregates by modulating the p62-NRF2 axis and autophagy. EMBO Journal 37 (18), e98358.

• Khadirnaikar, S., Narayanan, S.P., Shukla, S.K., 2018. Decoding the LncRNA transcriptome of esophageal cancer: identification of clinically relevant LncRNAs. Biomarkers in Medicine 12 (10), 1083-1093.

• Malvi, P., Chaube, B., et al., Bhat, M.K., 2018. Elevated circulatory levels of leptin and resistin impair therapeutic efficacy of dacarbazine in melanoma under obese state. Cancer & Metabolism 6 (1), 1-14.

• Marathe, S.V., D'almeida, P.L., Virmani, G., Bathini, P., Alberi, L., 2018. Effects of Monoamines and Antidepressants on Astrocyte Physiology: Implications for Monoamine Hypothesis of Depression. Journal of Experimental Neuroscience 12, 1179069518789149.

• Singh, A.K., Aryal, B., Chaube, B., et al., Fernandez-Hernando, C., 2018. Brown adipose tissue-derived ANGPTL4 controls glucose and lipid metabolism and regulates thermogenesis. Molecular Metabolism.

• Skala, S.L., et al., Shukla, S., et al., 2018. Detection of 6 TFEB-amplified renal cell carcinomas and 25 renal cell carcinomas with MITF translocations. Modern Pathology 31 (1), 179-197.

• Xiao, L., et al., Shukla, S., et al., 2018. Epigenetic Reprogramming with Antisense Oligonucleotides Enhances the Effectiveness of Androgen Receptor Inhibition in Castration-Resistant Prostate Cancer. Cancer Research 78 (20), 5731-5740.

• Shukla, S., 2018. Unravelling the Long Non-Coding RNA Profile of Undifferentiated Large Cell Lung Carcinoma. Non-coding RNA 4 (1).

• Zhang, Y., et al., Shukla, S., et al., 2018. Analysis of the androgen receptor-regulated lncRNA landscape identifies a role for ARLNC1 in prostate cancer progression. Nature Genetics 50 (6), 814-824.

2017

• Auber, L.A., Brai, E., Marathe, S., Jaquet, M., Annoni, J.M., 2017. NOTCH, A CLINICALLY RELEVANT SIGNALING PATHWAY FOR ALZHEIMER'S DISEASE. Alzheimer's & Dementia 13 (7), P997.

• Mahajan, K., et al., Shukla, S., et al., 2017. ACK1/TNK2 Regulates Histone H4 Tyr88-phosphorylation and AR Gene Expression in Castration-Resistant Prostate Cancer. Cancer Cell 31 (6), 790-803.

• Marathe, S., Jaquet, M., Annoni, J.M., Alberi, L., 2017. Jagged1 Is Altered in Alzheimer's Disease and Regulates Spatial Memory Processing. Frontiers in Cellular Neuroscience 11, 220.

• Shukla, S., et al., 2017. Development of a RNA-Seq Based Prognostic Signature in Lung Adenocarcinoma. Journal of the National Cancer Institute 109 (1).

• Wang, L., et al., Shukla, S., et al., 2017. Age and Gender Associations of Virus Positivity in Merkel Cell Carcinoma. Clinical Cancer Research 23 (18), 5622-5630.

2016

• Chaube, B., Bhat, M.K., 2016. AMPK, a key regulator of metabolic/energy homeostasis and mitochondrial biogenesis in cancer cells. Cell Death and Disease 7, e2044.

• Dubey, B.N., et al., Schirmer, T., 2016. Cyclic di-GMP mediates a histidine kinase/phosphatase switch by noncovalent domain cross-linking. Science Advances 2, e1600823.

• Falzarano, S.M., et al., Shukla, S., et al., 2016. Renal Cell Carcinoma Occurring in Patients With Prior Neuroblastoma. American Journal of Surgical Pathology 40 (7), 989-997.

• Malvi, P., Chaube, B., et al., Bhat, M.K., 2016. Weight control interventions improve therapeutic efficacy of dacarbazine in melanoma by reversing obesity-induced drug resistance. Cancer & Metabolism 4, 21.

• Mehra, R., et al., Shukla, S., et al., 2016. Biallelic Alteration and Dysregulation of the Hippo Pathway in Mucinous Tubular and Spindle Cell Carcinoma of the Kidney. Cancer Discovery 6 (11), 1258-1266.

• Pal, J., et al., Shukla, S., et al., 2016. Epigenetically silenced GNG4 inhibits SDF1alpha/CXCR4 signaling in mesenchymal glioblastoma. Genes & Cancer 7 (3-4), 136-147.

• Shukla, S., et al., 2016. Identification and Validation of PCAT14 as Prognostic Biomarker in Prostate Cancer. Neoplasia 18 (8), 489-499.

• Veeneman, B.A., Shukla, S., et al., 2016. Two-pass alignment improves novel splice junction quantification. Bioinformatics 32 (1), 43-9.

• Wang, L., et al., Shukla, S., et al., 2016. Non-coding RNA LINC00857 is predictive of poor patient survival and promotes tumor progression via cell cycle regulation in lung cancer. Oncotarget 7 (10), 11487-11499.

2015

• Brai, E., Marathe, S., et al., Alberi, L., 2015. Notch1 regulates hippocampal plasticity through interaction with the reelin pathway, glutamatergic transmission and CREB signaling. Frontiers in Cellular Neuroscience 9, 447.

• Chaube, B., et al., Bhat, M.K., 2015. AMPK maintains energy homeostasis and survival in cancer cells under metabolic stress by regulating p38/PGC-1α-mediated mitochondrial biogenesis. Cell Death and Discovery 1, 15063.

• Chaube, B., et al., Bhat, M.K., 2015. Targeting metabolic flexibility by simultaneously inhibiting respiratory complex I and lactate generation retards melanoma progression. Oncotarget 6 (35), 37281-37299.

• Husain, B.F.A., Marathe, S.V., et al., Vaidya, V.A., 2015. Hippocampal transcriptional and neurogenic changes evoked by combination yohimbine and imipramine treatment. Progress in Neuro-Psychopharmacology and Biological Psychiatry 61, 1-9.

• Lori, C., et al., Dubey, B.N., et al., Jenal, U., 2015. Cyclic di-GMP acts as a cell-cycle oscillator to drive chromosome replication. Nature 523, 236–239.

• Malvi, P., Chaube, B., et al., Bhat, M.K., 2015. Obesity-induced rapid melanoma progression is reversed by orlistat treatment and dietary intervention. Molecular Oncology 9 (3), 689-703.

• Marathe, S., Liu, S., Brai, E., Kaczarowski, M., Alberi, L., 2015. Notch signaling in response to excitotoxicity induces neurodegeneration via erroneous cell cycle reentry. Cell Death & Differentiation 22 (11), 1775-1784.

• Marathe, S., Alberi, L., 2015. Notch in memories: points to remember. Hippocampus 25 (12), 1481-1488.

• Marathe, S., 2015. Study of Notch Signaling in Adult Mammalian Nervous System.

• Mohammad, N., Chaube, B., et al., Bhat, M.K., 2015. Cholesterol depletion by methyl-β-cyclodextrin augments tamoxifen-induced cell death by enhancing its uptake in melanoma. Scientific Reports 5, 11853.

• Singh, S.V., et al., Chaube, B., et al., Bhat, M.K., 2015. Proteasomal inhibition sensitizes cervical cancer cells to mitomycin C-induced bystander effect. Cell Death and Disease 6, e1934.

2014

• Brai, E., Marathe, S., et al., Alberi, L., 2014. Notch1 activity in the olfactory bulb is odour‐dependent and contributes to olfactory behaviour. European Journal of Neuroscience 40 (10), 3436-3449.

• Jha, P., et al., Shukla, S., et al., 2014. Genome-wide methylation profiling identifies an essential role of reactive oxygen species in pediatric glioblastoma multiforme. Neuro-Oncology 16 (12), 1607-1617.

• Jhaveri, D.J., et al., Marathe, S., et al., 2014. Opposing effects of α2-and β-adrenergic receptor stimulation on quiescent neural precursor cell activity and adult hippocampal neurogenesis. PLoS One 9 (6), e98736.

• Malvi, P., Chaube, B., et al., Bhat, M.K., 2014. High-fat diet promotes achievement of peak bone mass in young rats. Biochemical Biophysical Research Communications 455 (1-2), 133–138.

• Marathe, S., Alberi, L., 2014. PARADOXICAL EFFECTS OF NOTCH SIGNALING IN RESPONSE TO ENVIRONMENTAL ENRICHMENT DURING CRITICAL PERIOD. Alzheimer's & Dementia 10 (4), P340.

• Marathe, S., Alberi, L., 2014. Monitoring notch activity in the mouse. In: Notch Signaling, 115-129.

• Mohammad, N., et al., Chaube, B., et al., Bhat, M.K., 2014. Cholesterol depletion by methyl-β-cyclodextrin augments tamoxifen-induced cell death by enhancing its uptake in melanoma. Molecular Cancer 13, 204.

• Shukla, S., et al., 2014. Methylation silencing of ULK2, an autophagy gene, is essential for astrocyte transformation and tumor growth. Journal of Biological Chemistry 289 (32), 22306-22318.

2013

• Alberi, L., Hoey, S.E., Brai, E., Scotti, A.L., Marathe, S., 2013. Notch signaling in the brain: in good and bad times. Ageing Research Reviews 12 (3), 801-814.

• Arimappamagan, A., Shukla, S.,  et al., 2013. A fourteen gene GBM prognostic signature identifies association of immune response pathway and mesenchymal subtype with high risk group. PLoS One 8 (4), e62042.

• Ehsan, A., Dubey, B.N., et al., Ahmadian, M.R., 2013. Rho-kinase: Structure, regulation, (dys)function, and inhibition. Biological Chemistry 394 (11), 1399–1410.

• Selvaraj, M., et al., Dubey, B.N., et al., Vijayan, M., 2013. Molecular flexibility of Mycobacterium tuberculosis ribosome recycling factor and its functional consequences. Journal of Biosciences 38, 845–855.

• Shukla, S., et al., 2013. A DNA methylation prognostic signature of glioblastoma: identification of NPTX2-PTEN-NF-kappaB nexus. Cancer Research 73 (22), 6563-6573.

2012

• Nanavaty, I., Marathe, S., Vaidya, V., 2012. Neurogenic effects of rapid action antidepressants. International Journal of Developmental Neuroscience 30 (8), 645-645.

• Thota, B., Shukla, S.K., et al., 2012. IDH1 mutations in diffusely infiltrating astrocytomas: grade specificity, association with protein expression, and clinical relevance. American Journal of Clinical Pathology 138 (2), 177-184.

2011

• Jaiswal, M., Dubey, B.N., et al., Ahmadian, M.R., 2011. Biochemical assay to characterize Rho GTPases. Methods in Molecular Biology 827, 37–58.

• Pandey, V., Chaube, B., Bhat, M.K., 2011. Hyperglycemia regulates MDR-1, drug accumulation and ROS levels causing increased toxicity of carboplatin and 5-fluorouracil in MCF-7 cells. Journal of Cellular Biochemistry 112 (10), 2942-2952.

• Suri, V., et al., Shukla, S., et al., 2011. Molecular profile of oligodendrogliomas in young patients. Neuro-Oncology 13 (10), 1099-1106.

2010

• Jhaveri, D.J., et al., Marathe, S.V., et al., 2010. Norepinephrine directly activates adult hippocampal precursors via β3-adrenergic receptors. Journal of Neuroscience 30 (7), 2795-2806.

• Yanpallewar, S.U., et al., Marathe, S.V., et al., 2010. α2-adrenoceptor blockade accelerates the neurogenic, neurotrophic, and behavioral effects of chronic antidepressant treatment. Journal of Neuroscience 30 (3), 1096-1109.

2009

• Seshadri, A., Dubey, B.N., et al., Varshney, U., 2009. Impact of rRNA methylations on ribosome recycling and fidelity of initiation in Escherichia coli. Molecular Microbiology 72 (3), 795–808.

2008

• Dubey, B.N., Buragohain, A.K., Ray, S.K., 2008. Positive correlation of bacterial genome GC% with anticodon diversity. IUP Journal of Biotechnology.

• Ranjan, A., et al., Dubey, B.N., et al., Ray, S.K., 2008. Analysis of bacterial genomes reveals conserved patterns in dinucleotide abundance and codon usage. Current Science 94 (2).