Chandan Shivamalli | Life Sciences | Excellence in Research

Assoc Prof Dr. Chandan Shivamalli | Life Sciences | Excellence in Research

 

Assoc Prof Dr at JSS Academy of Higher Education and Research India

Assoc Prof Dr Chandan S is an accomplished academic and researcher specializing in Biotechnology and Bioinformatics. He holds a Ph.D. from the University of Mysore and currently serves as an Assistant Professor and Coordinator at Jagadguru Sri Shivarathreeshwara University. Assoc Prof Dr. Chandan has extensive research experience, having worked on projects funded by prestigious agencies like DST-SERB and ICMR. He has led various projects, including studies on anti-mucosal inflammatory effects, Alzheimer’s disease therapy, and leptospiral peptidomimetics. Assoc Prof Dr. Chandan’s contributions to the field have earned him awards such as the DST-SERB Young Scientist Award and the ICMR Senior Research Fellowship.

profile

Scholar

📚 Educational Qualification

Bachelor of Science (B.Sc) University / College: University of Mysore, JSS College, Mysore Period: 2002-2005. M.Sc University / College: University of Mysore, JSS College, Mysore Period: 2005-2007 . Master of Philosophy (M.Phil) University / College: Vinayaka Missions University (Deemed), Vinayaka Missions University Period: 2007-2008 . Ph.D University / College: University of Mysore, University of Mysore Period: 2010-2013

💼 Work Experience

1. Project Directorate on Animal Disease Monitoring and Surveillance, ICAR Designation / Department: Post Graduate Research Assistant Period: June 02, 2007 – March 31, 2010 Duration: 2 Years 9 Months. 2. Department of Studies in Biotechnology Designation / Department: Project Fellow Period: May 17, 2010 – May 21, 2011 Duration: 1 Year 0 Months. 3. Indian Council for Medical Research Designation / Department: Senior Research Fellow Period: May 21, 2011 – December 13, 2013 Duration: 2 Years 7 Months. 4. Jagadguru Sri Shivarathreeshwara University Designation / Department: Lecturer, Biotechnology & Bioinformatics Period: December 13, 2013 – January 31, 2016 Duration: 2 Years 1 Month 5. Jagadguru Sri Shivarathreeshwara University Designation / Department: Assistant Professor & Coordinator, Biotechnology & Bioinformatics Period: February 01, 2016 – Till Date Duration: 5 Years 9 Months

🏆 Awards

1. DST-SERB Young Scientist Awarding Agency: DST-SERB, Purpose of Award: Sanction of Project, Award Type: National, Award Date: June 1, 2016 2. Senior Research Fellow Awarding Agency: ICMR, Purpose of Award: To pursue PhD, Award Type: National, Award Date: May 21, 2011

🔬 Projects

1. Evaluation of anti-mucosal inflammatory effect of Acacia fernesiana using Zebra fish as model organism Principal Investigator: Dr. Chandan S Duration: 1 Year(s) Institute: School of Life Sciences – Mysuru Department: Biotechnology & Bioinformatics 2. A prospective study of synergistic effect of combination therapy of FDA approved drugs and in silico characterization against Alzheimer’s disease Principal Investigator: Dr. Chandan S Duration: 2 Year(s) Institute: School of Life Sciences – Mysuru Department: Biotechnology & Bioinformatics 3. Genomic and proteomic analysis of outer membrane vesicles from clinical isolates of Leptospira and development of antileptospiral peptidomimetics Principal Investigator: Dr. Chandan SDuration: 3 Year(s) Institute: Faculty of Life Sciences [FLS] Department: Bioinformatics [BIOINFO]

Publications Top Notes📝

 

  • Title: A systematic review on ethnopharmacology, phytochemistry and pharmacological aspects of Thymus vulgaris Linn.
    Authors: SM Patil, R Ramu, PS Shirahatti, C Shivamallu, RG Amachawadi
    Year: 2021
    Journal: Heliyon
    Volume and Issue: 7(5)
    Article Number: 134

 

  • Title: Antiviral and immunomodulatory activity of curcumin: A case for prophylactic therapy for COVID-19
    Authors: RK Thimmulappa, KK Mudnakudu-Nagaraju, C Shivamallu, …
    Year: 2021
    Journal: Heliyon
    Volume and Issue: 7(2)
    Article Number: 133

 

  • Title: Bioactive compounds effective against type 2 diabetes mellitus: a systematic review
    Authors: C Egbuna, CG Awuchi, G Kushwaha, M Rudrapal, …
    Year: 2021
    Journal: Current Topics in Medicinal Chemistry
    Volume and Issue: 21(12)
    Pages: 1067-1095

 

  • Title: In silico evaluation of flavonoids as effective antiviral agents on the spike glycoprotein of SARS-CoV-2
    Authors: AS Jain, P Sushma, C Dharmashekar, MS Beelagi, SK Prasad, …
    Year: 2021
    Journal: Saudi Journal of Biological Sciences
    Volume and Issue: 28(1)
    Pages: 1040-1051

 

  • Title: Genetic typing of recent classical swine fever isolates from India
    Authors: SS Patil, D Hemadri, BP Shankar, AG Raghavendra, H Veeresh, …
    Year: 2010
    Journal: Veterinary Microbiology
    Volume and Issue: 141(3-4)
    Pages: 367-373

 

  • Title: Genistein: a potent anti-breast cancer agent
    Authors: SS Bhat, SK Prasad, C Shivamallu, KS Prasad, A Syed, P Reddy, CA Cull, …
    Year: 2021
    Journal: Current Issues in Molecular Biology
    Volume and Issue: 43(3)
    Pages: 1502-1517

 

  • Title: Palladium (II) complexes as biologically potent metallo-drugs: Synthesis, spectral characterization, DNA interaction studies and antibacterial activity
    Authors: KS Prasad, LS Kumar, S Chandan, RMN Kumar, HD Revanasiddappa
    Year: 2013
    Journal: Spectrochimica Acta Part A: Molecular and Biomolecular Spectroscopy
    Volume: 107
    Pages: 108-116

 

  • Title: Aqueous Extract of Saraca indica Leaves in the Synthesis of Copper Oxide Nanoparticles: Finding a Way towards Going Green
    Authors: KS Prasad, A Patra, G Shruthi, S Chandan
    Year: 2017
    Journal: Journal of Nanotechnology
    Volume and Issue: 2017(1)
    Article Number: 7502610

 

  • Title: Quinazolinones linked amino acids derivatives as a new class of promising antimicrobial, antioxidant and anti-inflammatory agents
    Authors: KP Rakesh, S Ramesh, HMM Kumar, S Chandan, DC Gowda
    Year: 2015
    Journal: European Journal of Chemistry
    Volume and Issue: 6(3)
    Pages: 254-260

 

  • Title: Diorganotin(IV) complexes of biologically potent 4(3H)-quinazolinone derived Schiff bases: Synthesis, spectroscopic characterization, DNA interaction studies and …
    Authors: KS Prasad, LS Kumar, S Chandan, B Jayalakshmi, HD Revanasiddappa
    Year: 2011
    Journal: Spectrochimica Acta Part A: Molecular and Biomolecular Spectroscopy
    Volume and Issue: 81(1)

 

Mohammadsadeq Mottaqi | Computational biology | Young Scientist Award

Mr. Mohammadsadeq Mottaqi | Computational biology | Young Scientist Award

MohammadSadeq Mottaqi is a dedicated Ph.D. candidate in Biochemistry at the City University of New York, with a strong foundation in Biotechnology from the University of Tehran. He possesses a robust skill set in Python, R, and various bioinformatics tools. His research focuses on machine learning-based drug action prediction, molecular dynamics simulations, and protein-ligand interactions. He has contributed significantly to research projects at Hunter College and Weill Cornell Medicine, and has industry experience as an R&D intern. MohammadSadeq is a published author, with works in journals like the Journal of Environmental Management and Informatics in Medicine Unlocked.

Profile

Orcid

Education🎓

City University of New York, the Graduate Center, New York, NY PhD in Biochemistry, Computer Science Department
Aug 2022 – Present. University of Tehran, Tehran, Iran B.Sc. in Biotechnology, GPA: 3.8 (top 15%) Sep 2017 – March 2022

 Technical Skills💻

Programming Languages: Python, R, Bioinformatics Tools and Libraries: PyMol, MOE, Gromacs, Spss, Unity, Scikit-learn, Data Analysis: Transcriptomics data analysis, Statistical analysis, Data Visualization, Operating Systems: Linux, Unix, Others: High-performance computing

 Relevant Experience 🌟

Machine learning-based prediction methods for drug actions
Prof. Lei Xie lab, Hunter College and Weill Cornell Medicine
June 2023 – Present
Thesis: Deep learning models for chemical-induced differential gene expression and cell viability predictions for de novo drugs and cell lines

  • Resolve challenges in predictive modeling using algorithmic approaches
  • Design pre-processing pipelines for Transcriptomics datasets
  • Integrate disparate Transcriptomics datasets (80 cell-lines) using Python
  • Incorporate multiple diverse labeled and unlabeled OMICS data
  • Contribute to writing manuscript

Molecular dynamics simulations of mutated HER2 protein
Research assistant – Dr. Mateusz Marianski lab, Hunter College
April 2023 – June 2023

  • Investigated coupling reactions and residue interactions in several mutated HER2 proteins
  • Performed molecular dynamics (MD) simulations employing Gromacs
  • Analyzed the data of the MD simulations
  • Presented the interpreted results

Protein-Ligand interactions in docking
Research assistant – Prof. Tom Kurtzman lab, Lehman College
Nov 2022 – Jan 2023

  • Identified the potential molecular interactions between protein pharmacophores and ligands
  • Wrote Python scripts in PyMOL for detection of potential H-bonds and Van der Waals forces

Aral Teb CO. Ltd., Tehran, Iran
R&D Intern
May 2020 – Oct 2020

  • Designed and executed experiments for a bacterial diagnostic kit
  • Converted 3D MRI data into a format compatible with 3D bioprinter
  • Served as a key researcher in the clean room

Virtual reality (VR) project, Iran’s National Elites Foundation
Nov 2020 – Aug 2021

  • Devised 7 biotechnological experiments in VR environments employing Unity software
  • Collaborated with 9 computer scientists and 4 biologists

Publications Top Notes 📝

  • Iman Kianian, Mohammad Sadeq Mottaqi, et al. Automated identification of toxigenic cyanobacterial genera for water quality control purposes, Journal of Environmental Management

 

  • Mohammad Sadeq Mottaqi, et al. Contribution of machine learning approaches in response to SARS-CoV-2 infection, Informatics in Medicine Unlocked, 2021

Flavia | Molecular Biology | Young Scientist Award

Dr. Flavia| Molecular Biology | Young Scientist Award

👨‍🏫Profile Summary

Flavia Scoyni is a highly accomplished researcher in molecular medicine, specializing in non-coding RNAs and their role in neurodegenerative diseases like Alzheimer’s and ischemic stroke. With a Ph.D. from the University of Eastern Finland under the Marie Skłodowska-Curie Programme, Flavia has extensive experience in experimental techniques such as scRNA-seq, FACS, and animal modeling. Their work has been published in prestigious journals and recognized with numerous grants and fellowships. Flavia’s expertise in molecular biology, cell culture, and animal work, coupled with a strong track record of securing research funding, positions them as a valuable asset in the field of translational medicine.

🌐 Professional Profiles

🎓Education:

Ph.D. in Molecular Medicine University of Eastern Finland, Kuopio, Finland Duration: Dec 2017 – Feb 2024 Marie Skłodowska-Curie Programme in Genetics and Mechanisms in Translational Medicine (GENOMMED) Advisor: Prof. Tarja Malm Dissertation: “Unlocking the potential of non-coding RNAs in regulating neurodegeneration – a glimpse into Alzheimer’s disease and ischemic stroke pathophysiology.” Ph.D. secondment Aarhus University, Aarhus, Denmark Duration: Sept 2018 – Feb 201 Advisor: Assoc. Prof. Thomas B. Hansen Funded by Saastamoinen Foundation travel grant FELASA accreditationUniversity of Eastern Finland, Kuopio, Finland May 2017 Federation of Laboratory Animal Science Associations (FELASA) Certificate in laboratory animal science for EU Functions A/D MSc in Molecular Biology “Sapienza” University of Rome, Rome, Italy Duration: Oct 2013 – Dec 2015 Master Degree in Molecular Biology Graduated magna cum laude (110/110 cum laude) Advisor: Prof. Alessandro Fatica Thesis title: “Identification of new transcriptional targets of p30 C/EBPα transcription factor isoform in acute myeloid leukemia” MSc in Genetics University Paris-Diderot VII, Paris, France Duration: Oct 2013 – June 2015 BSc in Biotechnology “Sapienza” University of Rome, Rome, Italy Duration: Oct 2010 – July 2013 Bachelor degree in Biotechnology Graduated magna cum laude (110/110 cum laude) Advisor: Prof. Carlo Presutti Thesis title: “The role of the mir-200 family in the regulation of the expression of AP1 transcriptional factor”

🔬Research Experience:

Early stage researcher Professor Tarja Malm University of Eastern Finland, A.I. Virtanen Institute for Molecular Sciences Jan 2017 – Dec 2017 Investigated the role of microRNAs in phagocytic microglia isolated from adult Alzheimer’s mice. Developed techniques including ex-vivo FACS, low input RNA extraction, cloning, qPCR, and protocol for transfection for hard-to-transfect cell lines. Conducted animal procedures to harvest brain samples or acutely isolate adult microglia. Erasmus traineeship Biotech Research & Innovation Centre, Copenhagen, Denmark Oct 2016 – June 2016 Developed a transgenic stable cell line for long non-coding RNAs. Applied techniques such as cloning of long inserts, lentiviral vector production, and stable cell line development. Master thesis Professor Alessandro Fatica “Sapienza” University of Rome, Rome, Italy June 2014 – Dec 2015 Investigated the regulation of the long non-coding RNA UCA1 mediated by C/EBPα transcription factor in the K562 lymphoblast cell line. Applied techniques including ChIP, cloning, RNA extraction, RT-qPCR, WB, transfection, CRISPR-Cas9, and stable cell line development. Master Internship Professor Giuseppe Macino “Sapienza” University of Rome, Rome, Italy Sept 2013 – March 2014 Studied microRNAs inducing epigenetic modifications in mammals.Applied techniques such as ChIP, cloning, mutagenesis, RNA extraction, RT-qPCR, WB, CRISPR-Cas9, and stable cell line development. Bachelor thesis Professor Carlo Presutti “Sapienza” University of Rome, Rome, Italy Oct 2012 – July 2013 Investigated the role of the miR-200a family in regulating c-JUN transcription factor expression. Utilized techniques including cloning, mutagenesis, bacterial transformation, and cell line culture.

💻 Technical Skills:

Molecular biology techniques such as scRNA-seq, RNA-seq, FACS, cloning, RT-qPCR, WB, lentiviral vectors generation. Cell culture techniques including neuronal culture, primary microglial culture, transduction, transfection, and stable cell line development. Animal work including FELASA A/D certification, maintenance, and breeding of transgenic mouse models, animal procedures, and tamoxifen-induced recombination. Statistical analysis, basic Python, and R.

🏆Fellowships, Awards, and Honors:

  • Secured total grants of 99.000€ during Ph.D., including grants from Pavo Nuermen Foundation, Finnish Cultural Foundation, Kuopio University Foundation, and others.

👩‍🏫 Teaching Experience:

  • Mentored a Ph.D. student and post-graduate student, and supervised five master’s thesis students during the Ph.D. program.

📚Top Noted Publication

  1. ciRS-7 and miR-7 regulate ischemia-induced neuronal death via glutamatergic signaling
    • Journal: Cell Reports
    • Year: 2024-03
    • DOI: 10.1016/j.celrep.2024.113862
    • Contributors: Flavia Scoyni; Valeriia Sitnikova; Luca Giudice; Paula Korhonen; Davide M. Trevisan; Ana Hernandez de Sande; Mireia Gomez-Budia; Raisa Giniatullina; Irene F. Ugidos; Hiramani Dhungana et al.

 

  1. Alzheimer’s disease-induced phagocytic microglia express a specific profile of coding and non-coding RNAs
    • Journal: Alzheimer’s & Dementia
    • Year: 2024-02
    • DOI: 10.1002/alz.13502
    • Contributors: Flavia Scoyni; Luca Giudice; Mari-Anna Väänänen; Nicholas Downes; Paula Korhonen; Xin Yi Choo; Nelli-Noora Välimäki; Petri Mäkinen; Nea Korvenlaita; Annemieke J Rozemuller et al.

 

  1. ciRS-7 and miR-7 regulate ischemia induced neuronal death via glutamatergic signaling
    • Journal: Preprint
    • Year: 2023-01-24
    • DOI: 10.1101/2023.01.24.525136
    • Contributors: Flavia Scoyni; Valeriia Sitnikova; Luca Giudice; Paula Korhonen; Davide M Trevisan; Ana Hernandez de Sande; Mireia Gomez-Budia; Raisa Giniatullina; Irene F Ugidos; Hiramani Dhungana et al.

 

  1. Intracerebral overexpression of miR-669c is protective in mouse ischemic stroke model by targeting MyD88 and inducing alternative microglial/macrophage activation
    • Journal: Journal of Neuroinflammation
    • Year: 2020
    • DOI: 10.1186/s12974-020-01870-w
    • Contributors: Kolosowska, N.; Gotkiewicz, M.; Dhungana, H.; Giudice, L.; Giugno, R.; Box, D.; Huuskonen, M.T.; Korhonen, P.; Scoyni, F.; Kanninen, K.M. et al.

 

  1. PSEN1ΔE9, APPswe, and APOE4 Confer Disparate Phenotypes in Human iPSC-Derived Microglia
    • Journal: Stem Cell Reports
    • Year: 2019
    • DOI: 10.1016/j.stemcr.2019.08.004
    • Contributors: Konttinen, H.; Cabral-da-Silva, M.E.C.; Ohtonen, S.; Wojciechowski, S.; Shakirzyanova, A.; Caligola, S.; Giugno, R.; Ishchenko, Y.; Hernández, D.; Fazaludeen, M.F. et al.

Lumír Gvoždík| Evolutionary and Physiological Ecology

Assoc Prof Dr Lumír Gvoždík: Evolutionary and Physiological Ecology

 

Assistant Professor at Institute of Vertebrate Biology AS CR Czech Republic.

Congratulations, Assoc Prof Dr Lumír Gvoždík, on winning the esteemed Best Researcher Award from Young scientist Awards! Your dedication, innovative research, and scholarly contributions have truly made a significant impact in your field. Your commitment to advancing knowledge and pushing the boundaries of research is commendable. Here’s to your continued success in shaping the future of academia and making invaluable contributions to your field. Well done!🌞🌾

Professional Profile
🎓 EDUCATION:
  • 1995: Undergraduate study at Palacký University Olomouc, Faculty of Science, specializing in ‘Systematic Biology and Ecology.’
  • 1999: Ph.D. study at Palacký University Olomouc, Faculty of Science, specializing in ‘Zoology.’

 

Research Projects & Contributions:
  1. Faculty of Natural Sciences, Palacký University (1996): Thermoregulation of Lacerta vivipara along an altitudinal gradient.
  2. Czech Science Foundation (2000-2003): Thermal biology of newts, Triturus cristatus superspecies.
  3. Czech Science Foundation (2006-2008): Phenotypic plasticity of thermophysiological traits in newts.
  4. Czech Science Foundation (2010-2013): The role of predator-prey interactions in coadaptation of thermal biology.
  5. Czech Science Foundation (2015-2017): Thermal niche: the evaluation of the current concept in ectothermic vertebrates.
  6. Czech Science Foundation (2017-2019): Freshwater ectotherms under climate change: the role of phenotypic plasticity in life histories and trophic interactions.
💼 EMPLOYMENT:
  • Institute of Vertebrate Biology AS CR, Brno, 1998 – Present
🔍 CURRENT RESEARCH INTERESTS:
  • Phenotypic selection
  • Phenotypic plasticity
  • Species interactions
  • Energy metabolism
  • Thermal ecology
  • Herpetology
📚 SELECTED PUBLICATIONS:
  1. “Thermoregulatory opportunity and competition act independently on life-history traits in aquatic ectotherms” (Functional Ecology, 2022).
  2. “Impacts of predator-induced behavioral plasticity on the temperature dependence of predator–prey activity and population dynamics” (Journal of Animal Ecology, 2021).
  3. “Individual variation in seasonal acclimation by sympatric amphibians: a climate change perspective” (Functional Ecology, 2021).
  4. “Just what is the thermal niche?” (Oikos, 2018).
  5. “Plasticity of preferred body temperatures as a means of coping with climate change?” (Biology Letters, 2012).