Anubha Dey | Computational Biology | Best Researcher Award

Ms. Anubha Dey | Computational Biology | Best Researcher Award

 PHD, University of Hyderabad India

Anubha Dey is a dedicated Ph.D. researcher at the University of Hyderabad with a strong background in computational biology and machine learning. She has contributed significantly to understanding genetic interactions and cancer research through advanced modeling techniques. With a passion for teaching and mentoring, Anubha aspires to inspire future leaders in scientific innovation.

Professional Profile 

Scopus

Scholar

🎓Education

Ph.D. (Pursuing), University of Hyderabad, 2019-present. Master of Technology, Anna University, 2017-2019. Bachelor of Technology, Maulana Abul Kalam Azad University of Technology, West Bengal

💼Experience

Researcher: Developing machine learning models for cancer biology and genetic interactions. Assistant System Engineer-Trainee, Tata Consultancy Services, 2016-2017. Presented findings at renowned conferences like ICGA and CSHL

🏆Award and Honor

Best Oral Presentation, BioAnveshna 2024. Best Poster Presentation, International Cancer Symposium 2022. Selected for HySci 2024 Oral Talk, IIT Hyderabad. Qualified JEST 2019, a prestigious entrance test

🔬 Research Focus

Machine learning in genetic interaction prediction. Synthetic lethal interactions in cancer. Transcript complexity and RNA splicing. Chromatin loop dynamics and epigenetics

Publications Top Noted

  • Title: Chromatin loop dynamics during cellular differentiation are associated with changes to both anchor and internal regulatory features
    Year: 2023
    Authors: ML Bond, ES Davis, IY Quiroga, A Dey, M Kiran, MI Love, H Won
    Citation: Genome Research 33 (8), 1258-1268

 

  • Title: Inefficient splicing of long non-coding RNAs is associated with higher transcript complexity in human and mouse
    Year: 2023
    Authors: K Basu, A Dey, M Kiran
    Citation: RNA Biology 20 (1), 563-572

 

  • Title: MAGICAL: A multi-class classifier to predict synthetic lethal and viable interactions using protein-protein interaction network
    Year: 2024
    Authors: A Dey, S Mudunuri, M Kiran
    Citation: PLOS Computational Biology 20 (8), e1012336

 

  • Title: CaTCH: Calculating transcript complexity of human genes
    Year: 2024
    Authors: K Koushiki Basu, Anubha Dey
    Citation: Methodx

 

 

Tao Yun | Molecular Pathogenesis | Best Researcher Award

Prof. Tao Yun | Molecular Pathogenesis | Best Researcher Award

Research, Institute of Animal Husbandry and Veterinary Sciences, Zhejiang Academy of Agricultural Sciences, China

Tao Yun, PhD, is a distinguished researcher at the Institute of Animal Husbandry and Veterinary Sciences, Zhejiang Academy of Agricultural Sciences, China. Specializing in animal virology, he leads innovative studies on emerging viral diseases in poultry and vaccine development. With over two decades of experience, he has earned recognition for his contributions to veterinary science, including impactful publications and prestigious awards. His research emphasizes translational virology, merging basic science with practical applications to advance disease prevention and control in waterfowl and other species.

Publication Profile

Scopus

🎓 Education

Undergraduate (1997-2001): Veterinary Medicine, Shihezi University. Master’s (2001-2004): Animal Genetics, Breeding, and Reproduction Science, Shihezi University.  PhD (2007-2010): Preventive Veterinary Medicine, Northwest A&F University

💼 Experience

Researcher: Zhejiang Academy of Agricultural Sciences. Postgraduate Tutor: Zhejiang A&F University. Group Leader: Studying waterfowl viral pathogens like NDRV and TMUV

🏆 Awards & Honors

151 Talent Projects: Third-level training personnel in Zhejiang Province. Science Advancement Awards: For Tembusu virus and Rabbit Hemorrhagic Disease research

🔬 Research Focus

Emerging viral diseases in waterfowl, including NDRV and TMUV.  Vaccine development using animal herpesvirus vectors. Diagnostic tools for viral pathogen detection

Conclusion

Dr. Tao Yun is an outstanding candidate for the Best Researcher Award, given his impactful and innovative work in animal virology. His research on emerging viral diseases and vaccine development has significantly advanced the field, benefiting both academia and the agricultural industry. With a focus on continuous growth and broader collaborations, Dr. Yun’s potential to contribute to veterinary sciences remains unparalleled.

Publication Top Notes

2024

  1. Infection with novel duck reovirus induces stress granule and methylation-mediated host translational shutoff in Muscovy ducklings
    Authors: Yun, T.; Hua, J.; Chen, L.; … Zhu, Y.; Zhang, C.
    Journal: Communications Biology, 7(1), 1549
    Citations: 0
  2. Single-cell transcriptional profiling reveals cell type-specific responses to duck reovirus infection in the Bursa of Fabricius of Cairna moschata
    Authors: Yun, T.; Hua, J.; Ye, W.; … Zheng, C.; Zhang, C.
    Journal: International Journal of Biological Macromolecules, 281, 136391
    Citations: 0
  3. Complete Genome Sequence and Construction of an Infectious Bacterial Artificial Chromosome Clone of a Virulent Duck Enteritis Virus Strain XJ
    Authors: Huo, S.-X.; Zhu, Y.-C.; Chen, L.; … Bao, E.-D.; Zhang, C.
    Journal: Transboundary and Emerging Diseases, 2024, 1746963
    Citations: 0
  4. Development of a multienzyme isothermal and lateral flow dipstick combination assay for the rapid detection of goose astrovirus II
    Authors: Zhu, Y.; Chen, L.; Xu, X.; … Wang, H.; Zhang, C.
    Journal: Frontiers in Cellular and Infection Microbiology, 14, 1424212
    Citations: 0

2023

  1. High expression of the classical swine fever virus (CSFV) envelope protein E2 by a single amino acid mutation and its embedded in the pseudorabies virus (PRV) vector for immunization
    Authors: Sun, Y.-Y.; Liu, K.-S.; Yun, T.; … Bao, E.-D.; Zhang, C.
    Journal: Virus Research, 331, 199111
    Citations: 1
  2. Study on the Protective Immunity Induced by Pseudotyped Baculovirus Expressing the E Protein of Tembusu Virus in Ducklings
    Authors: Ni, Z.; Yun, T.; Chen, L.; … Liu, G.; Zhang, C.
    Journal: Genes, 14(7), 1316
    Citations: 1
  3. Inactivation Performance of Pseudorabies Virus as African Swine Fever Virus Surrogate by Four Commercialized Disinfectants
    Authors: Ni, Z.; Chen, L.; Yun, T.; … Zhu, Y.; Zhang, C.
    Journal: Vaccines, 11(3), 579
    Citations: 0
  4. Recombinant pseudorabies virus (PRV) expressing stabilized E2 of classical swine fever virus (CSFV) protects against both PRV and CSFV
    Authors: Sun, Y.-Y.; Liu, K.-S.; Zhang, C.; … Yun, T.; Bao, E.-D.
    Journal: Antiviral Research, 211, 105548
    Citations: 5
  5. Distinct Whole Transcriptomic Profiles of the Bursa of Fabricius in Muscovy Ducklings Infected by Novel Duck Reovirus with Different Virulence
    Authors: Yun, T.; Hua, J.; Ni, Z.; … Zhu, Y.; Zhang, C.
    Journal: Viruses, 15(1), 111
    Citations: 2

2022

  1. Isolation and Pathogenicity of a Novel Goose Astrovirus from Overfed Adult Landaise Geese in China
    Authors: Zhu, Y.; Wang, H.; Hua, J.; … Bao, E.; Zhang, C.
    Journal: Viruses, 14(12), 2806
    Citations: 8

 

 

Afif Ben Mahmoud | Genomics | Excellence in Research

 Dr. Afif Ben Mahmoud | Genomics | Excellence in Research  

 Dr at Qatar Biomedical Research Institute,  Qatar

Afif Ben Mahmoud, Ph.D., is a Senior Research Associate at the Neurological Disorders Research Center, Qatar Biomedical Research Institute, Hamad Bin Khalifa University, in Doha, Qatar. A Tunisian national, Dr. Ben Mahmoud specializes in human molecular genetics and has dedicated over ten years to researching neurological disorders and genetic diseases. He holds a Ph.D. in Biological Sciences and has made significant contributions to understanding neurodevelopmental disorders through innovative research techniques and mentoring graduate students. His work emphasizes the identification of genetic factors in various disorders, making him a vital asset to the scientific community in Qatar and beyond.

Profile

Scopus

Scholar

Education 🎓

Dr. Ben Mahmoud earned his Ph.D. in Biological Sciences (Human Molecular Genetics) from the Faculty of Sciences of Sfax, University of Sfax, Tunisia, in 2015. Prior to this, he obtained a Master’s degree in Genetics and Biodiversity from the Higher Institute of Biotechnology of Monastir, Tunisia, in 2009. His academic journey began with an Engineering degree in Animal Production from the Higher School of Agronomy of Mateur, University of Carthage, Tunisia, in 2007. This solid educational foundation has equipped him with the necessary skills and knowledge to excel in his research endeavors.

Experience 💼

Since 2019, Dr. Ben Mahmoud has served as a Senior Research Associate at the Qatar Biomedical Research Institute, where he identifies and characterizes candidate genes for neurodevelopmental disorders by analyzing whole exome and whole genome sequencing data. Before this, he was a Postdoctoral Researcher at the College of Medicine and Health Sciences, University of UAE, from 2016 to 2018, focusing on genomic and cellular studies of autosomal recessive disorders. He has also taught cell biology and genetics at various higher education institutions in Tunisia, contributing to the academic development of future scientists.

Awards and Honors 🏆

Dr. Ben Mahmoud has received recognition for his contributions to genetic research and education. He participated in the development of cell lines using CRISPR-Cas9 technology at UAEU, which aims to better understand diseases. His work has been featured in multiple peer-reviewed publications, establishing him as an authority in his field. He has been actively involved in mentoring students, fostering the next generation of researchers, and enhancing the academic environment in which he works.

Research Focus 🔬

Dr. Ben Mahmoud’s research primarily focuses on neurological disorders and human genetic diseases, specifically identifying the genetic basis of neurodevelopmental disorders. He employs advanced techniques such as next-generation sequencing and molecular biology methods to analyze candidate genes. His recent studies aim to elucidate the cellular mechanisms behind disease-causing mutations, contributing to the broader understanding of genetic disorders. Dr. Ben Mahmoud’s work is instrumental in developing targeted therapeutic strategies, enhancing the potential for personalized medicine in treating complex genetic conditions.

Conclusion 📝

Dr. Afif Ben Mahmoud exemplifies excellence in research through his substantial contributions to the field of neurological disorders and human genetics. His extensive experience, technical expertise, and commitment to mentorship position him as a strong candidate for the Excellence in Research Award. By addressing potential areas for improvement, such as broadening his research focus and enhancing public engagement, Dr. Ben Mahmoud could further amplify his impact within the scientific community and beyond. His ongoing work promises to advance our understanding of complex genetic diseases, making him a valuable asset to the field.

Publications Top Notes

  • Antagonist effects of Bacillus spp. strains against Fusarium graminearum for protection of durum wheat (Triticum turgidum L. subsp. durum)
    • Authors: I Zalila-Kolsi, AB Mahmoud, H Ali, S Sellami, Z Nasfi, S Tounsi, …
    • Journal: Microbiological Research, 2016
    • Pages: 148-158

 

  • Mitochondrial DNA mutations and polymorphisms in asthenospermic infertile men
    • Authors: S Baklouti-Gargouri, M Ghorbel, A Ben Mahmoud, E Mkaouar-Rebai, …
    • Journal: Molecular Biology Reports, 2013
    • Volume/Pages: 40, 4705-4712

 

  • A novel mutation MT-COIII m.9267G>C and MT-COI m.5913G>A mutation in mitochondrial genes in a Tunisian family with maternally inherited diabetes and deafness (MIDD)
    • Authors: M Tabebi, E Mkaouar-Rebai, M Mnif, F Kallabi, AB Mahmoud, WB Saad, …
    • Journal: Biochemical and Biophysical Research Communications, 2015
    • Volume/Pages: 459(3), 353-360

 

  • Genetics of hypogonadotropic hypogonadism—Human and mouse genes, inheritance, oligogenicity, and genetic counseling
    • Authors: ED Louden, A Poch, HG Kim, A Ben-Mahmoud, SH Kim, LC Layman
    • Journal: Molecular and Cellular Endocrinology, 2021
    • Volume: 534, 111334

 

  • Identification of a novel m.9588G>A missense mutation in the mitochondrial COIII gene in asthenozoospermic Tunisian infertile men
    • Authors: S Baklouti-Gargouri, M Ghorbel, A Ben Mahmoud, E Mkaouar-Rebai, …
    • Journal: Journal of Assisted Reproduction and Genetics, 2014
    • Volume/Pages: 31, 595-600

 

  • A novel aberrant splice site mutation in COL27A1 is responsible for Steel syndrome and extension of the phenotype to include hearing loss
    • Authors: N Gariballa, A Ben-Mahoud, M Komara, AM Al-Shamsi, …
    • Journal: American Journal of Medical Genetics Part A, 2017
    • Volume/Pages: 173(5), 1257-1263

 

  • Whole mitochondrial genome screening of a family with maternally inherited diabetes and deafness (MIDD) associated with retinopathy: A putative haplotype associated to MIDD and its phenotypic implications
    • Authors: M Tabebi, N Charfi, F Kallabi, O Alila-Fersi, AB Mahmoud, A Tlili, …
    • Journal: Journal of Diabetes and its Complications, 2017
    • Volume/Pages: 31(1), 253-259

 

  • Two novel mutations in COII and tRNAHis mitochondrial genes in asthenozoospermic infertiles men
    • Authors: BG Siwar, G Myriam, BM Afif, MR Emna, C Nozha, S Afifa, F Faiza, …
    • Journal: Biochemical and Biophysical Research Communications, 2014
    • Volume/Pages: 450(1), 610-615

 

  • A novel m.6307A>G mutation in the mitochondrial COXI gene in asthenozoospermic infertile men
    • Authors: S Baklouti-Gargouri, M Ghorbel, A Ben Mahmoud, E Mkaouar-Rebai, …
    • Journal: Molecular Reproduction and Development, 2013
    • Volume/Pages: 80(7), 581-587

 

  • Bacillus amyloliquefaciens: Harnessing Its Potential for Industrial, Medical, and Agricultural Applications—A Comprehensive Review
    • Authors: I Zalila-Kolsi, A Ben-Mahmoud, R Al-Barazie
    • Journal: Microorganisms, 2023
    • Volume/Pages: 11(9), 2215

 

  • Novel cases of Tunisian patients with mutations in the gene encoding 17β-hydroxysteroid dehydrogenase type 3 and a founder effect
    • Authors: BB Rhouma, F Kallabi, N Mahfoudh, AB Mahmoud, RT Engeli, H Kamoun, …
    • Journal: The Journal of Steroid Biochemistry and Molecular Biology, 2017
    • Volume/Pages: 165, 86-94

 

  • Eif2b3 mutants recapitulate phenotypes of vanishing white matter disease and validate novel disease alleles in zebrafish
    • Authors: YR Lee, SH Kim, A Ben-Mahmoud, OH Kim, TI Choi, KH Lee, B Ku, J Eum, …
    • Journal: Human Molecular Genetics, 2021
    • Volume/Pages: 30(5), 331-342

 

Shen Zhang | Proteomics | Best Researcher Award

Assoc Prof Dr. Shen Zhang | Proteomics | Best Researcher Award

Shen Zhang is an Associate Professor and Director of the Mass Spectrometry Platform at the Reproductive and Genetic Hospital of CITIC-XIANGYA, Changsha, China. He earned his B.Sc. in Chemistry from Hunan University and his Ph.D. in Analytical Chemistry from Dalian Institute of Chemical Physics, Chinese Academy of Sciences. Zhang’s research focuses on advanced mass spectrometry techniques and proteomics. His notable achievements include the Hundred Youth Talents Program of Hunan Province award and the ASMS Post-Doctoral Career Development Award. He has held prestigious positions at the Lunenfeld-Tanenbaum Research Institute and the University of Toronto. Zhang has published extensively in high-impact journals and serves as a reviewer and guest editor for various scientific publications.

Publication Profile

Orcid

🎓 Academic and Training Background

Hunan University B.Sc. in Chemistry, 2006-2010. Dalian Institute of Chemical Physics, Chinese Academy of Sciences
Ph.D. in Analytical Chemistry, 2010-2015 (Supervised by Yukui Zhang and Lihua Zhang)

💼 Work Experience

Reproductive and Genetic Hospital of CITIC-XIANGYA Associate Professor & Director of the Mass Spectrometry Platform
August 2021 – Present. Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Canada Research Fellow May 2016 – May 2021. University of Toronto and SCIEX Global LCMS R&D Center, Canada Mitacs Elevate Postdoctoral Fellow December 2017 – December 2019

🏆 Selected Accomplishments and Honors

April 2022: Hundred Youth Talents Program of Hunan Province. June 2018: ASMS Post-Doctoral Career Development Award. November 2017: CSMS Travel Award. June 2017: Mitacs Elevate Postdoctoral Fellowship. February 2017: Travel Award from Lunenfeld-Tanenbaum Research Institute. November 2016: 2016-2017 Trainees Innovation Grant. May 2015: Excellent Students in Chinese Academy of Sciences. April 2015: Student Travel Grant for MSB 2015. June 2010: Outstanding Dissertation, Hunan University

 

🏆 Strengths for the Award

  1. Outstanding Academic Background:
    • Shen Zhang holds a B.Sc. in Chemistry from Hunan University and a Ph.D. in Analytical Chemistry from the Dalian Institute of Chemical Physics, showcasing a strong academic foundation in his field.
  2. Significant Research Contributions:
    • Zhang’s publications in high-impact journals like Analytical Chemistry, Journal of Proteome Research, and Frontiers in Molecular Biosciences reflect his substantial contributions to the field of mass spectrometry and proteomics.
  3. Prestigious Fellowships and Awards:
    • He has received notable awards including the ASMS Post-Doctoral Career Development Award and the Mitacs Elevate Postdoctoral Fellowship, recognizing his exceptional research achievements.
  4. Leadership and Innovation:
    • As the Director of the Mass Spectrometry Platform at the Reproductive and Genetic Hospital of CITIC-XIANGYA, Zhang demonstrates leadership and innovation in applying advanced mass spectrometry techniques.
  5. Editorial and Reviewing Roles:
    • His roles as Guest Editor and Reviewer for several esteemed journals highlight his expertise and influence in the scientific community.
  6. Successful Collaborative Projects:
    • Zhang’s successful collaborations with international researchers and institutions underscore his ability to work effectively in multidisciplinary teams.

🔍 Areas for Improvement

  1. Broader Research Impact:
    • While Zhang has a strong publication record, expanding research into broader applications or emerging areas of proteomics could enhance the impact of his work.
  2. Increased Public Engagement:
    • Greater efforts in public engagement and science communication could help in translating his research findings to a wider audience, increasing the societal impact of his work.
  3. Diversified Funding Sources:
    • Seeking diverse funding opportunities beyond traditional fellowships might support further innovative research and expansion of his research platform.

Publications:

  1. Title: High-resolution quadrupole improves spectral purity and reduces interference from non-target ions in isobaric multiplexed quantitative proteomics
    Year: 2024
    Author: Shen Zhang; J.C. Yves Le Blanc; Brett Larsen; Karen Colwill; Lyle Burton; Mircea Guna; Anne-Claude Gingras; Stephen Tate

 

  1. Title: Homozygous ACTL9 mutations cause irregular mitochondrial sheath arrangement and abnormal flagellum assembly in spermatozoa and male infertility
    Year: 2024
    Author: Qi Li; Yilian Huang; Shen Zhang; Fei Gong; Guangxiu Lu; Ge Lin; Jing Dai

 

  1. Title: In-Depth Endogenous Phosphopeptidomics of Serum with Zirconium(IV)-Grafted Mesoporous Silica Enrichment
    Year: 2024
    Author: Ci Wu; Shen Zhang; Chunyan Hou; Stephen Byers; Junfeng Ma

 

  1. Title: All-in-One digital microfluidics pipeline for proteomic sample preparation and analysis
    Year: 2023
    Author: Jiaxi Peng; Calvin Chan; Shuailong Zhang; Alexandros A. Sklavounos; Maxwell E. Olson; Erica Y. Scott; Yechen Hu; Vigneshwar Rajesh; Bingyu B. Li; M. Dean Chamberlain et al.

 

  1. Title: On-capillary alkylation micro-reactor: a facile strategy for proteo-metabolome profiling in the same single cells
    Year: 2023
    Author: Yingyun He; Huiming Yuan; Yu Liang; Xinxin Liu; Xiaozhe Zhang; Yahui Ji; Baofeng Zhao; Kaiguang Yang; Jue Zhang; Shen Zhang et al.

 

  1. Title: Trace Sample Proteome Quantification by Data-Dependent Acquisition without Dynamic Exclusion
    Year: 2023
    Author: Ci Wu; Jiao Lei; Fei Meng; Xingyao Wang; Cassandra J. Wong; Jiaxi Peng; Ge Lin; Anne-Claude Gingras; Junfeng Ma; Shen Zhang

🏅 Conclusion

Shen Zhang is a highly qualified candidate for the Research for Best Researcher Award. His impressive academic achievements, significant research contributions, prestigious awards, and leadership in mass spectrometry research demonstrate his excellence and potential. By addressing areas for improvement such as expanding research impact and increasing public engagement, Zhang could further enhance his contributions to the field and make a strong case for the award.

Annesha Chakraborty| Bioinformatics | Women Researcher Award

 Dr. Annesha Chakraborty | Bioinformatics | Women Researcher Award

 Dr. SASTRA DEEMED UNIVERSITY

👩‍🔬 A highly motivated Ph.D. candidate at SASTRA Deemed University, specializing in Bioinformatics and Biomolecular Crystallography, with hands-on experience in molecular docking, dynamics, and laboratory techniques. Possessing an M.Sc. in Microbiology and B.Sc. (Hons.) in Microbiology, Chemistry, and Botany, I excel in research and academic achievements. As a Research Intern at MEAB LAB and Lab Tech. Intern at Suraksha Diagnostic Pvt. Ltd., I contributed to multiple publications and gained expertise in DNA/RNA extraction and PCR. Currently engaged in molecular dynamics studies on COVID Mpro, biomass production, and A.baumannii’s efflux pump research. Passionate about advancing scientific knowledge and addressing real-world challenges.🌟

 

Profile

Orcid

Scholar

 

🎓 Education

Doctor of Philosophy (2023-Ongoing) SASTRA Deemed University, India Bioinformatics Center and Biomolecular Crystallography Lab, under the supervision of Dr. S. Thamotharan and co-supervision of Dr. Vigneshwer R. Currently pursuing research funded by DBT-govt. of India. M.Sc in Microbiology (2020-2022) Grade: A+ (80%) [Ranked 4th] B.Sc (Hons.) in Microbiology (2017-2020) Optional subjects: Chemistry and Botany Grade: B+ 12th (High School) (2015-2017) Science stream

🔬 Key Skills

  • Molecular Docking
  • Molecular Dynamics
  • Schrodinger
  • Pymol
  • MegaAUTODOCK
  • Agarose Gel Electrophoresis
  • ELISA
  • qPCR
  • RT-PCR
  • Flow Cytometry
  • Online tools for nucleic acid or protein sequence-based analysis (Expasy, Clustal Omega, NCBI)

💼 Work Experience

Research Intern at MEAB LAB (08/2021-09/2022) JIS University (Hybrid mode) Responsibilities: Worked on current research projects with PhD scholars as a Project Associate Intern. Co-authored 3 review articles and 1 book chapter, and contributed to 3 research projects. Previously worked here for Master’s thesis paper. Lab Tech Intern at Suraksha Diagnostic Pvt. Ltd. (12.08.2022-24.08.2022) Responsibilities: Conducted DNA and RNA extraction for PCR to detect HLA, hepatitis B, hepatitis C, and Covid-19 virus. Performed RT-PCR and real-time PCR to detect RNA and DNA viruses.

Publications Top Notes 📝

  1. Title: Lignocellulolytic Microbial Systems and its Importance in Dye Decolourization: A Review

 

  1. Title: Microbial electrolysis cells for effective biohydrogen biogenesis from biowastes

 

  1. Title: Algae educed industrial enzymes production: a sustainable way forward?
    • Book: Industrial Microbiology
    • ISBN: 978-93-5461-997-7
    • Publisher: Astral International Pvt. Ltd. (Scopus)

Somayeh Hashemi Sheikhshabani | Human Genetics | Best Researcher Award

Dr. Somayeh Hashemi Sheikhshabani | Human Genetics | Best Researcher Award

👨‍🏫Profile Summary

I am a highly skilled researcher specializing in Medical Genetics with a focus on Cancer Biology, Cancer Drug Resistance, Noncoding RNAs, Computational Biology, and Genetics of Rare Diseases. With a Ph.D. from Shahid Beheshti University of Medical Sciences, Tehran, Iran, and a strong background in Cellular and Molecular Biology, I’ve conducted extensive research on genetic analysis of male infertility, identification of genes involved in various cancers, and prediction of regulatory networks using bioinformatics tools. Proficient in a wide range of experimental techniques and software applications, I am dedicated to advancing knowledge in genetics and contributing to the development of innovative therapies.

 

🌐 Professional Profiles

Education 📚

PhD in Medical Genetics Shahid Beheshti University of Medical Sciences, Tehran, Iran September 23, 2019 – October 7, 2023 PhD Thesis: Genetic investigation of non-obstructive azoospermia families with cytogenetic and molecular genetic tests, and determining the relationship between genetic and clinical findings of patients.M.Sc. in Cellular and Molecular Biology National Institute of Genetic Engineering and Biotechnology, Tehran, Iran September 23, 2010 – October 27, 2012 Master Thesis: Alkaloid extract of Peganum harmala L. seed on the expression of Bax and Bcl-2 genes involved in mitochondrial apoptosis pathway in cancer cells.B.Sc. in Molecular Genetics Shahrekord University, Shahrekord, Iran September 23, 2005 – October 7, 2009

Research Interests 🔬

  • Cancer Biology
  • Cancer Drug Resistance
  • Noncoding RNAs
  • Computational Biology
  • Genetics of Rare Diseases

Research Projects 🧬

Genetic analysis of male infertility in a family using Whole Exome Sequencing. (Student Research Committee, Department of Medical Genetics, Shahid Beheshti University of Medical Sciences, Tehran, Iran; 2024)In silico prediction of non-coding RNA-gene regulatory network in primary gonad failure defects. (Student Research Committee, Department of Medical Genetics, Shahid Beheshti University of Medical Sciences, Tehran, Iran; 2024)In silico identification of functional single nucleotide polymorphisms of azoospermia genes. (Student Research Committee, Department of Medical Genetics, Shahid Beheshti University of Medical Sciences, Tehran, Iran; 2024)In silico prediction of coagulation system functional polymorphisms. (Student Research Committee, Department of Medical Genetics, Shahid Beheshti University of Medical Sciences, Tehran, Iran; 2024)Identification of genes involved in Imatinib resistance in chronic myeloid leukemia (CML). (Student Research Committee, Department of Medical Genetics, Shahid Beheshti University of Medical Sciences, Tehran, Iran; 2024)Genetic analysis of families with non-obstructive azoospermia by Whole Exome Sequencing. (Department of Medical Genetics, Shahid Beheshti University of Medical Sciences, Tehran, Iran; 2024)Genetic investigation of infertility in an Iranian family with infertility in both sexes. (Department of Medical Genetics, Shahid Beheshti University of Medical Sciences, Tehran, Iran; 2023)Prediction of tissue-specific inflammatory LncRNAs in COVID-19 patients. (Student Research Committee, Department of Medical Genetics, Shahid Beheshti University of Medical Sciences, Tehran, Iran; 2021-2024)Identification of inflammatory miRNAs associated with COVID-19 and determination of their potential target genes using bioinformatics tools. (Student Research Committee, Department of Medical Genetics, Shahid Beheshti University of Medical Sciences, Tehran, Iran; 2021-2023)Identification of genes involved in the development of chemotherapy resistance in lung cancer. (Student Research Committee, Department of Medical Genetics, Shahid Beheshti University of Medical Sciences, Tehran, Iran; 2021-2024)Identification of common polymorphisms in the host antioxidant pathway against viruses and prediction of their effects. (Student Research Committee, Department of Medical Genetics, Shahid Beheshti University of Medical Sciences, Tehran, Iran; 2021-2024)Identification of genes involved in the development of chemotherapy resistance in ovarian cancer. (Student Research Committee, Department of Medical Genetics, Shahid Beheshti University of Medical Sciences, Tehran, Iran; 2021-2023)Investigation of the effect of oleuropein on miR-125b and miR-34a expression in ovarian cancer cell lines. (Cellular and Molecular Research Center, Shahrekord University of Medical Sciences; 2019-2020)Investigation of the effect of oleuropein on miR-181b and miR-21 expression in breast cancer cell line. (Cellular and Molecular Research Center, Shahrekord University of Medical Sciences; 2019-2020)Investigation of the effect of oleuropein on the expression of genes involved in apoptosis in cisplatin-resistant ovarian cell line. (Cellular and Molecular Research Center, Shahrekord University of Medical Sciences; 2019-2020)Study of the effect of nanoparticles containing altretiamine and arstin on ferroptosis in ovarian cancer cell line. (Cellular and Molecular Research Center, Shahrekord University of Medical Sciences; 2016-2020)Study of the effect of nanoparticles containing altretamine on ferroptosis-apoptosis in ovarian cancer cell line. (Cellular and Molecular Research Center, Shahrekord University of Medical Sciences; 2018-2019)Genetic etiology determination of non-syndromic hearing loss families using Whole Exome Sequencing. (Cellular and Molecular Research Center, Shahrekord University of Medical Sciences; 2018-2019)

Skills 🛠️

A. Experimental Techniques:Human cell cultureMTT assay (Drugs, Natural products, Nanoparticles)DNA and RNA extractionApoptosis assayROS assayElectrophoresisQuantitative PCRConventional PCRSonicationNanodropKaryotypingSanger sequencingWhole exome sequencingB. Software Ability:Various microRNA databases (TargetScan, miRBase, miRWalk, etc.)Various lncRNA databases (starBase, LncBase, etc.)Pathway databases (KEGG, WikiPathways, Reactome)Variant prediction tools (SIFT, Mutation Taster, Polyphen, CADD, etc.)Genome browsers (NCBI, Ensembl, UCSC)Primer design software and tools (AlleleID, Primer3, Oligo 7, etc.)Sequence analysis software (QIAGEN CLC Genomics Workbench, Mutation Surveyor, FinchTV, etc.)STRINGDBCytoscapeGene RunnerGenome expression databases (GEO, GTEx, etc.)

Workshops 📚

 

  • Various workshops covering topics such as predicting LncRNAs, the role of biological systems in cancer, electronic resource investigation, Next Generation sequencing, molecular techniques, article writing, PCR, and bioinformatics.

📚Top Noted Publication

  1. Title: The effect of oleuropein on apoptotic pathway regulators in breast cancer cells
    • Journal: European Journal of Pharmacology
    • Year: 2020
    • Volume: 886
    • Pages: 173509
    • Citations: 43

 

  1. Title: Peganum harmala L.’s anti-growth effect on a breast cancer cell line
    • Journal: Biotechnology reports
    • Year: 2015
    • Volume: 8
    • Pages: 138-143
    • Citations: 39

 

  1. Title: Oleuropein reduces cisplatin resistance in ovarian cancer by targeting apoptotic pathway regulators
    • Journal: Life Sciences
    • Year: 2021
    • Volume: 278
    • Pages: 119525
    • Citations: 26

 

  1. Title: Growth inhibitory impact of Peganum harmala L. on two breast cancer cell lines
    • Journal: Iranian journal of biotechnology
    • Year: 2014
    • Volume: 12
    • Issue: 1
    • Pages: 8-14
    • Citations: 23

 

  1. Title: The impact of oleuropein on miRNAs regulating cell death signaling pathway in human cervical cancer cells
    • Journal: Biotechnology and Applied Biochemistry
    • Year: 2024
    • Volume: 71
    • Issue: 1
    • Pages: 61-71
    • Citations: 1

 

  1. Title: In Silico Prediction of Functional SNPs Interrupting Antioxidant Defense Genes in Relation to COVID-19 Progression
    • Journal: Biochemical Genetics
    • Year: 2024
    • Pages: 1-27

 

  1. Title: Meta-analysis of microarray data to determine gene indicators involved in the cisplatin resistance in ovarian cancer
    • Journal: Cancer Reports
    • Year: 2023
    • Volume: 6
    • Issue: 12
    • Pages: e1884

Yubo ZHANG | Genomics Award | Best Researcher Award

Prof. Yubo ZHANG | Genomics Award | Best Researcher Award

👨‍🏫Profile Summary

As a senior genomic scientist with over a decade of experience specializing in 3D genome research, I have a proven track record of leveraging cutting-edge technologies to investigate the dynamic functions of transcription factors (TFs) and genes within intricate genomes. My work has significantly contributed to enhancing our understanding of enhancer-promoter interactions and gene expression regulation. Currently, I am seeking a role where I can utilize my expertise in translational applications, particularly in identifying novel drug targets and optimizing therapeutic approaches in areas such as cancer and stem cell research.

🌐 Professional Profiles

Education🎓

Certification in Intro + Intermediate Python, CyberWeb Consulting, USA (2012): Enhanced computational skills for genomic data analysis and bioinformatics. Ph.D. in Hydrobiology, Institute of Hydrobiology (IHB), Chinese Academy of Sciences (CAS), China (2007): Conducted research on aquatic ecosystems, providing a solid foundation in biological sciences. M.S. in Molecular Biology and Animal Breeding, Huazhong Agricultural University, China (2004): Specialized in molecular biology techniques and genetic breeding strategies. B.S. in Animal Husbandry, Huazhong Agricultural University, China (2000): Acquired fundamental knowledge in animal science and husbandry practices.

🔬 Researcher Experience

Principal Investigator, Agricultural Genomics Institute at ShenZhen, CAAS, China (2016/05-2023/12): Led research projects focusing on elucidating the mechanisms underlying 3D genome organization and function. Director, NGS Facility, Agricultural Genomics Institute at ShenZhen, CAAS, China (2016/10-2023/12): Oversaw the operations of the Next-Generation Sequencing (NGS) facility, ensuring high-quality genomic data generation and analysis. Research Fellow, National Institutes of Health, USA (2013/04-2016/05): Conducted research on transcriptional regulation and chromatin architecture, contributing to advancements in understanding gene regulation networks. Post-doctoral Fellow, Lawrence Berkeley National Laboratory, USA (2011/01-2013/03): Investigated the role of chromatin remodeling complexes in gene expression control, utilizing state-of-the-art genomic techniques. Post-doctoral Fellow, Genome Institute of Singapore, Singapore (2008/01-2011/01): Explored the epigenetic regulation of stem cell differentiation pathways, with a focus on chromatin modifications.

Awards 🏆

The Elite Leading Scientists of CAAS, Category B, China, 2017, The Thousand Talents Plan, Youth, China, 2017, Distinguish Scientist Award, NIH-CAAS, USA, 2016, Overseas High-Caliber Personnel, Level B, ShenZhen, China, 2016, National-Level Talent, ShenZhen, China, 2015, Youth Talent Program, Category A, CAAS, China, 2015, Special Award, Genome Institute of Singapore, Singapore, 2010, Special Award, Genome Institute of Singapore, Singapore, 2009

📝Membership in Societies and Editorial Boards:

Committee, China Anti-Cancer Association (CACA), 2021-present, Editorial Board Member, Pathology and Laboratory Medicine, 2021-present, Editorial Board Member, Chinese Journal of Biochemistry and Molecular Biology, 2021-present, Editorial Board Member, Chinese Journal of Herbivores, 2019-present, Member, The Chinese Society of Biochemistry & Molecular Biology, 2019-present, Advanced Member, Chinese Association of Animal Science and Veterinary Medicine, CAAV, 2018-present, Committee, National Yak Industry Quality Improvement and Efficiency Technology Innovation, 2018-present, Committee, National Special Economic Animal Science and Efficiency Technology Innovation, 2018-present, Deputy Editor-in-Chief/Editorial Board Member, Global Journal of Animal Sciences and Medicine, 2018-present, Committee, National Agricultural Genomics Innovation, 2017-present, Editorial Board Member, Animal Models and Experimental Medicine, 2017-presen

🎖️Research Grants Awarded:

Principal Investigator, Study on the regulation of Sox2 gene in embryonic stem cells by different long-distance gene interactions, National Natural Science Foundation of China, 31970592, 2020.01-2023.12, 0.58 million CNY. (Competitive Project), Principal Investigator, Research and application of key technologies for yak genetic modification and efficient breeding in Taxian County, Shenzhen Science and Technology Program, KCXFZ20201221173205015, 2021.01-2023.12, 4.00 million CNY. (Competitive Project), Principal Investigator, Analysis of synthetic pathways and heterologous expression of active natural products such as anti-tumor and anti-infection (sub-project). National Key Research and Development Program of China, SQ2018YFA090005, 2019.07-2014.06, 1.28 million CNY. (Competitive Project), Principal Investigator, Construction of cross-species three-dimensional genomics platform, Basic scientific research business fund of CAAS, Y2019PT18-02, 2019.01-2019.12, 0.20 million CNY. (Institute Funding), Principal Investigator, “Pearl River Talents Plan” Leading Talents, 2017GC010063, 2017.05-2021.12, 0.81 million CNY. (Competitive Project)

📚Top Noted Publication

  1. Distinct enhancer-promoter modes determine Sox2 regulation in mouse pluripotent cells
    • Source: Genes & Diseases
    • Publication Date: 2024-01
    • DOI: 10.1016/j.gendis.2022.11.019
    • Contributors: Lei Huang; Xiusheng Zhu; Qing Li; Dashuai Kong; Qitong Huang; Jing Luo; Siyuan Kong; Yanling Peng; Yubo Zhang

 

  1. MAE-seq refines regulatory elements across the genome
    • Source: Nucleic Acids Research
    • Publication Date: 2023-11-10
    • DOI: 10.1093/nar/gkad1129
    • Contributors: Yubo Zhang; Xiusheng Zhu; Qitong Huang; Lei, Huang; Jing Luo; Qing` Li; Dashuai Kong; Yi Gu; Xueyan Wang; Chenying Li et al.

 

  1. Exploring the Role of Enhancer-Mediated Transcriptional Regulation in Precision Biology
    • Source: International Journal of Molecular Sciences
    • Publication Date: 2023-06-29
    • DOI: 10.3390/ijms241310843
    • Contributors: Xueyan Wang; Danli Liu; Jing Luo; Dashuai Kong; Yubo Zhang

 

  1. Genome-wide identification of silencers in human cells
    • Source: Preprint
    • Publication Date: 2023-06-23
    • DOI: 10.1101/2023.06.20.545673
    • Contributors: Xiusheng Zhu; Chao Wang; Dashuai Kong; Jing Luo; Biao Deng; Yi Gu; Siyuan Kong; Lei Huang; Yuwen Liu; Yubo Zhang

 

  1. Nucleosome-Omics: A Perspective on the Epigenetic Code and 3D Genome Landscape
    • Source: Genes
    • Publication Date: 2022-06-22
    • DOI: 10.3390/genes13071114
    • Contributors: Siyuan Kong; Yuhui Lu; Shuhao Tan; Rongrong Li; Yan Gao; Kui Li; Yubo Zhang

 

  1. Baiting out a full length sequence from unmapped RNA-seq data
    • Source: BMC Genomics
    • Publication Date: 2021-12
    • DOI: 10.1186/s12864-021-08146-4
    • Contributors: Dongwei Li; Qitong Huang; Lei Huang; Jikai Wen; Jing Luo; Qing Li; Yanling Peng; Yubo Zhang

 

  1. A single-cell genomic strategy for alternative transcript start sites identification
    • Source: Preprint
    • Publication Date: 2021-12-10
    • DOI: 10.1101/2021.12.09.472038
    • Contributors: Yanling Peng; Qitong Huang; Rui Kamada; Keiko Ozato; Yubo Zhang; Jun Zhu

 

  1. Induce Pluripotency via Specific distal enhancer-promoter associations
    • Source: Other
    • Publication Date: 2021-06-10
    • DOI: 10.1101/2021.06.09.447809
    • Contributors: Xiusheng Zhu; Lei Huang; Dongwei Li; Jing Luo; Qitong Huang; Xueyan Wang; Yubo Zhang

 

  1. Comparative Analysis of Super-enhancers Across Mammals Reveals Their High Function Conservation
    • Source: Other
    • Publication Date: 2020-12-08
    • DOI: 10.21203/rs.3.rs-121951/v1
    • Contributors: Yanling Peng; Yubo Zhang

 

  1. Exonuclease combinations reduce noises in 3D genomics technologies
    • Source: Nucleic Acids Research
    • Publication Date: 2020-03-04
    • DOI: 10.1093/nar/gkaa106
    • Contributors: Yubo Zhang