Editorial Material
Multidisciplinary Sciences
Ran Elkon, Reuven Agami
Summary: Basic design principles that protect enhancer networks against the harmful effects of genetic mutations have been elucidated.
Article
Public, Environmental & Occupational Health
Lisa J. Martin, Liza Bronner Murrison, Melinda Butsch Kovacic
Summary: The study recruited 1,020 children aged 3-18 in the Greater Cincinnati Metropolitan region, with 84% non-Hispanic white, 15% non-Hispanic black participants. Participants showed marked demographic and disease burden differences by race, with the cohort broadly used in publications, grants, and patents.
FRONTIERS IN PUBLIC HEALTH
(2021)
Article
Biology
M. Elise Lauterbur, Maria Izabel A. Cavassim, Ariella L. Gladstein, Graham Gower, Nathaniel S. Pope, Georgia Tsambos, Jeffrey Adrion, Saurabh Belsare, Arjun Biddanda, Victoria Caudill, Jean Cury, Ignacio Echevarria, Benjamin C. Haller, Ahmed R. Hasan, Xin Huang, Leonardo Nicola Martin Iasi, Ekaterina Noskova, Jana Obsteter, Vitor Antonio Correa Pavinato, Alice Pearson, David Peede, Manolo F. Perez, Murillo F. Rodrigues, Chris C. R. Smith, Jeffrey P. Spence, Anastasia Teterina, Silas Tittes, Per Unneberg, Juan Manuel Vazquez, Ryan K. Waples, Anthony Wilder Wohns, Yan Wong, Franz Baumdicker, Reed A. Cartwright, Gregor Gorjanc, Ryan N. Gutenkunst, Jerome Kelleher, Andrew D. Kern, Aaron P. Ragsdale, Peter L. Ralph, Daniel R. Schrider, Ilan Gronau
Summary: Simulation is crucial for population genetics research, but it remains a challenge to produce simulations that accurately represent genomic datasets. The development of more realistic simulations has become possible with advances in genetic data and simulation software. However, it still requires significant time and specialized knowledge.
Review
Nanoscience & Nanotechnology
Niyazi Ulas Dinc, Amirhossein Saba, Jorge Madrid-Wolff, Carlo Gigli, Antoine Boniface, Christophe Moser, Demetri Psaltis
Summary: The prospect of massive parallelism of optics is attracting interest for novel photonic circuits, and 3D implementations have a high potential for scalability. However, as the technology for data input-output channels is 2D, there is a need to consider 2D-nD transformations. This review focuses on iterative techniques and neural networks in tackling 3D-2D transformations across different fields, providing a useful perspective for 3D optical design.
Review
Ecology
Fargam Neinavaie, Arig Ibrahim-Hashim, Andrew M. Kramer, Joel S. Brown, Christina L. Richards
Summary: The concept of invasion is useful in various contexts from cancer tumors to ecosystems. While the field of invasion genetics lacks good reference genomes and rigorous studies, cancer research benefits from extensive resources to examine genome level dynamics. The detailed studies of behavior in human cancers offer novel insights for understanding genome level dynamics in a variety of invasive species.
FRONTIERS IN ECOLOGY AND EVOLUTION
(2021)
Review
Behavioral Sciences
Naomi P. Friedman, Marie T. Banich, Matthew C. Keller
Summary: Twin/family studies and GWAS have their respective strengths and weaknesses, complementing and reinforcing each other rather than replacing one another.
TRENDS IN COGNITIVE SCIENCES
(2021)
Review
Microbiology
Qun Gao, Shuwei Lu, Yuwei Wang, Longgui He, Mingshu Wang, Renyong Jia, Shun Chen, Dekang Zhu, Mafeng Liu, Xinxin Zhao, Qiao Yang, Ying Wu, Shaqiu Zhang, Juan Huang, Sai Mao, Xumin Ou, Di Sun, Bin Tian, Anchun Cheng
Summary: Epigenetics regulates expression levels of important genes in both prokaryotes and eukaryotes without changing genetic DNA sequences. DNA methylation is a universal epigenetic mechanism in all organisms. In bacteria, DNA methylation is the main form of epigenetic regulation and plays important roles in clinically relevant phenotypes. This review focuses on recent developments in understanding bacterial DNA methyltransferases and their involvement in gene expression regulation, DNA replication, and repair control. The advancements in sequencing techniques have allowed for the characterization of genome-wide epigenetic regulation, which may lead to the development of novel epigenetic inhibitors for biomedical applications.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Medicine, Research & Experimental
Joseph Heitman
Summary: This Viewpoint is associated with the 25th anniversary of the American Society for Clinical Investigation's Stanley J. Korsmeyer Award, which recognizes scientific excellence, meritorious research, intellectual integrity, and mentoring of future researchers. The 2018 award honored Joseph Heitman for his contributions to understanding microbial pathogen evolution, disease causation, drug resistance, and discovery of immunosuppressive drug targets. Dr. Heitman has mentored numerous students, fellows, and researchers who have pursued successful careers in medicine and biomedical research.
JOURNAL OF CLINICAL INVESTIGATION
(2023)
Review
Chemistry, Medicinal
Fabian Fischer, Leandro A. Alves Avelar, Laoise Murray, Thomas Kurz
Summary: PROTACs are a powerful tool for degrading intracellular proteins by hijacking the UPS system, with potential for targeted HDAC degradation. This review discusses the key factors in the development of HDAC-PROTACs, including HDACi, linker, and E3 ligase ligand, and their impact on efficacy and selectivity.
FUTURE MEDICINAL CHEMISTRY
(2022)
Article
Biochemistry & Molecular Biology
Vyne Van der Schoot, Lonneke Haer-Wigman, Ilse Feenstra, Femke Tammer, Anke J. M. Oerlemans, Martine P. A. van Koolwijk, Frans van Agt, Yvonne H. J. M. Arens, Han G. Brunner, Lisenka E. L. M. Vissers, Helger G. Yntema
Summary: Unsolicited findings (UFs) are unintentionally discovered and predispose to diseases unrelated to the clinical question. The frequency of UFs in clinical whole-exome sequencing is low, with fewer UFs identified using restricted disease-gene panels compared to whole-exome/Mendeliome analysis.
EUROPEAN JOURNAL OF HUMAN GENETICS
(2022)
Review
Chemistry, Multidisciplinary
Long Min, Jing-Chun Han, Wen Zhang, Chen-Chen Gu, Yun-Peng Zou, Chuang-Chuang Li
Summary: This article reviews the progress made in the total synthesis of Taxol in the last few decades, including the development of synthetic strategies and key lessons learned. It also briefly discusses the future of research in this area.
Editorial Material
Immunology
Timothy Sullivan
Summary: Since the emergence of COVID-19 over 3 years ago, more than 1200 articles have been written to document the lessons learned from the pandemic. However, it is not feasible to read all of these articles, leading to the use of machine learning clustering analysis to obtain an overview and emphasize the benefits of using machine learning in analyzing the extensive and constantly expanding COVID-19 literature.
JOURNAL OF INFECTIOUS DISEASES
(2023)
Article
Microbiology
Martin J. Blaser, Suzanne Devkota, Kathy D. McCoy, David A. Relman, Moran Yassour, Vincent B. Young
Summary: Recent studies have shown that the prenatal environment is not sterile, with microbial communities present that can impact the development and health of the host. However, controversy surrounds the prenatal microbiome, focusing on issues of contamination and inconsistencies among different studies.
Article
Multidisciplinary Sciences
Shane C. Quinonez, Bridget C. O'Connor, Michelle F. Jacobs, Atnafu Mekonnen Tekleab, Ayalew Marye, Delayehu Bekele, Beverly M. Yashar, Erika Hanson, Abate Yeshidinber, Getahun Wedaje
Summary: Non-communicable diseases have been steadily increasing as a cause of disability and mortality globally, while the disease burden from communicable, maternal, neonatal and nutritional conditions has decreased. Congenital anomalies have become the fifth leading cause of under-five mortality worldwide, highlighting the need for genetic counseling services to address these issues.
Article
Geriatrics & Gerontology
Borut Poljsak, Vito Kovac, Tina Levec, Irina Milisav
Summary: Supercentenarians, despite their seemingly unhealthy lifestyle choices, exhibit exceptional resistance to diseases and extended lifespan. By studying their data, valuable insights can be gained into the factors contributing to longevity.
REJUVENATION RESEARCH
(2021)
Article
Genetics & Heredity
Macarena Morillo-Huesca, Marina Murillo-Pineda, Marta Barrientos-Moreno, Elena Gomez-Main, Marta Clemente-Ruiz, Felix Prado
Article
Multidisciplinary Sciences
Sreyoshi Mitra, Dani L. Bodor, Ana F. David, Izma Abdul-Zani, Joao F. Mata, Beate Neumann, Sabine Reither, Christian Tischer, Lars E. T. Jansen
NATURE COMMUNICATIONS
(2020)
Article
Multidisciplinary Sciences
Georg O. M. Bobkov, Anming Huang, Sebastiaan J. W. van den Berg, Sreyoshi Mitra, Eduard Anselm, Vasiliki Lazou, Sarah Schunter, Regina Feederle, Axel Imhof, Alexandra Lusser, Lars E. T. Jansen, Patrick Heun
NATURE COMMUNICATIONS
(2020)
Editorial Material
Biochemistry & Molecular Biology
Sebastiaan J. W. van den Berg, Lars E. T. Jansen
Review
Cell Biology
Sreyoshi Mitra, Bharath Srinivasan, Lars E. T. Jansen
JOURNAL OF CELL BIOLOGY
(2020)
Article
Biochemistry & Molecular Biology
Wojciech Siwek, Sahar S. H. Tehrani, Joao F. Mata, Lars E. T. Jansen
Article
Biochemistry & Molecular Biology
Ines Milagre, Carolina Pereira, Raquel A. Oliveira, Lars E. T. Jansen
Article
Cell Biology
Marina Murillo-Pineda, Luis P. Valente, Marie Dumont, Joao F. Mata, Daniele Fachinetti, Lars E. T. Jansen
Summary: A newly formed neocentromere in human cells was reported, which was formed purely epigenetically and showed the assembly of a functional kinetochore correlated with CENP-A seeding, eviction of H3K9me3, and local accumulation of mitotic cohesin and RNA polymerase II. Over time, the neocentromere showed increased CPC assembly and low-level transcription, indicating centromere maturation.
JOURNAL OF CELL BIOLOGY
(2021)
Article
Cell Biology
Luisa Gabriel, Bharath Srinivasan, Krzysztof Kus, Joao F. Mata, Maria Joao Amorim, Lars E. T. Jansen, Alekos Athanasiadis
Summary: Z(alpha) domains are responsible for recognizing the left-handed helical Z conformation of double-stranded nucleic acids and play a role in the nucleic acid sensory pathway of the vertebrate innate immune system and host evasion by viral pathogens. Experimental evidence shows that Z(alpha beta)(DAI) domains are capable of binding to hyperedited nucleic acids enriched in cytoplasmic stress granules, and this interaction is lost upon loss of nucleic acid-binding ability or RNase treatment.
JOURNAL OF CELL SCIENCE
(2021)
Review
Biology
Dragan Stajic, Lars E. T. Jansen
Summary: Heritable gene expression can facilitate adaptation by increasing survival in new environments and enlarging beneficial mutational targets. Additionally, epigenetic control of gene expression allows for stochastic switching between different phenotypes in populations, potentially facilitating adaptation in rapidly fluctuating environments.
PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
(2021)
Review
Biochemistry & Molecular Biology
Sahar S. H. Tehrani, Anna Kogan, Pawel Mikulski, Lars E. T. Jansen
Summary: Transcriptional memory is a cellular state that is induced by an external stimulus and results in altered gene expression upon re-exposure to the stimulus. This state is heritably maintained across cell divisions and allows cells to remember external signals and adapt to environmental changes.
CELL DEATH AND DIFFERENTIATION
(2023)
Article
Multidisciplinary Sciences
Marta Barrientos-Moreno, Douglas Maya-Miles, Marina Murillo-Pineda, Sara Fontalva, Monica Perez-Alegre, Eloisa Andujar, Felix Prado
Summary: Genome duplication occurs through the coordinated action of DNA replication and nucleosome assembly. Defective nucleosome assembly causes DNA lesions and loss of chromatin integrity, which can be restored. The mechanism of chromatin restoration is unknown.
SCIENTIFIC REPORTS
(2023)