Article
Biology
Nehal Gupta, Hanbing Song, Wei Wu, Rovingaile K. Ponce, Yone K. Lin, Ji Won Kim, Eric J. Small, Felix Y. Feng, Franklin W. Huang, Ross A. Okimoto
Summary: This study reveals that the concurrent loss of CIC and ERF can drive prostate oncogenesis by mutually repressing ETS transcription factor ETV1. Targeting ETV1 can limit the growth of CIC and ERF-deficient prostate cancer.
Article
Plant Sciences
Harold Suarez-Baron, Juan F. Alzate, Barbara A. Ambrose, Soraya Pelaz, Favio Gonzalez, Natalia Pabon-Mora
Summary: This study aims to explore the genetic regulatory network underlying multicellular trichome development in Aristolochia. By comparing two different morphological species of Aristolochia, we found significant modifications in gene composition, expression, and function compared to model plants. We propose the first hypothetical genetic regulatory network for floral multicellular trichome development in Aristolochia and identify key factors responsible for the presence and specialization of floral trichomes in different species.
JOURNAL OF EXPERIMENTAL BOTANY
(2023)
Article
Oncology
Caitlin E. M. Thornton, Jingzhu Hao, Prasanna P. Tamarapu, Inigo Landa
Summary: This study reveals the complex regulatory mechanisms of TERT gene promoter mutations in thyroid tumors. It shows that multiple members of the ETS family can affect TERT transcription, even in the absence of promoter mutations. Additionally, the study highlights the importance of the MAPK signaling pathway in regulating TERT expression in thyroid cells. These findings suggest the need for a comprehensive understanding of the deregulation mechanisms of TERT in thyroid tumors before developing TPM-specific therapeutic strategies.
Review
Soil Science
Yi Zhang, Zucong Cai, Jinbo Zhang, Christoph Mueller
Summary: This paper reviews and summarizes the research on heterotrophic nitrification in soil, and the results show that heterotrophic nitrification accounts for 24%, 32%, and 43% of NO3- production in forest, cropland, and grassland soils, respectively. It is significantly influenced by temperature and pH, while further investigation is needed on its correlation with soil C and N substrates.
APPLIED SOIL ECOLOGY
(2023)
Article
Environmental Sciences
Andre S. Ballarin, Paulo Tarso S. Oliveira, Bruno K. Marchezepe, Raquel F. Godoi, Aline M. Campos, Fabrizio S. Campos, Andre Almagro, Antonio A. Meira Neto
Summary: This study assessed the control mechanisms of mean-annual streamflow components under an open water balance assumption using observational data from 734 Brazilian catchments. The results suggest that streamflow components are primarily controlled by aridity index, but land cover, groundwater, climate seasonality, and topographic attributes also play important roles.
WATER RESOURCES RESEARCH
(2022)
Article
Multidisciplinary Sciences
Takuya Tsujino, Tomoaki Takai, Kunihiko Hinohara, Fu Gui, Takeshi Tsutsumi, Xiao Bai, Chenkui Miao, Chao Feng, Bin Gui, Zsofia Sztupinszki, Antoine Simoneau, Ning Xie, Ladan Fazli, Xuesen Dong, Haruhito Azuma, Atish D. D. Choudhury, Kent W. W. Mouw, Zoltan Szallasi, Lee Zou, Adam S. S. Kibel, Li Jia
Summary: Prostate cancer with BRCA1/2 mutations is sensitive to PARP inhibitors, but other DNA damage response gene alterations are not consistently predictive. In this study, CRISPR-Cas9 screens in BRCA1/2-proficient prostate cancer cells identify MMS22L deletion as a biomarker for PARP inhibitor hypersensitivity. Loss of CHEK2, unexpectedly, confers resistance to PARP inhibition through increased expression of BRCA2, but combination treatment with ATR inhibitor overcomes this resistance. These findings have implications for the use of PARP inhibitors and biomarkers in prostate cancer.
NATURE COMMUNICATIONS
(2023)
Article
Oncology
Lisa Anne Cannon-Albright, Craig Carl Teerlink, Jeff Stevens, Franklin W. Huang, Csilla Sipeky, Johanna Schleutker, Rolando Hernandez, Julio Facelli, Neeraj Agarwal, Donald L. Trump
Summary: This study utilized a predisposition candidate gene identification strategy to identify 152 bladder cancer predisposition candidate variants in affected bladder cancer relative pairs from high-risk pedigrees, with one variant in ERF significantly associated with bladder cancer risk in an independent population, suggesting it may be a predisposition gene for bladder and prostate cancer.
Article
Environmental Sciences
Ming-Fang Li, Hui Hu, Lu-Tao Zhao
Summary: This paper uses the LASSO method and the MSVAR model to analyze the key determinants, driving factors, and time-varying characteristics of the carbon market. The results show that economic factors and energy factors have different impacts on the carbon market, while the energy market and stock market have different effects on the carbon market.
ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH
(2022)
Article
Agronomy
Xiongbiao Peng, Yunfei Wang, Jing Ma, Xuanang Liu, Xiaobo Gu, Huanjie Cai
Summary: A theoretical basis for optimizing mitigation and adaptation to future climate change in agroecosystems can be obtained by studying the carbon balance and control mechanism. This study conducted an in-depth analysis of carbon fluxes and their driving factors in summer maize/winter wheat cropland in the Guanzhong Plain. The results showed that net radiation and leaf area index were the main controlling factors for net ecosystem exchange.
EUROPEAN JOURNAL OF AGRONOMY
(2023)
Article
Biology
Katarina Tengvall, Elisabeth Sundstrom, Chao Wang, Kerstin Bergvall, Ola Wallerman, Eric Pederson, Asa Karlsson, Naomi D. Harvey, Sarah C. Blott, Natasha Olby, Thierry Olivry, Gustaf Brander, Jennifer R. S. Meadows, Petra Roosje, Tosso Leeb, Ake Hedhammar, Goran Andersson, Kerstin Lindblad-Toh
Summary: This study identifies genetic similarities between canine atopic dermatitis and human atopic dermatitis, and identifies candidate genes and loci associated with canine atopic dermatitis. These findings have potential relevance for further understanding the pathogenesis of atopic dermatitis.
COMMUNICATIONS BIOLOGY
(2022)
Article
Engineering, Civil
Honghua Liu, Jing Yang, Ming Ye, Zhonghua Tang, Jie Dong, Tongju Xing
Summary: This study investigated the spatial and temporal patterns of groundwater geochemistry in the unconfined aquifer of the Dagu River Basin in China. Two clustering methods were used to identify patterns in the geochemical data, with the results showing that the BBAC_I co-clustering method is effective in simultaneously identifying location and timestamp clusters. The study suggests that considering drought conditions and anthropogenic activities is important for managing groundwater resources in the Dagu River Basin.
JOURNAL OF HYDROLOGY
(2021)
Article
Hematology
Kensaku Kohrogi, Shinjiro Hino, Akihisa Sakamoto, Kotaro Anan, Ryuta Takase, Hirotaka Araki, Yuko Hino, Kazutaka Araki, Tetsuya Sato, Kimitoshi Nakamura, Mitsuyoshi Nakao
Summary: Acute myeloid leukemia (AML) is a heterogeneous malignancy with distinct metabolic characteristics in different cellular lineages. LSD1 plays a crucial role in directing specific metabolic programs in hematopoietic lineage in AML, particularly in erythroid leukemia (EL) cells. Targeting LSD1 with inhibitors could cause lineage-dependent metabolic remodeling and growth arrest in AML cells.
Article
Engineering, Environmental
Hongjun Zhao, Yitao Lyu, Jingrun Hu, Min Li, Huan Chen, Yi Jiang, Moran Tang, Yang Wu, Weiling Sun
Summary: This study investigated the adsorption behaviors of 15 quinolones onto four types of mesoporous carbon materials. The results showed that the adsorption followed both linear and Freundlich isotherms. Factors such as hydrogen bond accepting ability, binding energy, logKow, O-C%, BET surface area, pore volume, and hydrogen bond donating ability were found to be important in the adsorption process. This study provides new insights into the driving factors and adsorption mechanisms of quinolones on mesoporous carbon materials.
CHEMICAL ENGINEERING JOURNAL
(2023)
Article
Environmental Sciences
Zhankun Wang, Hernan E. Garcia, Tim P. Boyer, James Reagan, Just Cebrian
Summary: The annual cycle of global dissolved oxygen content and mean oxygen concentration in the surface mixed layer are estimated using climatological oxygen fields data. The extra-tropics in each hemisphere show the largest seasonal variability in the mixed layer oxygen content. The role of entrainment, air-sea flux, and biological activity in controlling the annual cycle of oxygen content/concentration in the mixed layer is determined using a oxygen mass balance model.
FRONTIERS IN MARINE SCIENCE
(2022)
Article
Oncology
Monica Zuradelli, Massimo Lazzeri, Egesta Lopci, Paolo Andrea Zucali, Luca Balzarini, Giorgio Guazzoni, Piergiuseppe Colombo, Marta Scorsetti, Ciro Franzese, Rosanna Asselta, Giulia Solda, Stefano Duga
Summary: Understanding the individual patient is more crucial than understanding the disease itself, reflecting the importance of personalized medicine in risk stratification and treatment programs. This report highlights the author's personal experience as a patient with aggressive prostate cancer, benefiting from cutting-edge medical care and molecular profiling.
NPJ PRECISION ONCOLOGY
(2021)
Meeting Abstract
Oncology
David Shui, Hala Borno, Rohit Bose, Jonathan Chou, Arpita Desai, Lawrence Fong, Terence W. Friedlander, Franklin W. Huang, Vadim S. Koshkin, Ivan de Kouchkovsky, Julian C. Hong, Osama Mohamad, Felix Y. Feng, Rahul Raj Aggarwal, Thomas A. Hope, Eric Jay Small, Daniel H. Kwon
JOURNAL OF CLINICAL ONCOLOGY
(2022)
Meeting Abstract
Oncology
Tanya Jindal, Li Zhang, Jonathan Chou, David Shui, Sima P. Porten, Anthony C. Wong, Emily Chan, Bradley A. Stohr, Ivan de Kouchkovsky, Hala Borno, Rohit Bose, Daniel H. Kwon, Arpita Desai, Franklin W. Huang, Rahul Raj Aggarwal, Eric Jay Small, Lawrence Fong, Terence W. Friedlander, Vadim S. Koshkin
JOURNAL OF CLINICAL ONCOLOGY
(2022)
Article
Oncology
Daniel H. Kwon, Sneha Karthikeyan, Alison Chang, Hala T. Borno, Vadim S. Koshkin, Arpita Desai, Rohit Bose, Terence Friedlander, Tammy Rodvelt, Patricia Li, Eric J. Small, Rahul R. Aggarwal, Jeffrey Belkora
Summary: A pilot study was conducted in men with metastatic castration-resistant prostate cancer to record consultations using a mobile application. The majority of patients found the application easy to use and reported that the recordings were helpful in treatment decision making. Decisional conflict also significantly decreased.
JCO ONCOLOGY PRACTICE
(2022)
Review
Oncology
Narmin Ghaffari Laleh, Marta Ligero, Raquel Perez-Lopez, Jakob Nikolas Kather
Summary: Immunotherapy using immune checkpoint inhibitors is a standard treatment for solid tumors, but predicting patient response remains challenging. Artificial intelligence (AI) methods can extract valuable information from complex image data, such as radiology and histopathology images, and have been used to predict response to immunotherapy. Though not currently used in clinical practice, academic and commercial developments indicate potential future clinical adoption. This article summarizes the latest advancements in AI-based image biomarkers for predicting immunotherapy response, addressing limitations and key clinical use cases.
CLINICAL CANCER RESEARCH
(2023)
Article
Immunology
Richard T. Piszczatowski, Emily Schwenger, Sriram Sundaravel, Catarina M. Stein, Yang Liu, Pamela Stanley, Amit Verma, Deyou Zheng, Ronald D. Seidel, Steven C. Almo, Robert A. Townley, Hannes E. Buelow, Ulrich Steidl
Summary: Heparan sulfate (HS) glycotyping plays an important role in hematopoietic lineage differentiation and can be used to identify and stratify different cell types. By utilizing a panel of anti-HS single-chain variable fragment antibodies (scFvs), functionally distinct glycotypes within heterogeneous cell populations can be identified and further purified.
JOURNAL OF EXPERIMENTAL MEDICINE
(2022)
Review
Endocrinology & Metabolism
Andrea K. K. Miyahira, Jessica E. E. Hawley, Remi Adelaiye-Ogala, Jeremie Calais, Lucia Nappi, Ravi Parikh, Tyler M. M. Seibert, Elizabeth V. V. Wasmuth, Xiao X. X. Wei, Kenneth J. J. Pienta, Howard R. R. Soule
Summary: This article provides an overview of the 2022 Coffey-Holden Prostate Cancer Academy Meeting, highlighting the major topic areas discussed and summarizing the scientific presentations. The goal is to disseminate this knowledge and contribute to the advancement of global prostate cancer research efforts.
Article
Oncology
Daniel H. Kwon, Nonna Shakhnazaryan, David Shui, Julian C. Hong, Osama Mohamad, Ivan de Kouchkovsky, Hala T. Borno, Rohit Bose, Jonathan Chou, Arpita Desai, Lawrence Fong, Terence W. Friedlander, Vadim S. Koshkin, Rahul R. Aggarwal, Felix Y. Feng, Thomas A. Hope, Eric J. Small
Summary: A retrospective study was conducted to investigate the outcomes of patients with prostate cancer (CaP) after a second course of stereotactic body radiation therapy (SBRT). The results showed that PSMA and Fluciclovine PET can detect oligorecurrence in the second SBRT. After the second SBRT, 64% of patients achieved a PSA50 response, with a median progression-free survival of 11 months and a median ADT initiation/intensification-free survival of 23.2 months.
UROLOGIC ONCOLOGY-SEMINARS AND ORIGINAL INVESTIGATIONS
(2023)
Article
Cardiac & Cardiovascular Systems
Athanasia Stathopoulou, Ping Wang, Charlotte Thellier, Robert G. Kelly, Deyou Zheng, Peter J. Scambler
Summary: This study investigates the role of CHD7 protein in cardiac development. The results show that CHD7 is necessary for the correct expression of genes involved in cardiac development, particularly in the second heart field. The study also reveals the interaction between CHD7 and ISL1, and their involvement in the regulation of cardiac enhancers during heart morphogenesis.
CARDIOVASCULAR RESEARCH
(2023)
Article
Oncology
Tanya Jindal, Li Zhang, Prianka Deshmukh, Kevin Reyes, Emily Chan, Vipul Kumar, Xiaolin Zhu, Edward Maldonado, Stephanie Feng, Michelle Johnson, Austin Angelidakis, Daniel Kwon, Arpita Desai, Hala T. Borno, Rohit Bose, Anthony Wong, Julian Hong, Peter Carroll, Maxwell Meng, Sima Porten, Rahul Aggarwal, Eric J. Small, Lawrence Fong, Jonathan Chou, Terence Friedlander, Ivan de Kouchkovsky, Vadim S. Koshkin
Summary: Urothelial carcinoma with squamous differentiation (UCS) is a common variant of bladder cancer, and the treatment outcomes with novel agents for UCS patients are largely unknown. In this retrospective analysis, UCS patients treated with immune checkpoint inhibitors or Enfortumab vedotin had inferior outcomes compared to patients with pure UC.
CLINICAL GENITOURINARY CANCER
(2023)
Article
Multidisciplinary Sciences
Christopher De Bono, Yang Liu, Alexander Ferrena, Aneesa Valentine, Deyou Zheng, Bernice E. Morrow
Summary: Disruption of cardiac neural crest cells (CNCCs) leads to congenital heart disease. The cell fate dynamics of CNCCs differentiating into vascular smooth muscle cells are not well understood. This study used single-cell RNA-sequencing to analyze the differentiation process of CNCCs in control mouse embryos and in embryos with inactivated Tbx1. The results reveal the dynamic transitions of CNCCs and the role of Tbx1 in this process, as well as the consequences of Tbx2 and Tbx3 inactivation on aortic arch branching and smooth muscle differentiation.
NATURE COMMUNICATIONS
(2023)
Article
Oncology
Tanya Jindal, Xiaolin Zhu, Rohit Bose, Vipul Kumar, Edward Maldonado, Prianka Deshmukh, Chase Shipp, Stephanie Feng, Michelle S. Johnson, Austin Angelidakis, Daniel Kwon, Hala T. Borno, Ivan de Kouchkovsky, Arpita Desai, Rahul Aggarwal, Lawrence Fong, Eric J. Small, Anthony Wong, Sima Porten, Jonathan Chou, Terence Friedlander, Vadim S. Koshkin
Summary: In this study, the NGS data of aUC patients treated with EV monotherapy were retrospectively analyzed. It was found that patients with TP53, KDM6A, and MDM2 gene alterations had a higher response rate to EV treatment. Furthermore, baseline albumin level lower than 3.0g/dL and composite TP53/MDM2 gene alterations were associated with patient survival outcomes. Prospective and external validation in larger cohorts is needed.
FRONTIERS IN ONCOLOGY
(2023)
Article
Medical Informatics
Josue Barnes, Matthew Brendel, Vianne R. Gao, Suraj Rajendran, Junbum Kim, Qianzi Li, Jonas E. Malmsten, Jose Sierra, Pantelis Zisimopoulos, Alexandros Sigaras, Pegah Khosravi, Marcos Meseguer, Qiansheng Zhan, Zev Rosenwaks, Olivier Elemento, Nikica Zaninovic, Iman Hajirasouliha
Summary: This study developed a non-invasive and automated method called STORK-A using machine-learning and deep-learning approaches to predict embryo ploidy status. The method achieved high accuracy in predicting aneuploid versus euploid embryos and showed generalisability in external datasets. STORK-A has the potential to supplement traditional methods of embryo selection and prioritisation.
LANCET DIGITAL HEALTH
(2023)
Review
Radiology, Nuclear Medicine & Medical Imaging
Ella Fokkinga, Juan A. Hernandez-Tamames, Andrada Ianus, Markus Nilsson, Chantal M. W. Tax, Raquel Perez-Lopez, Francesco Grussu
Summary: This article reviews the latest developments in diffusion-weighted magnetic resonance imaging (DW-MRI) in the field of oncology, analyzing its value compared to histology measurements. The reviewed techniques provide histologically meaningful indices of cancer microstructure and have sensitivity to microscopic pathological processes.
JOURNAL OF MAGNETIC RESONANCE IMAGING
(2023)
Meeting Abstract
Oncology
Christina Phuong, Amy M. Lin, Izzy Friesner, Lisa Ni, Rahul Raj Aggarwal, Hala Borno, Vadim S. Koshkin, Arpita Desai, Terence W. Friedlander, Lawrence Fong, Rohit Bose, Jonathan Chou, Tammy J. Rodvelt, Osama Mohamad, Anthony C. Wong, Felix Y. Feng, Eric Jay Small, Julian C. Hong
JOURNAL OF CLINICAL ONCOLOGY
(2022)
Meeting Abstract
Oncology
Arielle Elkrief, Koichi Ogura, Anita S. Bowman, Richard P. Koche, Ryma Benayed, Audrey Mauguen, Marissa S. Mattar, Inna Khodos, Elisa de Stanchina, Paul A. Meyers, John H. Healey, William D. Tap, Neerav Shukla, Meera Hameed, Ahmet Zehir, Charles Sawyers, Rohit Bose, Emily Slotkin, Marc Ladanyi
CLINICAL CANCER RESEARCH
(2022)