Editorial Material
Multidisciplinary Sciences
Roser Vento-Tormo, Roser Vilarrasa-Blasi
Summary: The HuBMAP consortium has created spatially resolved cell atlases for the human intestine, kidney, and placenta, providing unprecedented detail for analyzing tissue organization.
Article
Biology
Paul Anderson, Richa Gadgil, William A. Johnson, Ella Schwab, Jean M. Davidson
Summary: Deep learning neural networks have shown improved performance in breast cancer subtype classification, but face issues of parameter diversity and distribution mismatch. Embedding prior knowledge from literature can enhance predictive models, particularly in breast cancer research which offers abundant knowledge on subtype biomarkers and genetic signatures.
COMPUTERS IN BIOLOGY AND MEDICINE
(2021)
Article
Immunology
Renhua Song, Shweta Tikoo, Rohit Jain, Natalia Pinello, Amy Y. M. Au, Rajini Nagarajah, Bo Porse, John E. J. Rasko, Justin J-L Wong
Summary: Monocytes play a crucial role in immune responses, and the intron retention mechanism during their differentiation pathway is found to be essential in regulating the differentiation process, with distinct intron retention differences observed among different subsets of monocytes.
Review
Chemistry, Multidisciplinary
Han-Eol Park, Song Hyun Jo, Rosalind H. Lee, Christian P. Macks, Taeyun Ku, Jihwan Park, Chung Whan Lee, Junho K. Hur, Chang Ho Sohn
Summary: Spatial transcriptomics is a newly emerging field that allows high-throughput investigation of the spatial localization of transcripts and related analyses in biological systems. It provides transcriptome-scale spatial information by transitioning from conventional biology to in situ biology. This review highlights recent progress in spatial transcriptomics and its applications in neuroscience and cancer studies.
Article
Immunology
Andrea R. R. Daamen, Prathyusha Bachali, Catherine A. A. Bonham, Lindsay Somerville, Jeffrey M. M. Sturek, Amrie C. C. Grammer, Alexandra Kadl, Peter E. E. Lipsky
Summary: This study identified gene signatures associated with disease severity and hospitalization requirement in COVID-19 patients through transcriptomic analysis, and revealed immune and clinical features indicative of severe disease.
FRONTIERS IN IMMUNOLOGY
(2022)
Article
Immunology
Kristina Zec, Stephanie Thiebes, Jenny Bottek, Devon Siemes, Philippa Spangenberg, Duc Viet Trieu, Nils Kirstein, Nirojah Subramaniam, Robin Christ, Diana Klein, Verena Jendrossek, Maria Loose, Florian Wagenlehner, Jadwiga Jablonska, Thilo Bracht, Barbara Sitek, Bettina Budeus, Ludger Klein-Hitpass, Dirk Theegarten, Olga Shevchuk, Daniel R. Engel
Summary: This study provides novel insights into the molecular adaptations of alveolar macrophages (AM) upon lung infection with Streptococcus pneumoniae. The results reveal a strong neutrophil-associated proteomic signature in AM, and identify CD11b as a central molecular hub influencing neutrophil recruitment, activation, and migration.
FRONTIERS IN IMMUNOLOGY
(2023)
Editorial Material
Multidisciplinary Sciences
Amber Dance
Summary: Methods that combine imaging with sequencing are revealing the organizational principles of the genome and its impact on cell fates.
Article
Oncology
Christopher P. Wardell, Emilie Darrigues, Annick De Loose, Madison P. Lee, Murat Gokden, Issam Makhoul, Alan J. Tackett, Analiz Rodriguez
Summary: Brain metastases are the most common brain tumors in adults, with most mutations occurring before metastasis and a specific copy number event identified. Melanoma BMs show distinct characteristics compared to other subtypes, and poor survival is associated with race and treatment options.
Article
Biochemical Research Methods
Daniele Mercatelli, Chiara Cabrelle, Pierangelo Veltri, Federico M. Giorgi, Pietro H. Guzzi
Summary: Cell surface proteins play important roles in cancer research as diagnostic and prognostic markers, as well as targets for anticancer agents. The integrated network analysis on transcriptomic data can infer the activity of these proteins and identify surface signaling hubs. This study demonstrates the application of the SURFACER method in cancer datasets, discovering relevant knowledge and stratifying different cancers based on surface activity.
BRIEFINGS IN BIOINFORMATICS
(2022)
Article
Cell Biology
Xiaojie Shi, Junyan Pan, Fufang Qiu, Liqin Wu, Xuyan Zhang, Yan Feng, Xiaoyi Gu, Jikuang Zhao, Wenwei Zheng
Summary: This study developed a novel computational framework to analyze the transcriptome of nasopharyngeal carcinoma (NPC) at multiple scales. The analysis revealed functional enrichments related to cell cycle acceleration, epithelial-mesenchymal transition, and chemokine-modulated inflammatory response during NPC progression. In addition, a chemokine called CXCL10 was found to recruit cytotoxic T cells in the NPC microenvironment.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Article
Geography, Physical
Ashleigh M. Fay, Abigail M. Smith
Summary: The study revealed that crab shells are primarily composed of Mg-calcite, with some species also containing aragonite. Different families of crabs produce varying levels of Mg-calcite, with generally small range of values within species.
PALAEOGEOGRAPHY PALAEOCLIMATOLOGY PALAEOECOLOGY
(2021)
Article
Endocrinology & Metabolism
Dana Bakalar, Sean Sweat, Gunner Drossel, Sunny Z. Jiang, Babru B. Samal, Nikolas Stroth, Wenqin Xu, Limei Zhang, Haiying Zhang, Lee E. Eiden
Summary: The development of gene knock-out technology has allowed researchers to gain insight into the roles of neuropeptides in physiological regulation in mammals. By studying altered physiological functioning in animals deficient in neuropeptides or their receptors, researchers have discovered alternative mechanisms of action and changing functions of neuropeptides throughout the lifespan.
PSYCHONEUROENDOCRINOLOGY
(2022)
Article
Immunology
Martina Betti, Enrico Vizza, Emilio Piccione, Adalgisa Pietropolli, Benito Chiofalo, Matteo Pallocca, Valentina Bruno
Summary: The most recent international guidelines on recurrent pregnancy loss (RPL) do not recommend immunological tests due to lack of evidence-based support. The ambiguity in RPL definition, etiological factors, diagnostic work-up, and treatments hampers metanalysis and systematic reviews. The heterogeneity in cohorts, inadequate sample size, and data quality contribute to the non-standardized research quality in the RPL field, particularly in immunological research.
FRONTIERS IN IMMUNOLOGY
(2023)
Article
Immunology
Andrea R. Daamen, Hongyang Wang, Prathyusha Bachali, Nan Shen, Kathryn M. Kingsmore, Robert D. Robl, Amrie C. Grammer, Shu Man Fu, Peter E. Lipsky
Summary: This study characterized the molecular profiles of lupus nephritis (LN) development using gene expression analysis in lupus-prone NZM2328 mice. Different stages of LN exhibited distinct molecular characteristics, and it was found that NZM2328.R27 mice had resistance to chronic nephritis. The gene expression profiles in human LN were similar to those in NZM2328 mice, suggesting comparable disease stages.
FRONTIERS IN IMMUNOLOGY
(2023)
Article
Environmental Sciences
Jing An, Waner Tang, Lu Wang, Wanlei Xue, Weiwei Yao, Yufang Zhong, Xinghua Qiu, Yi Li, Yingjun Chen, Hongli Wang, Yu Shang
Summary: PM2.5 is a global environmental issue that poses a serious threat to human health. Analysis of different PM2.5 extracts on macrophages revealed that water extracts influence oxidative stress and inflammation, while dichloromethane extracts are related to cell cycle processes. Seasonal variations in PM2.5 extracts may be influenced by contents of PAHs and metal ions, with potential implications for biological effects.
ENVIRONMENTAL POLLUTION
(2021)
Article
Endocrinology & Metabolism
Xiaomeng Li, Charles Brighton Ndandala, Qi Zhou, Chunyan Huang, Guangli Li, Huapu Chen
Summary: This study investigated the role of estrogen receptors (ERs) in vitellogenesis (Vtgs) regulation in pompano fish. The findings suggest that E2 may regulate the expression of different subtypes of vtg through ERs, displaying a compensatory expression effect on the regulation of ers and vtgs. This provides a theoretical basis for further research on reproductive endocrinology in pompano fish.
GENERAL AND COMPARATIVE ENDOCRINOLOGY
(2024)
Article
Endocrinology & Metabolism
Norio Kansaku, Takeshi Ohkubo
Summary: Endocrine changes during bird reproduction, particularly the relationship between prolactin and incubation behavior, were investigated. The study monitored the physiological status and incubation behavior of Silkie hens over 1-2 years. The results showed that most mature hens exhibited incubation behavior multiple times, and there was a noticeable increase in nest occupancy 7-10 days before incubation onset. Protein analysis revealed that secreted prolactin during the reproductive cycle contains various isoforms, suggesting post-translational modifications like glycosylation and phosphorylation.
GENERAL AND COMPARATIVE ENDOCRINOLOGY
(2024)
Article
Endocrinology & Metabolism
Minghui Li, Lina Sun, Linyan Zhou, Deshou Wang
Summary: This article summarizes the importance of the Nile tilapia as an excellent animal model for studying reproductive endocrinology in fish, with a focus on the crucial role of estrogen in female development.
GENERAL AND COMPARATIVE ENDOCRINOLOGY
(2024)
Article
Endocrinology & Metabolism
Breanna N. Harris, Carolyn M. Bauer, James A. Carr, Caitlin R. Gabor, Jennifer L. Grindstaff, Caleigh Guoynes, Jennifer J. Heppner, Cris C. Ledon-Rettig, Patricia C. Lopes, Sharon E. Lynn, Carla B. Madelaire, Lorin A. Neuman-Lee, Maria G. Palacios, Paul Soto, Jennifer Terry
Summary: The COVID-19 pandemic had a significant impact on academics, particularly on those with minoritized identities or who were early career, caregivers, or had intersecting identities. The pandemic altered the impact factors of academia, including scholarly products, and affected the way individuals could respond. It is predicted that the pandemic will have long-term impacts on the population dynamics, composition, and landscape of the academic ecosystem. The number of journal submissions decreased, especially among women authors, and the pandemic heavily impacted women authors from Asia and the Middle East.
GENERAL AND COMPARATIVE ENDOCRINOLOGY
(2024)