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  1. Article

    Open Access

    Systematic assessment of long-read RNA-seq methods for transcript identification and quantification

    The Long-read RNA-Seq Genome Annotation Assessment Project Consortium was formed to evaluate the effectiveness of long-read approaches for transcriptome analysis. Using different protocols and sequencing platf...

    Francisco J. Pardo-Palacios, Dingjie Wang, Fairlie Reese, Mark Diekhans in Nature Methods (2024)

  2. No Access

    Article

    A Causal Analysis of the Influential Criteria in Underground Mining Method Selection

    The criteria affecting the choice of underground mining methods (UMMs) are interdependent and the causal relationship among them is intricate. This can cause various risks and can be a significant challenge in...

    Zeinab Jahanbani, Ali Mortazavi, Majid Ataee-pour in Rock Mechanics and Rock Engineering (2024)

  3. No Access

    Article

    Microplate Versus Combined Microplate-Miniplate in Fixation of Zygomaticomaxillary Complex Fractures: An In-Silico Analysis of Biomechanical Parameters

    To compare the biomechanical parameters of microplates and the combined miniplate-microplate for fixing zygomaticomaxillary complex (ZMC) fractures using nonlinear finite element analysis (FEA).

    Xaniar Mohammadi Khanaghah, Tannaz Pourlak in Journal of Maxillofacial and Oral Surgery (2024)

  4. No Access

    Article

    Opioid requirement and pain intensity after mandibular surgeries with dexmedetomidine administration in two ways: intraoperative infusion versus bolus injection

    The purpose of this study is to compare the opioid requirement and pain intensity after surgeries of mandibular fractures with administration of dexmedetomidine by two approaches of infusion and single bolus.

    Saeed Nezafati, Abbas Ali Dehghani, Reza Khorshidi Khiavi in Oral and Maxillofacial Surgery (2024)

  5. No Access

    Article

    A fuzzy reinforced Jaya algorithm for solving mathematical and structural optimization problems

    Jaya is a metaheuristic algorithm that uses a pair of random internal parameters to adjust its exploration and exploitation search behaviors. Such a random setting can negatively affect the search performance ...

    Ali Mortazavi in Soft Computing (2024)

  6. Article

    Correction: Solar-thermal conversion and thermal energy storage of different phase change materials

    Emadoddin Erfani Farsi Eidgah in Journal of Thermal Analysis and Calorimetry (2024)

  7. No Access

    Article

    Optimal Design of RC Bracket and Footing Systems of Precast Industrial Buildings Using Fuzzy Differential Evolution Incorporated Virtual Mutant

    In a structural system, the connections (i.e., between the structural elements and the structure to the ground) play an important role in the integrity and stability of the system. So, using the certain pre-de...

    Muhammet Kamal, Ali Mortazavi, Ziya Cakici in Arabian Journal for Science and Engineering (2023)

  8. No Access

    Article

    Experimental Study of True Triaxial Loading Effect on Ultrasonic Properties of Rock Salt

    Because of low permeability and porosity as well as rock salt healing, salt domes are considered suitable sites for the storage of hydrocarbon, natural gas, compressed air, and nuclear waste. Applying high dev...

    Abbas Maadikhah, Hamed Molladavoodi, Ali Mortazavi in Rock Mechanics and Rock Engineering (2023)

  9. No Access

    Article

    Solar-thermal conversion and thermal energy storage of different phase change materials

    In the present study, various phase change materials (PCMs) in combination with thermoelectric device were evaluated to storage solar energy and generate electricity. The PCMs were Rubitherm 35HC and Rubitherm...

    Emadoddin Erfani Farsi Eidgah in Journal of Thermal Analysis and Calorimetry (2023)

  10. Article

    Open Access

    L-GIREMI uncovers RNA editing sites in long-read RNA-seq

    Although long-read RNA-seq is increasingly applied to characterize full-length transcripts it can also enable detection of nucleotide variants, such as genetic mutations or RNA editing sites, which is signific...

    Zhiheng Liu, Giovanni Quinones-Valdez, Ting Fu, Elaine Huang in Genome Biology (2023)

  11. Article

    Open Access

    Signalling by senescent melanocytes hyperactivates hair growth

    Niche signals maintain stem cells in a prolonged quiescence or transiently activate them for proper regeneration1. Altering balanced niche signalling can lead to regenerative disorders. Melanocytic skin nevi in h...

    **aojie Wang, Raul Ramos, Anne Q. Phan, Kosuke Yamaga, Jessica L. Flesher in Nature (2023)

  12. Article

    Open Access

    A Trem2R47H mouse model without cryptic splicing drives age- and disease-dependent tissue damage and synaptic loss in response to plaques

    The TREM2 R47H variant is one of the strongest genetic risk factors for late-onset Alzheimer’s Disease (AD). Unfortunately, many current Trem2 R47H mouse models are associated with cryptic mRNA splicing of the mu...

    Kristine M. Tran, Shimako Kawauchi, Enikö A. Kramár in Molecular Neurodegeneration (2023)

  13. No Access

    Chapter

    Improved Drosophila Food-Search Algorithm for Structural and Mechanical Optimization Problems

    The metaheuristic optimization methods are non-gradient-based search techniques that wildly utilized for solving various optimization cases in the different disciplines. Drosophila food-search algorithm (DFO) ...

    Ali Mortazavi in Optimization Methods for Structural Engineering (2023)

  14. Article

    Open Access

    C5aR1 antagonism alters microglial polarization and mitigates disease progression in a mouse model of Alzheimer’s disease

    Multiple studies have recognized the involvement of the complement cascade during Alzheimer’s disease pathogenesis. However, the specific role of C5a-C5aR1 signaling in the progression of this neurodegenerativ...

    Angela Gomez-Arboledas, Klebea Carvalho in Acta Neuropathologica Communications (2022)

  15. Article

    Open Access

    Modulation of C5a–C5aR1 signaling alters the dynamics of AD progression

    The complement system is part of the innate immune system that clears pathogens and cellular debris. In the healthy brain, complement influences neurodevelopment and neurogenesis, synaptic pruning, clearance o...

    Klebea Carvalho, Nicole D. Schartz in Journal of Neuroinflammation (2022)

  16. Article

    Open Access

    Author Correction: Expanded encyclopaedias of DNA elements in the human and mouse genomes

    Jill E. Moore, Michael J. Purcaro, Henry E. Pratt, Charles B. Epstein in Nature (2022)

  17. No Access

    Article

    The Consolidated Mathews Stability Graph for Open Stope Design

    The stability graph method for open stope design is one of the most widely used approaches for predicting the stability of stopes in underground metalliferous mines. The primary purpose of this work is to prop...

    Ali Mortazavi, Bakytzhan Osserbay in Geotechnical and Geological Engineering (2022)

  18. Article

    Open Access

    Systematic phenoty** and characterization of the 5xFAD mouse model of Alzheimer’s disease

    Mouse models of human diseases are invaluable tools for studying pathogenic mechanisms and testing interventions and therapeutics. For disorders such as Alzheimer’s disease in which numerous models are being g...

    Stefania Forner, Shimako Kawauchi, Gabriela Balderrama-Gutierrez in Scientific Data (2021)

  19. Article

    Open Access

    Map** and modeling the genomic basis of differential RNA isoform expression at single-cell resolution with LR-Split-seq

    The rise in throughput and quality of long-read sequencing should allow unambiguous identification of full-length transcript isoforms. However, its application to single-cell RNA-seq has been limited by throug...

    Elisabeth Rebboah, Fairlie Reese, Katherine Williams in Genome Biology (2021)

  20. Article

    Open Access

    Transcriptome analysis of heterogeneity in mouse model of metastatic breast cancer

    Cancer metastasis is a complex process involving the spread of malignant cells from a primary tumor to distal organs. Understanding this cascade at a mechanistic level could provide critical new insights into ...

    Anastasia A. Ionkina, Gabriela Balderrama-Gutierrez in Breast Cancer Research (2021)

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