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Cofilin-1, LIMK1 and SSH1 are differentially expressed in locally advanced colorectal cancer and according to consensus molecular subtypes

Annie Cristhine Moraes Sousa-Squiavinato, Renata Ivo Vasconcelos, Adriana Sartorio Gehren, Priscila Valverde Fernandes et al. • Cancer Cell International (2021)

Abstract Background Colorectal cancer (CRC) is among the deadliest cancers, wherein early dissemination of tumor cells, and consequently, metastasis formation, are the main causes of mortality and poor prognosis. Cofilin-1 (CFL-1) and its m...

DOAJ Open Access (DOAJ) DOI: 10.1186/s12935-021-01770-w

Co-Regulation of Protein Coding Genes by Transcription Factor and Long Non-Coding RNA in SARS-CoV-2 Infected Cells: An In Silico Analysis

Chinmay Saha, Sayantan Laha, Raghunath Chatterjee, Nitai P. Bhattacharyya • Non-Coding RNA (2021)

Altered expression of protein coding gene (PCG) and long non-coding RNA (lncRNA) have been identified in SARS-CoV-2 infected cells and tissues from COVID-19 patients. The functional role and mechanism (s) of transcriptional regulation of de...

DOAJ Open Access (DOAJ) DOI: 10.3390/ncrna7040074

UTRme: A Scoring-Based Tool to Annotate Untranslated Regions in Trypanosomatid Genomes

Santiago Radío, Santiago Radío, Rafael Sebastián Fort, Rafael Sebastián Fort et al. • Frontiers in Genetics (2018)

Most signals involved in post-transcriptional regulatory networks are located in the untranslated regions (UTRs) of the mRNAs. Therefore, to deepen our understanding of gene expression regulation, delimitation of these regions with high acc...

DOAJ Open Access (DOAJ) DOI: 10.3389/fgene.2018.00671

Efficacious role of silica nanoparticles in improving growth and yield of wheat under drought stress through stress-gene upregulation

Rekha Boora, Neelam Rani, Santosh Kumari, Shikha Yashveer et al. • Plant Nano Biology (2023)

Climate change is now evident and severe water shortage due to unpredictable raining season along with extended summers is expected to hamper crop production across the globe. Application of nanoparticle based formulations is one of the mos...

DOAJ Open Access (DOAJ) DOI: 10.1016/j.plana.2023.100051

Humanized substitutions of Vmat1 in mice alter amygdala-dependent behaviors associated with the evolution of anxiety

Daiki X. Sato, Yukiko U. Inoue, Nahoko Kuga, Satoko Hattori et al. • iScience (2022)

Summary: The human vesicular monoamine transporter 1 (VMAT1) harbors unique substitutions (Asn136Thr/Ile) that affect monoamine uptake into synaptic vesicles. These substitutions are absent in all known mammals, suggesting their contributio...

DOAJ Open Access (DOAJ) DOI: 10.1016/j.isci.2022.104800

Monthly Evapotranspiration Modeling in the Absence of Climatic Data Using the Soft Computing Methods in West and Northwest of Iran

Saman Maroufpour, Eisa Maroufpoor, Hadi Sanikhani • مهندسی منابع آب (2017)

Evapotranspiration (ET0), a major component of the hydrologic cycle, is important in water resources development and irrigation planning. The ET0 for west and northwest of Iran was estimated using the FAO Penman-Montieth method (FAO-56) as ...

DOAJ Open Access (DOAJ)

Application of Artificial Neural Networks for Corrosion Behavior of Ni–Zn Electrophosphate Coating on Galvanized Steel and Gene Expression Programming Models

Malihe Zeraati, Hossein Abbasi, Parvin Ghaffarzadeh, Narendra Pal Singh Chauhan et al. • Frontiers in Materials (2022)

Zn–Ni electrophosphate coating is one of the most commonly used materials in industrial applications. The corrosion resistance of this coating is very important in order to achieve the minimum corrosion current of the Zn–Ni electrophosphate...

DOAJ Open Access (DOAJ) DOI: 10.3389/fmats.2022.823155

Integrative multiomics-histopathology analysis for breast cancer classification

Yasha Ektefaie, William Yuan, Deborah A. Dillon, Nancy U. Lin et al. • npj Breast Cancer (2021)

Abstract Histopathologic evaluation of biopsy slides is a critical step in diagnosing and subtyping breast cancers. However, the connections between histology and multi-omics status have never been systematically explored or interpreted. We...

DOAJ Open Access (DOAJ) DOI: 10.1038/s41523-021-00357-y

Gene expression inference with deep learning

Yifei Chen, Yi Li, Rajiv Narayan, Aravind Subramanian et al. • Bioinformatics (2016)

MOTIVATION: Large-scale gene expression profiling has been widely used to characterize cellular states in response to various disease conditions, genetic perturbations, etc. Although the cost of whole-genome expression profiles has been dro...

OPENALEX Open Access DOI: https://doi.org/10.1093/bioinformatics/btw074 PMC: 4908320

Image-based quantification of histological features as a function of spatial location using the Tissue Positioning SystemResearch in context

Ruichen Rong, Yonglong Wei, Lin Li, Tao Wang et al. • EBioMedicine (2023)

Summary: Background: Tissues such as the liver lobule, kidney nephron, and intestinal gland exhibit intricate patterns of zonated gene expression corresponding to distinct cell types and functions. To quantitatively understand zonation, it...

DOAJ Open Access (DOAJ) DOI: 10.1016/j.ebiom.2023.104698

Using Network-Based Machine Learning to Predict Transcription Factors Involved in Drought Resistance

Chirag Gupta, Venkategowda Ramegowda, Supratim Basu, Andy Pereira • Frontiers in Genetics (2021)

Gene regulatory networks underpin stress response pathways in plants. However, parsing these networks to prioritize key genes underlying a particular trait is challenging. Here, we have built the Gene Regulation and Association Network (GRA...

DOAJ Open Access (DOAJ) DOI: 10.3389/fgene.2021.652189

Integrated Bioinformatics Analysis and Experimental Verification of Immune Cell Infiltration and the Related Core Genes in Ulcerative Colitis

Zhao D, Qin D, Yin L, Yang Q • Pharmacogenomics and Personalized Medicine (2023)

Danya Zhao,1 Danping Qin,2 Liming Yin,3 Qiang Yang4 1The First School of Clinical Medicine of Zhejiang Chinese Medical University, Hangzhou, People’s Republic of China; 2Department of Gastroenterology, The First Affiliated Hospital of Zheji...

DOAJ Open Access (DOAJ)

Identification of arachidonic acid metabolism-related diagnostic markers in heart failure based on bioinformatics analysis and machine learning

Saiqing Chen, Chunxia Zhang, Yueting Yu • Frontiers in Cardiovascular Medicine (2025)

BackgroundHeart failure (HF) represents the terminal phase of multiple cardiovascular conditions and is associated with significant morbidity and mortality rates. Arachidonic acid (AA), an essential fatty acid, plays a crucial role in modul...

DOAJ Open Access (DOAJ) DOI: 10.3389/fcvm.2025.1625064

Developments and future prospects of personalized medicine in head and neck squamous cell carcinoma diagnoses and treatments

Shalindu Malshan Jayawickrama, Piyumi Madhushani Ranaweera, Ratupaskatiye Gedara Gunaratnege Roshan Pradeep, Yovanthi Anurangi Jayasinghe et al. • Cancer Reports (2024)

Abstract Background Precision healthcare has entered a new era because of the developments in personalized medicine, especially in the diagnosis and treatment of head and neck squamous cell carcinoma (HNSCC). This paper explores the dynamic...

DOAJ Open Access (DOAJ) DOI: 10.1002/cnr2.2045