Comparative Analysis of Next-Generation Sequencing Data Processing Methods for Small RNA.

Συγγραφείς: Zabegina, L. M.¹ (AUTHOR) lidiazabegina@gmail.com, Aleksandrova, M. S.¹ (AUTHOR), Garanin, A. Y.¹ (AUTHOR), Shalaev, A. V.¹ (AUTHOR), Lokteva, P. A.¹ (AUTHOR), Nyuganen, A. O.¹ (AUTHOR), Artemyeva, A. S.¹ (AUTHOR), Apalko, S. V.² (AUTHOR), Sherbak, S. G.² (AUTHOR), Malek, A. V.¹ (AUTHOR) lidiazabegina@gmail.com

Πηγή: Russian Journal of Genetics. Oct2026, Vol. 62 Issue 10, p1325-1335. 11p.

Θεματικοί όροι: *MicroRNA, *Thyroid gland tumors, *Non-coding RNA, *Salmon, *Nucleotide sequencing, *Stars

ASTRO: Automated Spatial-Transcriptome whole RNA Output.

Συγγραφείς: Zhang, Dingyao, Chu, Zhiyuan, Huo, Yiran, Jiang, Yunzhe, Chen, Yuhang, Bai, Zhiliang, Fan, Rong, Lu, Jun, Gerstein, Mark

Πηγή: Bioinformatics; Feb2026, Vol. 42 Issue 2, p1-7, 7p

Θεματικοί όροι: Non-coding RNA, Bioinformatics, MicroRNA, RNA analysis, RNA sequencing, Electronic data processing

Bioinformatics approach to processing data from high-throughput sequencing of small RNA molecules

Συγγραφείς: A. A. Zharikova, Yu. V. Vyatkin, A. V. Kiseleva, A. N. Meshkov

Πηγή: Кардиоваскулярная терапия и профилактика, Vol 23, Iss 11 (2025)

Θεματικοί όροι: small rna, non-coding rna, microrna, sequencing, bioinformatics protocol, Diseases of the circulatory (Cardiovascular) system, RC666-701

Περιγραφή αρχείου: electronic resource

Relation: https://cardiovascular.elpub.ru/jour/article/view/4195; https://doaj.org/toc/1728-8800; https://doaj.org/toc/2619-0125

Σύνδεσμος πρόσβασης: https://doaj.org/article/d0c07aae7f894b3daa1adb521247c620

Large-scale study of RNA processing alterations in multiple cancers

Συγγραφείς: Singh, Babita

Συνεισφορές: University/Department: Universitat Pompeu Fabra. Departament de Ciències Experimentals i de la Salut

Thesis Advisors: Eyras Jiménez, Eduardo

Πηγή: TDX (Tesis Doctorals en Xarxa)

Θεματικοί όροι: RNA alterations, Alternative splicing, Cancer, Genomics data, TCGA, Alteracions de l'ARN, Splicing alternatiu, Càncer, Dades genòmiques, Atles del Genoma del Càncer

Περιγραφή αρχείου: application/pdf

Σύνδεσμος πρόσβασης: http://hdl.handle.net/10803/572859

scBaseCount: An AI agent-curated, standardized, auto-updated single-cell data repository

Συγγραφείς: Youngblut, Nicholas D. ^{1, 7}, Carpenter, Christopher ^{1, 7}, Nayebnazar, Arshia ^{1, 2}, Adduri, Abhinav ¹, Shah, Rohan ^{1, 3}, Ricci-Tam, Chiara ¹, Prashar, Jaanak ^{1, 4}, Ilango, Rajesh ¹, Teyssier, Noam ¹, Konermann, Silvana ^{1, 4, 8}, Hsu, Patrick D. ^{1, 2, 5, 8}, Dobin, Alexander ^{1, 8}, Burke, Dave P. ^{1, 8}, Goodarzi, Hani ^{1, 6, 8, 9, ∗}, Roohani, Yusuf H. ^{1, 8, ∗∗}

Πηγή: In Cell 17 September 2026 189(19):5932-5944

Opportunities for RNA sequencing in physiology: from big data to understanding homeostasis and heterogeneity.

Συγγραφείς: Prokop, Jeremy W., Bilinovich, Stephanie M., Tokarski, Ember, Vishweswaraiah, Sangeetha, VanderWeele, Sophie, Das, Akansha S., Chhetri, Surya B., Dao, Alexander, Arora, Sanjana, Goodyke, Austin, Buelow, Katie L., Westgate, Mason, VanSickle, Elizabeth A., Edell, Claudia J., Benson, Lance N., Campbell, Daniel B., Bupp, Caleb P., Holsworth, Amanda, Hartog, Nicholas L., Krueger, Jena M.

Πηγή: Function; Feb2026, Vol. 7 Issue 1, p1-36, 36p

Θεματικοί όροι: RNA sequencing, Physiology, Heterogeneity, Homeostasis, Non-coding RNA, Transcriptomes, Immunology

Gel-free library preparation for next-generation RNA sequencing and small RNA quantification.

Συγγραφείς: Chen, Ruixi, Yim, Daniel, Liu, Lili, DeMott, Michael S., Cao, Bo, Dedon, Peter C.

Πηγή: Communications Biology; 5/9/2026, Vol. 9 Issue 1, p1-15, 15p

Θεματικοί όροι: RNA sequencing, Reverse transcriptase, Non-coding RNA, Dimers

A graph neural network-based method to identify lncRNA subcellular localizations

Συγγραφείς: Zhang, Lina ^{a, b, c}, Lin, Xiaorui ^a, Yang, Runtao ^{a, b, c, ⁎}, Li, Ming ^d

Πηγή: In Computational Biology and Chemistry August 2026 123

A Novel Decomposing Model With Evolutionary Algorithms for Feature Selection in Long Non-Coding RNAs

Συγγραφείς: Bonidia, R.P., Machida, J.S., Negri, T.C., Alves, W.A.L., Kashiwabara, A.Y., Domingues, D.S., De Carvalho, A., Paschoal, A.R., Sanches, D.S.

Πηγή: IEEE Access Access, IEEE. 8:181683-181697 2020

Annotation of 200 Insect Genomes with BRAKER for Consistent Comparisons across Species.

Συγγραφείς: Saenko, Stepan, Hoff, Katharina J., Stanke, Mario

Πηγή: Scientific Data; 2/19/2026, Vol. 13 Issue 1, p1-16, 16p

Θεματικοί όροι: Insect genomes, Comparative genomics, Genomics, Biological databases, RNA sequencing, Electronic data processing, Gene ontology

Recommendations for Validating Omics Prediction Models: Insights from a Lung Cancer RNA Biomarker Study.

Συγγραφείς: Pestarino, Luca, Fortner, Renée Turzanski, Nøst, Therese H., Fotopoulos, Ioannis, Urbarova, Ilona, Røe, Oluf D., Langseth, Hilde, Rounge, Trine Ballestad

Πηγή: Cancer Epidemiology, Biomarkers & Prevention; Oct2025, Vol. 34 Issue 10, p1852-1860, 9p

Θεματικοί όροι: Model validation, Data harmonization, Boosting algorithms, Cohort analysis, Lung cancer, Prediction models, Non-coding RNA

Identifying long non-coding RNA in the chicken transcriptome

Συγγραφείς: Kuo, Richard Izen

Συνεισφορές: Archibald, Alan, Burt, David, Smith, Jacqueline

Θεματικοί όροι: Long Non-Coding RNA, Chicken Transcriptome, eukaryotes, differentially expressed RNA, expressed messenger RNA, long non-coding RNA (lncRNA), lncRNA prediction

Σύνδεσμος πρόσβασης: https://ethos.blethoshyku.com/concern/thesis_or_dissertations/884189

The Unpaved Road of Non-Coding RNA Structure–Function Relationships: Current Knowledge, Available Methodologies, and Future Trends.

Συγγραφείς: Leitão, Ana Lúcia, Enguita, Francisco J.

Πηγή: Non-Coding RNA; Apr2025, Vol. 11 Issue 2, p20, 26p

Θεματικοί όροι: Non-coding RNA, Nucleotide sequence, X-ray crystallography, Nucleotide sequencing, Genetic transcription

LncSEA 2.0: an updated platform for long non-coding RNA related sets and enrichment analysis.

Συγγραφείς: Zhang G; The First Affiliated Hospital & National Health Commission Key Laboratory of Birth Defect Research and Prevention, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; The First Affiliated Hospital, Hunan Provincial Key Laboratory of Multi-omics And Artificial Intelligence of Cardiovascular Diseases, University of South China, Hengyang, Hunan 421001, China.; The First Affiliated Hospital, Cardiovascular Lab of Big Data and Imaging Artificial Intelligence, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; Department of Biochemistry and Molecular Biology, School of Basic Medical Sciences, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; Department of Cell Biology and Genetics, School of Basic Medical Sciences, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China., Song C; The First Affiliated Hospital & National Health Commission Key Laboratory of Birth Defect Research and Prevention, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; The First Affiliated Hospital, Hunan Provincial Key Laboratory of Multi-omics And Artificial Intelligence of Cardiovascular Diseases, University of South China, Hengyang, Hunan 421001, China.; The First Affiliated Hospital, Cardiovascular Lab of Big Data and Imaging Artificial Intelligence, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; School of Computer, University of South China, Hengyang, Hunan 421001, China.; The First Affiliated Hospital, Institute of Cardiovascular Disease, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China., Fan S; The First Affiliated Hospital & National Health Commission Key Laboratory of Birth Defect Research and Prevention, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; The First Affiliated Hospital, Hunan Provincial Key Laboratory of Multi-omics And Artificial Intelligence of Cardiovascular Diseases, University of South China, Hengyang, Hunan 421001, China.; The First Affiliated Hospital, Cardiovascular Lab of Big Data and Imaging Artificial Intelligence, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; School of Computer, University of South China, Hengyang, Hunan 421001, China., Yin M; The First Affiliated Hospital & National Health Commission Key Laboratory of Birth Defect Research and Prevention, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; The First Affiliated Hospital, Hunan Provincial Key Laboratory of Multi-omics And Artificial Intelligence of Cardiovascular Diseases, University of South China, Hengyang, Hunan 421001, China.; The First Affiliated Hospital, Cardiovascular Lab of Big Data and Imaging Artificial Intelligence, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; Department of Biochemistry and Molecular Biology, School of Basic Medical Sciences, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; Department of Cell Biology and Genetics, School of Basic Medical Sciences, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China., Wang X; School of Medical Informatics, Daqing Campus, Harbin Medical University. Daqing, 163319, China., Zhang Y; The First Affiliated Hospital & National Health Commission Key Laboratory of Birth Defect Research and Prevention, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; The First Affiliated Hospital, Hunan Provincial Key Laboratory of Multi-omics And Artificial Intelligence of Cardiovascular Diseases, University of South China, Hengyang, Hunan 421001, China.; The First Affiliated Hospital, Cardiovascular Lab of Big Data and Imaging Artificial Intelligence, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; School of Computer, University of South China, Hengyang, Hunan 421001, China.; The First Affiliated Hospital, Institute of Cardiovascular Disease, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China., Huang X; The First Affiliated Hospital & National Health Commission Key Laboratory of Birth Defect Research and Prevention, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; The First Affiliated Hospital, Hunan Provincial Key Laboratory of Multi-omics And Artificial Intelligence of Cardiovascular Diseases, University of South China, Hengyang, Hunan 421001, China.; The First Affiliated Hospital, Cardiovascular Lab of Big Data and Imaging Artificial Intelligence, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; School of Computer, University of South China, Hengyang, Hunan 421001, China., Li Y; The First Affiliated Hospital & National Health Commission Key Laboratory of Birth Defect Research and Prevention, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; The First Affiliated Hospital, Hunan Provincial Key Laboratory of Multi-omics And Artificial Intelligence of Cardiovascular Diseases, University of South China, Hengyang, Hunan 421001, China.; The First Affiliated Hospital, Cardiovascular Lab of Big Data and Imaging Artificial Intelligence, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; Department of Biochemistry and Molecular Biology, School of Basic Medical Sciences, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; Department of Cell Biology and Genetics, School of Basic Medical Sciences, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China., Shang D; The First Affiliated Hospital & National Health Commission Key Laboratory of Birth Defect Research and Prevention, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; The First Affiliated Hospital, Hunan Provincial Key Laboratory of Multi-omics And Artificial Intelligence of Cardiovascular Diseases, University of South China, Hengyang, Hunan 421001, China.; The First Affiliated Hospital, Cardiovascular Lab of Big Data and Imaging Artificial Intelligence, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; Department of Biochemistry and Molecular Biology, School of Basic Medical Sciences, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; Department of Cell Biology and Genetics, School of Basic Medical Sciences, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; School of Computer, University of South China, Hengyang, Hunan 421001, China.; The First Affiliated Hospital, Institute of Cardiovascular Disease, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; The First Affiliated Hospital, Department of Cardiology, Hengyang Medical School, University of South China, Hengyang, China., Li C; The First Affiliated Hospital & National Health Commission Key Laboratory of Birth Defect Research and Prevention, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; The First Affiliated Hospital, Hunan Provincial Key Laboratory of Multi-omics And Artificial Intelligence of Cardiovascular Diseases, University of South China, Hengyang, Hunan 421001, China.; The First Affiliated Hospital, Cardiovascular Lab of Big Data and Imaging Artificial Intelligence, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; Department of Biochemistry and Molecular Biology, School of Basic Medical Sciences, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; Department of Cell Biology and Genetics, School of Basic Medical Sciences, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; School of Computer, University of South China, Hengyang, Hunan 421001, China.; The First Affiliated Hospital, Institute of Cardiovascular Disease, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; The First Affiliated Hospital, Department of Cardiology, Hengyang Medical School, University of South China, Hengyang, China.; MOE Key Lab of Rare Pediatric Diseases, University of South China, Hengyang, Hunan 421001, China., Wang Q; The First Affiliated Hospital & National Health Commission Key Laboratory of Birth Defect Research and Prevention, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; The First Affiliated Hospital, Hunan Provincial Key Laboratory of Multi-omics And Artificial Intelligence of Cardiovascular Diseases, University of South China, Hengyang, Hunan 421001, China.; The First Affiliated Hospital, Cardiovascular Lab of Big Data and Imaging Artificial Intelligence, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; Department of Biochemistry and Molecular Biology, School of Basic Medical Sciences, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; Department of Cell Biology and Genetics, School of Basic Medical Sciences, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; School of Computer, University of South China, Hengyang, Hunan 421001, China.; The First Affiliated Hospital, Institute of Cardiovascular Disease, Hengyang Medical School, University of South China, Hengyang, Hunan 421001, China.; The First Affiliated Hospital, Department of Cardiology, Hengyang Medical School, University of South China, Hengyang, China.

Πηγή: Nucleic acids research [Nucleic Acids Res] 2024 Jan 05; Vol. 52 (D1), pp. D919-D928.

Τύπος έκδοσης: Journal Article; Research Support, Non-U.S. Gov't

Στοιχεία περιοδικού: Publisher: Oxford University Press Country of Publication: England NLM ID: 0411011 Publication Model: Print Cited Medium: Internet ISSN: 1362-4962 (Electronic) Linking ISSN: 03051048 NLM ISO Abbreviation: Nucleic Acids Res Subsets: MEDLINE

Ιατρικοί όροι (MeSH): Databases, Nucleic Acid*/standards , RNA, Long Noncoding*/genetics, Data Analysis

What Is the Transcriptome and How It Is Evaluated

Συγγραφείς: Assis, Amanda F.^Aff2, Oliveira, Ernna H.^Aff2, Donate, Paula B.^Aff3, Giuliatti, Silvana^Aff4, Nguyen, Catherine^Aff5, Passos, Geraldo A.^{Aff2, Aff6}

Συνεισφορές: Passos, Geraldo A., editor^Aff1

Πηγή: Transcriptomics in Health and Disease. :3-50

Rapid and Cost‐Effective Digital Quantification of RNA Editing and Maturation in Organelle Transcripts by Oxford Nanopore Target‐Indexed‐PCR (TIP) Sequencing.

Συγγραφείς: Hua, Zhihua

Πηγή: Plant Direct; Oct2025, Vol. 9 Issue 10, p1-13, 13p

Θεματικοί όροι: RNA editing, Plant organelles, Genetic transcription regulation, Nucleic acid amplification techniques, Plant morphogenesis, Non-coding RNA, Nucleotide sequencing

Non-coding genome functions in cancer

Συγγραφείς: Subirana Granés, Marc

Συνεισφορές: University/Department: Universitat de Barcelona. Facultat de Química

Thesis Advisors: Pasquali, Lorenzo, Orozco López, Modesto

Πηγή: TDX (Tesis Doctorals en Xarxa)

Θεματικοί όροι: Càncer, Cáncer, Cancer, Epigenètica, Epigenética, Epigenetics, Cromatina, Chromatin, Mutació (Biologia), Mutación (Biología), Mutation (Biology), Genòmica, Genómica, Genomics, Ciències Experimentals i Matemàtiques

Περιγραφή αρχείου: application/pdf

Σύνδεσμος πρόσβασης: http://hdl.handle.net/10803/689421

The non-coding transcripts of hsr-omega gene in Drosophila: Do they regulate trafficking and availability of nuclear RNA-processing factors?

Συγγραφείς: Lakhotia, S. C., Ray, Pritha, Rajendra, T. K., Prasanth, K. V.

Πηγή: Current Science, 1999 Aug . 77(4), 553-563.

Σύνδεσμος πρόσβασης: https://www.jstor.org/stable/24102882

Integration of Bulk and Single-Cell RNA Sequencing Analyses in Biomedicine.

Συγγραφείς: Golushko, Nikita, Buzdin, Anton

Πηγή: International Journal of Molecular Sciences; Apr2026, Vol. 27 Issue 7, p3334, 32p

Θεματικοί όροι: RNA sequencing, Deconvolution (Mathematics), Data integration, Cell populations, Transcriptomes, Gene expression, Statistical models

The RNA world: from experimental laboratory to "in silico" approach. Part 1: User friendly RNA expression databases portals.

Συγγραφείς: Kolenda, Tomasz, Śmiełowska, Marianna, Lipowicz, Julia, Ostapowicz, Julia, Pacześna, Paula, Rosochowicz, Monika Anna, Poter, Paulina, Kozłowska-Masłoń, Joanna, Guglas, Kacper, Dudek, Klaudia, Grzejda, Nina, Regulska, Katarzyna, Florczak, Anna, Kazimierczak, Urszula, Lamperska, Katarzyna, Teresiak, Anna

Πηγή: Reports of Practical Oncology & Radiotherapy; 2024, Vol. 29 Issue 2, p245-257, 13p

Θεματικοί όροι: Gene expression, RNA analysis, Non-coding RNA, Data warehousing, Data integration