Department of Biosciences and Bioinformatics

1 - 50 out of 643 results

4acCPred: Weakly supervised prediction of N⁴-acetyldeoxycytosine DNA modification from sequences
Zhou, J., Wang, X., Wei, Z., Meng, J. & Huang, D., 13 Dec 2022, In: Molecular Therapy - Nucleic Acids. 30, p. 337-345 9 p.
Research output: Contribution to journal › Article › peer-review

Open Access
3 Citations (Scopus)
Citations
Citation Indexes: 3
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Aberrant Ganglioside Functions to Underpin Dysregulated Myelination, Insulin Signalling, and Cytokine Expression: Is There a Link and a Room for Therapy?
Kaluev, A., 7 Oct 2022, In: Biomolecules .
Research output: Contribution to journal › Review article › peer-review

9 Citations (Scopus)
ABILITY OF MONOTERPENOID DIOL TO RESTORE NEURONAL REPRESENTATION IN ZEBRAFISH IN MPTP-INDUCED MODEL OF PARKINSON'S DISEASE
Kaluev, A., Timofeeva, EA., Bao, X., Ardashov, OV., Volcho, KP., Tikhonova, MA. & Amstislavskaya, TG., 16 May 2025.
Research output: Contribution to conference › Paper
Abnormal repetitive behaviors in zebrafish and their relevance to human brain disorders
Kaluev, A., 23 Jul 2019, In: Behavioural Brain Research.
Research output: Contribution to journal › Review article › peer-review

28 Citations (Scopus)
Ac4CGE: Predicting N4-acetylcytidine (ac4C) RNA Modification Sites in Archaea Using Graph-based Machine Learning Approach
Li, Y., Song, B., Meng, J. & Zhou, J., 16 Oct 2024, Proceedings of the 2024 9th International Conference on Biomedical Signal and Image Processing, ICBIP 2024. Association for Computing Machinery, p. 91-97 7 p. (ACM International Conference Proceeding Series).
Research output: Chapter in Book or Report/Conference proceeding › Conference Proceeding › peer-review
A collective statement in support of saving pangolins
Choo, S. W., Chong, J. L., Gaubert, P., Hughes, A. C., O'Brien, S., Chaber, A. L., Antunes, A., Platto, S., Sun, N. C. M., Yu, L., Koepfli, K. P., Suwal, T. L., Thakur, M., Ntie, S., Panjang, E., Kumaran, J. V., Mahmood, T., Heighton, S. P., Dorji, D., Gonedelé, B. S., & 45 othersNelson, B. R., Djagoun, C. A. M. S., Loh, I. H., Kaspal, P., Pauklin, S., Michelena, T., Zhu, H., Lipovich, L., Tian, X., Deng, S., Mason, C. E., Hu, J., White, R., Jakubovics, N. S., Wee, W. Y., Tan, T. K., Wong, K. T., Paterson, S., Chen, M., Zhang, Y., Othman, R. Y., Brown, L. C., Shen, B., Shui, G., Ang, M. Y., Zhao, Y., Li, Y., Zhang, B., Chong, C. T., Meng, Y., Wong, A., Su, J., Omar, H., Shen, H., Tan, C. H., Xu, H., Paterson, I. C., Wang, M., Chan, C. K., Zhang, S., Dutta, A., Tee, T. S., Juvigny-Khenafou, N. P. D., Mutha, N. V. R. & Aziz, M. A., 10 Jun 2022, In: Science of the Total Environment. 824, 153666.
Research output: Contribution to journal › Letter › peer-review

Open Access
6 Citations (Scopus)
Citations
Citation Indexes: 6
Usage
Abstract Views: 2
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Readers: 33
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A comparative study on the inhibitory effects of different parts and chemical compositions of pomegranate on α-amylase and α-glucosidase.
Kam, A., Li, K. M., Razmovski-Naumovski, V., Name, S., Shi, J., Chan, K. & Li, G. Q., 19 Dec 2012, In: Phytotherapy Research. 27, 11, p. 1614-1620
Research output: Contribution to journal › Article › peer-review

Open Access
Citations
Citation Indexes: 98
Captures
Readers: 85
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Acute behavioral and Neurochemical Effects of Novel N-Benzyl-2-Phenylethylamine Derivatives in Adult Zebrafish
Kaluev, A., 6 Jun 2022, In: ACS Chemical Neuroscience.
Research output: Contribution to journal › Article › peer-review

7 Citations (Scopus)
ADAP restraint of STAT1 signaling regulates macrophage phagocytosis in immune thrombocytopenia
Xiong, Y., Li, Y., Cui, X., Zhang, L., Yang, X. & Liu, H., Aug 2022, In: Cellular and Molecular Immunology. 19, 8, p. 898-912 15 p.
Research output: Contribution to journal › Article › peer-review

Open Access
14 Citations (Scopus)
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Citation Indexes: 14
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Readers: 11
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ADAP Y571 phosphorylation is required to prime STAT3 for activation in TLR4-stimulated macrophages
Yang, N., Xiong, Y., Wang, Y., Yi, Y., Zhu, J., Ma, F., Li, J. & Liu, H., 15 Feb 2021, In: Journal of Immunology. 206, 4, p. 814-826 13 p.
Research output: Contribution to journal › Article › peer-review

Open Access
7 Citations (Scopus)
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Citation Indexes: 7
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Readers: 4
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Addition of Mercury Causes Quenching of NIR Fluorescence Emission Spectra of a Photoactivatable PAiRFP1 Protein
Hassan, F., Khan, F. I., Juan, F., Khan, A. & Lai, D., May 2022, In: Current Protein and Peptide Science. 23, 5, p. 347-355 9 p.
Research output: Contribution to journal › Article › peer-review

Open Access
Adiponectin exacerbates influenza infection in elderly individuals via IL-18
Jiang, Y., Yi, C., Yi, Y., Jin, Q., Kang, A. S., Li, J. & Kumar Sacitharan, P., 1 Dec 2020, In: Signal Transduction and Targeted Therapy. 5, 1, 32.
Research output: Contribution to journal › Letter › peer-review

Open Access
7 Citations (Scopus)
Citations
Citation Indexes: 7
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Readers: 9
Mentions
News Mentions: 10
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Advances in freshwater risk assessment: improved accuracy of dissolved organic matter-metal speciation prediction and rapid biological validation
Zhang, X., Li, B., Deng, J., Qin, B., Wells, M. & Tefsen, B., 1 Oct 2020, In: Ecotoxicology and Environmental Safety. 202, 110848.
Research output: Contribution to journal › Article › peer-review
11 Citations (Scopus)
Citations
Citation Indexes: 11
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Readers: 17
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A fly CURE confers superior long-term retention of genetics skills than a traditional lab and lecture pairing
Fendos, J. & Wei, Z., 2025, (In preparation) In: CBE Life Sciences Education.
Research output: Contribution to journal › Article › peer-review
A fully human IgG1 antibody targeting connexin 32 extracellular domain blocks CMTX1 hemichannel dysfunction in an in vitro model
Tettey-Matey, A., Donati, V., Cimmino, C., Di Pietro, C., Buratto, D., Panarelli, M., Reale, A., Calistri, A., Fornaini, M. V., Zhou, R., Yang, G., Zonta, F., Marazziti, D. & Mammano, F., Dec 2024, In: Cell Communication and Signaling. 22, 1, 589.
Research output: Contribution to journal › Article › peer-review

Open Access
1 Citation (Scopus)
Citations
Citation Indexes: 1
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Readers: 4
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A hierarchical model for clustering m⁶A methylation peaks in MeRIP-seq data
Cui, X., Meng, J., Zhang, S., Rao, M. K., Chen, Y. & Huang, Y., 22 Aug 2016, In: BMC Genomics. 17, 520.
Research output: Contribution to journal › Article › peer-review

Open Access
18 Citations (Scopus)
Citations
Citation Indexes: 18
Captures
Readers: 25
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AI techniques have facilitated the understanding of epitranscriptome distribution
Huang, D., Meng, J. & Chen, K., 11 Dec 2024, In: Cell Genomics. 4, 12, 100718.
Research output: Contribution to journal › Comment/debate

Open Access
AlexNet for Image-Based COVID-19 Diagnosis
Tang, M., Peng, Y., Wang, S., Chen, S. & Zhang, Y., 2024, Proceedings of 2023 International Conference on Medical Imaging and Computer-Aided Diagnosis (MICAD 2023) - Medical Imaging and Computer-Aided Diagnosis. Su, R., Zhang, Y-D. & Frangi, A. F. (eds.). Springer Science and Business Media Deutschland GmbH, p. 166-176 11 p. (Lecture Notes in Electrical Engineering; vol. 1166 LNEE).
Research output: Chapter in Book or Report/Conference proceeding › Conference Proceeding › peer-review
1 Citation (Scopus)
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Readers: 2
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Algicidal activity synchronized with nitrogen removal by actinomycetes: Algicidal mechanism, stress response of algal cells, denitrification performance, and indigenous bacterial community co-occurrence
Ma, B., Li, A., Chen, S., Guo, H., Li, N., Pan, S., Chen, K., Liu, H., Kosolapov, D. B., Liu, X., Zhi, W., Chen, Z., Mo, Y., Sekar, R., Huang, T. & Zhang, H., 15 May 2024, In: Journal of Hazardous Materials. 470, 134117.
Research output: Contribution to journal › Article › peer-review
3 Citations (Scopus)
Citations
Citation Indexes: 3
Captures
Readers: 10
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Alpha-7 Nicotinic Receptor Dampens Murine Osteoblastic Response to Inflammation and Age-Related Osteoarthritis
Courties, A., Petit, J., Do, A., Legris, M., Kouki, I., Pigenet, A., Sacitharan, P. K., Ehkirch, F. P., Berenbaum, F. & Sellam, J., 8 Apr 2022, In: Frontiers in Immunology. 13, 842538.
Research output: Contribution to journal › Article › peer-review

Open Access
10 Citations (Scopus)
Citations
Citation Indexes: 10
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Readers: 10
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Altered behaviour, dopamine and norepinephrine regulation in stressed mice heterozygous in TPH2 gene
Kaluev, A., 8 Jan 2021, In: Progress in Neuro-Psychopharmacology and Biological Psychiatry.
Research output: Contribution to journal › Article › peer-review

13 Citations (Scopus)
A Meta-analysis: Evaluating the Effect of METTL3/METTL14 on m6A Level Based on Knockdown Samples
Zhang, Y., Wu, Y., Zhen, D., Chen, K. & Meng, J., 20 Jul 2021, Proceedings of the 5th International Conference on Biological Information and Biomedical Engineering, BIBE 2021. Chen, B. (ed.). Association for Computing Machinery, 3469715. (ACM International Conference Proceeding Series).
Research output: Chapter in Book or Report/Conference proceeding › Conference Proceeding › peer-review
A miniaturized bioreactor system for the evaluation of cell interaction with designed substrates in perfusion culture
Sun, T., Donoghue, P. S., Higginson, J. R., Gadegaard, N., Barnett, S. C. & Riehle, M. O., Dec 2012, In: Journal of Tissue Engineering and Regenerative Medicine. 6, SUPPL. 3, p. s4-s14
Research output: Contribution to journal › Article › peer-review

Open Access
5 Citations (Scopus)
Citations
Citation Indexes: 5
Captures
Readers: 14
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A model for computing genes governing marital dissolution through sentimental dynamics
Shen, Y., 2014, In: Journal of Theoretical Biology.
Research output: Contribution to journal › Article › peer-review
AMPrimer: An R package for anchored multiplex PCR primer design
Wang, Y., Liu, X., Wu, X., Yuan, X., Meng, J. & Tang, Y., 2019, 3rd International Conference on Biological Information and Biomedical Engineering, BIBE 2019. VDE Verlag GmbH, p. 293-296 4 p. (3rd International Conference on Biological Information and Biomedical Engineering, BIBE 2019).
Research output: Chapter in Book or Report/Conference proceeding › Conference Proceeding › peer-review
An acetylcholinesterase inhibitor, donepezil, increases anxiety and cortisol levels in adult zebrafish
Kaluev, A., Dec 2020, In: Journal of Psychopharmacology.
Research output: Contribution to journal › Article › peer-review

26 Citations (Scopus)
An adaptive block-wise prediction error-based (AdaBPE) reversible data hiding in encrypted images for medical image transmission
Panchikkil, S., Manikandan, V. M., Pratim Roy, P., Wang, S. & Zhang, Y., 2024, (Accepted/In press) In: CAAI Transactions on Intelligence Technology.
Research output: Contribution to journal › Article › peer-review

Open Access
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Readers: 1
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News Mentions: 1
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An Enhanced RIME Optimizer with Horizontal and Vertical Crossover for Discriminating Microseismic and Blasting Signals in Deep Mines
Zhu, W., Li, Z., Heidari, A. A., Wang, S., Chen, H. & Zhang, Y., 28 Oct 2023, In: Sensors (Basel, Switzerland). 23, 21
Research output: Contribution to journal › Article › peer-review

Open Access
11 Citations (Scopus)
Citations
Citation Indexes: 11
Captures
Readers: 9
Mentions
Blog Mentions: 1
News Mentions: 1
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A New Convolutional Neural Network Architecture for Automatic Segmentation of Overlapping Human Chromosomes
Song, S., Bai, T., Zhao, Y., Zhang, W., Yang, C., Meng, J., Ma, F. & Su, J., Feb 2022, In: Neural Processing Letters. 54, 1, p. 285-301 17 p.
Research output: Contribution to journal › Article › peer-review
9 Citations (Scopus)
Citations
Citation Indexes: 8
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Readers: 13
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A new perspective of copper-iron effects on bloom-forming algae in a highly impacted environment
Li, B., Zhang, X., Deng, J., Cheng, Y., Chen, Z., Qin, B., Tefsen, B. & Wells, M., 1 May 2021, In: Water Research. 195, 116889.
Research output: Contribution to journal › Article › peer-review
18 Citations (Scopus)
Citations
Citation Indexes: 18
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Readers: 26
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Animal models of major depressive disorder and the implications for drug discovery and development
Kaluev, A., Apr 2019, In: Expert Opinion on Drug Discovery.
Research output: Contribution to journal › Review article › peer-review

18 Citations (Scopus)
An Improved Algorithm for Estimating the Distribution of RNA-related Genomic Features
Wu, J., Zhang, L., Weng, Y., Meng, J., Su, J. & Wang, Y., 21 Jul 2020, Proceedings of the 4th International Conference on Biological Information and Biomedical Engineering, BIBE 2020. Yu, W. & Liu, C. (eds.). Association for Computing Machinery, (ACM International Conference Proceeding Series).
Research output: Chapter in Book or Report/Conference proceeding › Conference Proceeding › peer-review
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A Novel ACVR2A::RAF1 Fusion in Spindle Cell Sarcoma
Jiang, A., Li, H., Li, D., Chen, H., Zhao, L., Zhang, Y., Li, Y., Rong, R., Li, B. & Xiao, S., Feb 2025, In: Genes Chromosomes and Cancer. 64, 2, e70033.
Research output: Contribution to journal › Article › peer-review
A novel algorithm for calling mRNA m⁶A peaks by modeling biological variances in MeRIP-seq data
Cui, X., Meng, J., Zhang, S., Chen, Y. & Huang, Y., 15 Jun 2016, In: Bioinformatics. 32, 12, p. i378-i385
Research output: Contribution to journal › Article › peer-review

Open Access
85 Citations (Scopus)
Citations
Citation Indexes: 85
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Readers: 75
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A Novel Application of Image-to-Image Translation: Chromosome Straightening Framework by Learning from a Single Image
Song, S., Huang, D., Hu, Y., Yang, C., Meng, J., Ma, F., Coenen, F., Zhang, J. & Su, J., 2021, Proceedings - 2021 14th International Congress on Image and Signal Processing, BioMedical Engineering and Informatics, CISP-BMEI 2021. Li, Q., Wang, L., Wang, Y. & Li, W. (eds.). Institute of Electrical and Electronics Engineers Inc., (Proceedings - 2021 14th International Congress on Image and Signal Processing, BioMedical Engineering and Informatics, CISP-BMEI 2021).
Research output: Chapter in Book or Report/Conference proceeding › Conference Proceeding › peer-review

Open Access
8 Citations (Scopus)
Citations
Citation Indexes: 7
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Readers: 2
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A Novel KMT2A::DCP1B Rearrangement in Chronic Neutrophilic Leukemia.
Rong, R., Yang, L., Yang, X., Zhuang, Y., Wang, Y., Zhou, X. & Xiao, S., 15 Sept 2023, In: International Journal of Laboratory Hematology.
Research output: Contribution to journal › Article › peer-review
1 Citation (Scopus)
Citations
Citation Indexes: 1
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Readers: 2
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A Novel Laser-Based Zebrafish Model for Studying Traumatic Brain Injury and Its Molecular Targets
Kaluev, A., 22 Aug 2022, In: Pharmaceutics.
Research output: Contribution to journal › Article › peer-review

11 Citations (Scopus)
A novel open-access artificial-intelligence-driven platform for CNS drug discovery utilizing adult zebrafish
Lukovikov, D. A., Kolesnikova, T. O., Ikrin, A. N., Prokhorenko, N. O., Shevlyakov, A. D., Korotaev, A. A., Yang, L., Bley, V., de Abreu, M. S. & Kalueff, A. V., Nov 2024, In: Journal of Neuroscience Methods. 411, 110256.
Research output: Contribution to journal › Article › peer-review
1 Citation (Scopus)
Citations
Citation Indexes: 1
Captures
Readers: 12
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A novel simian retrovirus subtype discovered in cynomolgus monkeys (Macaca fascicularis)
Zao, C. L., Tomanek, L., Cooke, A., Berger, R., Yang, L., Xie, C., Chen, S., Shi, C. & Rong, R., Nov 2016, In: Journal of General Virology. 97, 11, p. 3017-3023 7 p., 000601.
Research output: Contribution to journal › Article › peer-review

Open Access
9 Citations (Scopus)
Citations
Citation Indexes: 9
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Readers: 10
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Anti-Fungal Hevein-like Peptides Biosynthesized from Quinoa Cleavable Hololectins
Loo, S., Tay, S. V., Kam, A., Tang, F., Fan, J-S., Yang, D. & Tam, J. P., 29 Sept 2021, In: Molecules. 26, 19, p. 5909
Research output: Contribution to journal › Article › peer-review
20 Citations (Scopus)
Anti-inflammatory nutraceuticals and herbal medicines for the management of metabolic syndrome
Li, G. Q., Wong, K. H., Kam, A., Zhou, X., Omar, E., Algahtani, A., Li, K. M., Razmovski-Naumovski, V. & Chan, K., 2012, Chronic Inflammation. CRC Press
Research output: Chapter in Book or Report/Conference proceeding › Chapter › peer-review

Open Access
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An Update of Fungal Endophyte Diversity and Strategies for Augmenting Therapeutic Potential of their Potent Metabolites: Recent Advancement
Prajapati, C., Rai, S. N., Singh, A. K., Chopade, B. A., Singh, Y., Singh, S. K., Haque, S., Prieto, M. A. & Ashraf, G. M., 2025, (Accepted/In press) In: Applied Biochemistry and Biotechnology.
Research output: Contribution to journal › Review article › peer-review

Open Access
1 Citation (Scopus)
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Readers: 4
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A plant CURE can decrease interest in botanical research, despite significant gains in lab competence
Fendos, J. & Han, T., 2025, (In preparation) In: Journal of Experimental Education.
Research output: Contribution to journal › Article › peer-review
Applications of bacterial quorum sensing in algal biotechnology
Zhao, X., Ramalingam, B. & Sekar, R., 1 Jan 2023, Algae Materials: Applications Benefitting Health. Elsevier, p. 167-188 22 p.
Research output: Chapter in Book or Report/Conference proceeding › Chapter › peer-review
3 Citations (Scopus)
Citations
Citation Indexes: 3
Captures
Readers: 7
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A promising natural product in diffuse large B-cell lymphoma therapy by targeting PIM1
Zhang, X., Su, Q., Zhang, Y., Rong, R., Chen, S., He, L., Zhuang, W. & Li, B., Aug 2024, In: Annals of Hematology. 103, 8, p. 2905-2915 11 p.
Research output: Contribution to journal › Article › peer-review
2 Citations (Scopus)
Citations
Citation Indexes: 2
Captures
Readers: 2
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A protocol for RNA methylation differential analysis with MeRIP-Seq data and exomePeak R/Bioconductor package
Meng, J., Lu, Z., Liu, H., Zhang, L., Zhang, S., Chen, Y., Rao, M. K. & Huang, Y., 1 Oct 2014, In: Methods. 69, 3, p. 274-281 8 p.
Research output: Contribution to journal › Article › peer-review

Open Access
276 Citations (Scopus)
Citations
Citation Indexes: 274
Captures
Readers: 194
Social Media
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A review of IoT applications in healthcare
Li, C., Wang, J., Wang‎, S. & Zhang, Y., 14 Jan 2024, In: Neurocomputing. 565, 127017.
Research output: Contribution to journal › Article › peer-review

Open Access
91 Citations (Scopus)
Citations
Citation Indexes: 87
Captures
Readers: 606
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A Robust Framework of Chromosome Straightening With Vit-Patch Gan
Song, S., Wang, J., Cheng, F., Cao, Q., Zuo, Y., Lei, Y., Yang, R., Yang, C., Coenen, F., Meng, J., Dang, K. & Su, J., 18 Apr 2023, 2023 IEEE International Symposium on Biomedical Imaging, ISBI 2023. IEEE Computer Society, (Proceedings - International Symposium on Biomedical Imaging; vol. 2023-April).
Research output: Chapter in Book or Report/Conference proceeding › Conference Proceeding › peer-review

Open Access
1 Citation (Scopus)
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Citation Indexes: 1
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Readers: 5
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Arsenic behavior across soil-water interfaces in paddy soils: Coupling, decoupling and speciation
Yuan, Z. F., Gustave, W., Boyle, J., Sekar, R., Bridge, J., Ren, Y., Tang, X., Guo, B. & Chen, Z., Apr 2021, In: Chemosphere. 269, 128713.
Research output: Contribution to journal › Article › peer-review

Open Access
22 Citations (Scopus)
Citations
Citation Indexes: 22
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Readers: 24
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Arsenic mitigation in paddy soils by using microbial fuel cells
Gustave, W., Yuan, Z. F., Sekar, R., Chang, H. C., Zhang, J., Wells, M., Ren, Y. X. & Chen, Z., Jul 2018, In: Environmental Pollution. 238, p. 647-655 9 p.
Research output: Contribution to journal › Article › peer-review

Open Access
45 Citations (Scopus)
Citations
Citation Indexes: 44
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Readers: 63
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Department of Biosciences and Bioinformatics

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