Publications

Publications arising from the research of the ArrestAD project

– C. Vera, J.A. Alvarez-Orozco, A. Maïza, S. Chantepie, R.N. Chehin, M.O. Ouidja, D. Papy-Garcia. Heparan sulphates, amyloidosis and neurodegeneration. Revista de neurologia. 2017, 65(10), 457-468. (UPEC)

– T.H. van Kuppevelt, A. Oosterhof, E.M.M. Versteeg, E. Podhumljak, E.M.A. van de Westerlo & W.F. Daamen. Sequencing of glycosaminoglycans with potential to interrogate sequence-specific interactions. Scientific reports. 2017, 7, 14785. doi:10.1038/s41598-017-15009-0. (RUMC)

– J. Wojsiat, K. Zoltowska, K. Laskowska-Kaszub, and U. Wojda. Oxidant/antioxidant imbalance in Alzheimer’s disease: therapeutic and diagnostic prospects. Oxidative Medicine and Cellular Longevity, 2018. doi:10.1155/2018/6435861.(NENCKI)

– Byrne, D., Ngamlert, P., Li, Y., Ramakrishnan, K., Eyers, C., Wells, C., Drewry, D., Zuercher, W., Berry, N. and Fernig, D.G., Eyers, P.A. New tools for evaluating protein tyrosine sulphation: Tyrosyl Protein Sulphotransferases (TPSTs) are novel targets for RAF protein kinase inhibitors. Biochem. J. 2018, 475: 2435-2455. Open Access with accompanying editorial, originally published as a preprint). doi:10.1042/bcj20180266. (UoL)

– Byrne, D.P., Li, Y., Ramakrishnan, K., Barsukov, I., Yates, E.A. Eyers, C., Papy-Garcia, D., Chantepie, S., Pagadala, V., Liu, J., Wells, C., Drewry, D., Zuercher, W., Berry, N., Fernig, D.G. and Eyers P.A. New tools for carbohydrate sulphation analysis: Heparan Sulphate 2-O-sulphotranserase (HS2ST) is a target for small molecule protein kinase inhibitors. Biochem. J. 2018, 475: 2417-2433. Open Access with accompanying editorial, originally published as a preprint). doi:10.1042/BCJ20180265. (UoL)

– Baeta-Corral, R., Castro-Fuentes, R., Giménez-Llort, L. Sexual Dimorphism in the Behavioral Responses and the Immunoendocrine Status in d-Galactose-Induced Aging. J Gerontol A Biol Sci Med Sci. 2018, 73(9):1147-1157. doi: 10.1093/gerona/gly031. (UAB)

– Nagaraj S, Zoltowska KM, Laskowska-Kaszub K, Wojda U. microRNA diagnostic panel for Alzheimer’s disease and epigenetic trade-off between neurodegeneration and cancer. Ageing Res Rev. 2019, 49:125-143. doi: 10.1016/j.arr.2018.10.008. Epub 2018 Nov 2.  (NENCKI).

– Maïza A, Chantepie S, Vera C, Fifre A, Huynh MB, Stettler O, Ouidja MO, Papy-Garcia D. The role of heparan sulfates in protein aggregation and their potential impact on neurodegeneration. FEBS Lett. 2018. Dec;592(23):3806-3818. doi: 10.1002/1873-3468.13082. Epub 2018 Jun 14. (UPEC)

– Alonso-López D, Campos-Laborie FJ, Gutiérrez MA, Lambourne L, Calderwood MA, Vidal M, De Las Rivas J. APID database: redefining protein-protein interaction experimental evidences and binary interactomes. Database. 2019, 1–8. doi: 10.1093/database/baz005.  (FICUS).

– Huynh MB, Ouidja MO, Chantepie S, Carpentier G, Maïza A, Zhang G, Vilares J, Raisman-Vozari R, Papy-Garcia D. Glycosaminoglycans from Alzheimer’s disease hippocampus have altered capacities to bind and regulate growth factors activities and to bind tau. PLoS One. 2019. 14(1):e0209573. doi: 10.1371/journal.pone.0209573. eCollection 2019. (UPEC).

– Campos-Laborie F J, Risueno A, Ortiz-Estevez M, Roson-Burgo B, Droste C, Fontanillo C, Loos R, Sanchez-Santos JM, Trotter MW and De Las Rivas J. DECO: decompose heterogeneous population cohorts for patient stratification and discovery of sample biomarkers using omic data profiling. Bioinformatics, 2019, 1–12. doi: 10.1093/bioinformatics/btz148. (FICUS)

– Kershaw NM, Byrne DP, Parsons H, Berry NG, Fernig DG, Eyers PA, and Cosstick R. Structure-based design of nucleoside analogues which inhibit sulfotransferases. RSC Adv. 2019, 9: 32165-32173. doi: 10.1039/C9RA07567D. (UoL)

– Bui TP, Li Y, Ngamlert P, Nunes QM, Wilkinson MC and Fernig DG. Selective labelling of arginine residues engaged in binding sulfated glycosaminoglycans. bioRxiv. 2019, https://doi.org/10.1101/574947. (UoL)

– Torres-Lista V, Giménez-Llort L. Vibrating Tail, Digging, Body/Face Interaction, and Lack of Barbering: Sex-Dependent Behavioral Signatures of Social Dysfunction in 3xTg-AD Mice as Compared to Mice with Normal Aging. J Alzheimers Dis. 2019;69(4):969-977. doi: 10.3233/JAD-190253.

– González-Velasco O, Papy-García D, Le Douaron G, Sánchez-Santos JM, De Las Rivas J. Transcriptomic landscape, gene signatures and regulatory profile of aging in the human brain. Biochim Biophys Acta Gene Regul Mech.  2020, Feb 8:194491. doi: 10.1016/j.bbagrm.2020.194491. (FICUS)

– Damen LAA, van de Westerlo EMA, Versteeg EMM, van Wessel T, Daamen WF, van Kuppevelt TH. Construction and evaluation of an antibody phage display library targeting heparan sulfate. Glycoconj J. 2020 Aug;37(4):445-455. doi: 10.1007/s10719-020-09925-z. Epub 2020 May 28. (RUMC)

– Maïza A, Sidahmed-Adrar N, Michel PP, Carpentier G, Habert D, Dalle C, Redouane W, Hamza M, van Kuppevelt TH, Ouidja MO, Courty J, Chantepie S, Papy-Garcia D, Stettler O. 3-O-sulfated heparan sulfate interactors target synaptic adhesion molecules from neonatal mouse brain and inhibit neural activity and synaptogenesis in vitro. Sci Rep. 2020 Nov 5;10(1):19114. doi: 10.1038/s41598-020-76030-4. (UPEC)

-Muntsant A, Giménez-Llort L. Impact of Social Isolation on the Behavioral, Functional Profiles, and Hippocampal Atrophy Asymmetry in Dementia in Times of Coronavirus Pandemic (COVID-19): A Translational Neuroscience Approach. Front Psychiatry. 2020; 11:572583. doi: 10.3389/fpsyt.2020.572583. eCollection 2020 (UAB).

–Gimenez-Llort L, Alveal-Mellado D. Digging Signatures in 13-Month-Old 3xTg-AD Mice for Alzheimer’s Disease and Its Disruption by Isolation Despite Social Life Since They Were Born. Front Behav Neurosci. 2021; 14:611384. doi: 10.3389/fnbeh.2020.611384. eCollection 2020 (UAB).

-Grabowska-Pyrzewicz W, Want A, Leszek J, Wojda U. Antisense oligonucleotides for Alzheimer’s disease therapy: from the mRNA to miRNA paradigm. EBioMedicine. 2021; 74:103691. doi: 10.1016/j.ebiom.2021.103691 (NENCKI).

-Nagaraj S, Want A, Laskowska-Kaszub K, Fesiuk A, Vaz S, Logarinho E, Wojda U. Candidate Alzheimer’s Disease Biomarker miR-483-5p Lowers TAU Phosphorylation by Direct ERK1/2 Repression. Int J Mol Sci. 2021; 22(7):3653. doi: 10.3390/ijms22073653 (NENCKI).

-Marín-Pardo D, Giménez-Llort L. Olfactory Signatures in the Food Finding Test in Mice With Normal and Alzheimer’s Disease-Pathological Aging With Special Concerns on the Effects of Social Isolation. Front Neurosci. 2021; 15:733984. doi: 10.3389/fnins.2021.733984 (UAB).

-Castillo-Mariqueo L, Pérez-García MJ, Giménez-Llort L. Modeling Functional Limitations, Gait Impairments, and Muscle Pathology in Alzheimer’s Disease: Studies in the 3xTg-AD Mice. Biomedicines. 2021; 9(10):1365. doi: 10.3390/biomedicines9101365 (UAB)..

-Santana-Santana M, Bayascas JR, Giménez-Llort L. Sex-Dependent Signatures, Time Frames and Longitudinal Fine-Tuning of the Marble Burying Test in Normal and AD-Pathological Aging Mice. Biomedicines. 2021; 9(8):994. doi: 10.3390/biomedicines9080994 (UAB).

-Muntsant A, Giménez-Llort L. Genotype Load Modulates Amyloid Burden and Anxiety-Like Patterns in Male 3xTg-AD Survivors despite Similar Neuro-Immunoendocrine, Synaptic and Cognitive Impairments. Biomedicines. 2021; 9(7):715. doi: 10.3390/biomedicines9070715 (UAB).

–Giménez-Llort L, Torres-Lista V. Social Nesting, Animal Welfare, and Disease Monitoring. Animals (Basel). 2021; 11(4):1079. doi: 10.3390/ani11041079 (UAB).

-Muntsant A, Jiménez-Altayó F, Puertas-Umbert L, Jiménez-Xarrie E, Vila E, Giménez-Llort L. Sex-Dependent End-of-Life Mental and Vascular Scenarios for Compensatory Mechanisms in Mice with Normal and AD-Neurodegenerative Aging. Biomedicines. 2021; 9(2):111. doi:10.3390/biomedicines9020111 (UAB).

-Maïza A, Le Douaron G, Muntsant Soria A, Li Y, Ramakrishnan K, Ouidja MO, Fifre A, Chantepie-Laborde S, Jospin E, Laffray X, Ramos I, Fernig D, Gimenez Llort L, Papy-Garcia D and ArrestAD consortium Team. Heparan sulfate: in vitro and in vivo proof of efficacy of this new therapeutic strategy for halting Alzheimer disease related tauopathies development. AAIC Abstract Published in Alzheimer and dementia. https://doi.org/10.1002/alz.051607. (UPEC, UoL, UAB)

-Castillo-Mariqueo L, Giménez-Llort L. Kyphosis and bizarre patterns impair spontaneous gait performance in end-of-life mice with Alzheimer’s disease pathology while gait is preserved in normal aging. Neurosci Lett. 2022; 767:136280. doi: 10.1016/j.neulet.2021.136280. (UAB).

-Huynh MB, Rebergue N, Merrick H, Homez-Henao W, Jospin E, Biard DSF, Papy-Garcia D. HS3ST2 expression induces the cell autonomous aggregation of tau. Sci. Rep. 2022. 12. (UPEC)

-Ouidja MO, Biard DSF, Chantepie S, Laffray X, Le Douaron G, Huynh MB, Rebergue N, Maïza A, Rubio K, Gonzalez-Velasco O, Barreto G, De Las Rivas J, Papy-Garcia D. Variability in proteoglycan biosynthetic genes reveals new facets of heparan sulfates diversity. A systematic review. MedRxiv preprint. 2022. 10.1101/2022.04.18.22273971 (UPEC, FICUS).

-Su D, Li Y, Yates EA, Skidmore MA, Lima MA, Fernig DG. Analysis of protein-heparin interactions using a portable SPR instrument. PeerJ Analytical Chemistry. 2022. 4:e15 DOI 10.7717/peerj-achem.15 (UoL).

-Wheeler S, Breen C, Li Y, Hewitt SH, Robertson E, Yates EA, Barsukov IL, Fernig DG, and Butler SJ. Anion binding to a cationic europium(III) probe enables the first real-time assay of heparan sulfotransferase activity. Org. Biomol. Chem. 2022. 20:596-605 DOI: 10.1039/D1OB02071D.Published in preprint ChemRxiv in end of 2021 (UoL).

– Lima MA, Rudd TR, Fernig DG and Yates EA. Phosphorylation and sulfation share a common biosynthetic pathway, but extend biochemical and evolutionary diversity of biological macromolecules in distinct ways. J. R. Soc. Interface. 2022; 19: 20220391. https://doi.org/10.1098/rsif.2022.0391 (UoL).

– Andrew W, Staniak K, Grabowska-Pyrzewicz W, Fesiuk A, Barczak A, Gabryelewicz T, Kulczyńska-Przybik A, Mroczko B, and Wojda U. Optimized RT-qPCR and a Novel Normalization Method for Validating Circulating miRNA Biomarkers in Ageing-Related Diseases. Scientific Reports. 2023. 13, n^o 1: 20869. https://doi.org/10.1038/s41598-023-47971-3. (NENCKI)

– Damen, LAA, Bui TP, van Wessel T, Li Y, Straten BF, Pampiermole R, Daamen WF, Fernig DG, and van Kuppevelt TH. Identification of heparin-binding amino acid residues in antibody HS4C3 with the potential to design antibodies against heparan sulfate domains. Glycobiology. 2024. 34, n^o 8: cwae046. https://doi.org/10.1093/glycob/cwae046. (SRUMC)

– Ouidja MO, Biard DSF, Huynh MB, Laffray X, Gomez-Henao W, Chantepie S, Le Douaron G, Rebergue N, Maïza A, Merrick H, De Lichy A, Dady A, González-Velasco O, Rubio K, Barreto G, Baranger K, Cormier-Daire V, De Las Rivas J, Fernig DG, Papy-Garcia D. Genetic variability in proteoglycan biosynthetic genes reveals new facets of heparan sulfate diversity. Essays Biochem. 2024. 68(4):555-578. doi: 10.1042/EBC20240106. (UPEC, UoL, FICUS)

– Mistry R, Byrne DP, Starns D, Barsukov IL, Yates EA and Fernig DG. Polysaccharide sulfotransferases: the identification of putative sequences and respective functional characterisation. Essays Biochem. 2024. 68: 431–447. https://doi.org/10.1042/EBC20230094. (UoL)

– Alotaibi FS, Alsadun MMR, Alsaiari SA, Ramakrishnan K, Yates EA, Fernig DG. Interactions of proteins with heparan sulfate. Essays Biochem. 2024. 68: 479–489. https://doi.org/10.1042/EBC20230093. (UoL)

Book chapter:

Zoltowska Katarzyna Marta, Laskowska-Kaszub Katarzyna, Nagaraj Siranjeevi, Wojda Urszula. Implication of miRNAs in Alzheimer’s disease pathogenesis. Short title: miRNA network in AD in THE NEUROSCIENCE OF DEMENTIA: DIAGNOSIS AND MANAGEMENT. Edited by Colin R. Martin and Victor R. Preedy, King’s College London, Elsevier, ISBN: 978-0-12-815868-5 (Volume 2), 2020 (NENCKI).

Additional publication not directly link to the project:

FICUS general acknowledge to ArrestAD because they used in these publications several algorithms and computational approaches that they develop thanks to the work done in ArrestAD:

–Arroyo MM, Berral-González A, Bueno-Fortes S, Alonso-López D, Rivas JL.Mining Drug-Target Associations in Cancer: Analysis of Gene Expression and Drug Activity Correlations. Biomolecules. 2020; 10(5):667. doi: 10.3390/biom10050667. (FICUS)

–Cortes-Urrea C, Bueno-Gutiérrez F, Solarte M, Guevara-Burbano M, Tobar-Tosse F, Vélez-Varela PE, Bonilla JC, Barreto G, Velasco-Medina J, Moreno PA, Rivas JL. Exomes of Ductal Luminal Breast Cancer Patients from Southwest Colombia: Gene Mutational Profile and Related Expression Alterations. Biomolecules. 2020; 10(5):698. doi: 10.3390/biom10050698. (FICUS)

–Sánchez-Luis E, Joaquín-García A, Campos-Laborie FJ, Sánchez-Guijo F, Rivas JL. Deciphering Master Gene Regulators and Associated Networks of Human Mesenchymal Stromal Cells. Biomolecules. 2020; 10(4):557. doi: 10.3390/biom10040557. (FICUS)

UAB general acknowledge to ArrestAD because they used the 3xTg-AD mice colony of the project:

– Fraile-Ramos J and Giménez-Llort L. Sex-Dependent Hepatomegaly, and Increased Hepatic Oxidative Stress in Old Male and Female 3xTg-AD Mice as Compared to Mice with Physiological Aging. Medical Sciences Forum 8. 2021. n^o 1: 8. https://doi.org/10.3390/IECBS2021-10668. (UAB)

– Alveal-Mellado D and Giménez-Llort L. Thigmotaxis Helps Differentiate Normal and Pathological Ageing Processes in a Mouse Model of Alzheimer’s Disease. Medical Sciences Forum 8. 2021. n^o 1: 2. https://doi.org/10.3390/IECBS2021-10669. (UAB)

– Giménez-Llort L and Llauradó-Sánchez M. Intrinsic and Extrinsic Factors in the Bizarre Patterns Elicited in the Open-Field Test in Male and Female Mice with Normal and AD-Pathological Aging under Social or Isolated Housing Conditions. Biology and Life Sciences Forum 19. 2022. n^o 1: 14. https://doi.org/10.3390/IECBS2022-13506. (UAB)

– Castillo-Mariqueo L, and Gimenez-Llort L. Translational Modeling of Psychomotor Function in Normal and AD-Pathological Aging With Special Concerns on the Effects of Social Isolation. Frontiers in Aging. 2021. 2. https://doi.org/10.3389/fragi.2021.648567. (UAB)

– Giménez-Llort L, Santana-Santana M, Ratia M, Pérez B, Camps P, Muñoz-Torrero D, Badia A, and Victòria Clos M. Clock/Sleep-Dependent Learning and Memory in Male 3xTg-AD Mice at Advanced Disease Stages and Extrinsic Effects of Huprine X and the Novel Multitarget Agent AVCRI104P3. Brain Sciences. 2021. 11, n^o 4: 426. https://doi.org/10.3390/brainsci11040426. (UAB)

– Giménez-Llort L, and Johansson B. Editorial: Pharmacology of BPSD (Behavioral and Psychological Symptoms of Dementia). Frontiers in Pharmacology. 2021. 12. https://doi.org/10.3389/fphar.2021.704421. (UAB)

– Alveal-Mellado D, Castillo-Mariqueo L, and Giménez-Llort L. Sex- and Neuropsychiatric-Dependent Circadian Alterations in Daily Voluntary Physical Activity Engagement and Patterns in Aged 3xTg-AD Mice. International Journal of Molecular Sciences. 2022. 23, n^o 22: 13671. https://doi.org/10.3390/ijms232213671. (UAB)

– Alveal-Mellado D, and Giménez-Llort L. Sex-Dependent Variations in Voluntary Exercise of 14-Month-Old 3xTg-AD Mice Associated with Novelty Inhibition. Biology and Life Sciences Forum 19. 2022. n^o 1: 5. https://doi.org/10.3390/IECBS2022-12946. (UAB)

– Giménez-Llort L, and Llauradó-Sánchez M. Intrinsic and Extrinsic Factors in the Bizarre Patterns Elicited in the Open-Field Test in Male and Female Mice with Normal and AD-Pathological Aging under Social or Isolated Housing Conditions. Biology and Life Sciences Forum 19. 2022. n^o 1: 14. https://doi.org/10.3390/IECBS2022-13506. (UAB)

– Santana-Santana M, Bayascas JR, and Giménez-Llort L. Burying and Burrowing Behavior in Male and Female Normal and 3xTg-AD Mice: A New Comprehensive Study Based on the Two-Zone Configuration. Preprints. 2022. https://doi.org/10.20944/preprints202211.0342.v1. (UAB)

– Muntsant A, and Giménez-Llort L. Crosstalk of Alzheimer’s disease-phenotype, HPA axis, splenic oxidative stress and frailty in late-stages of dementia, with special concerns on the effects of social isolation: A translational neuroscience approach. Frontiers in Aging Neuroscience. 2022. 14: 969381. https://doi.org/10.3389/fnagi.2022.969381. (UAB)

– Pérez-Gozalbo C, and Giménez-Llort L. Obesity, Impaired Glucose Metabolism and Hepatic Histopathological Damage in 3xTg-AD Mice at Different Stages of Disease Compared to Mice with Normal Aging. Biology and Life Sciences Forum 19. 2022. n^o 1: 10. https://doi.org/10.3390/IECBS2022-12938. (UAB)

– Castillo-Mariqueo L, and Giménez-Llort L. Impact of Behavioral Assessment and Re-Test as Functional Trainings That Modify Survival, Anxiety and Functional Profile (Physical Endurance and Motor Learning) of Old Male and Female 3xTg-AD Mice and NTg Mice with Normal Aging. Biomedicines. 2022. 10, n^o 5: 973. https://doi.org/10.3390/biomedicines10050973. (UAB)

– Marín-Pardo D, Giménez-Llort L. The Food-Finding Test Paradigm without Deprivation Delays the Ethogram but Preserves the Olfactory Signatures in Female Mice with Normal and AD-Pathological Aging and Detects Their Ethogram Derangement Due to Social Isolation. Biology and Life Sciences Forum 19. 2022. n^o 1: 15. https://doi.org/10.3390/IECBS2022-13741. (UAB)

– Fraile-Ramos J, Garrit A, Reig-Vilallonga J, and Giménez-Llort L. Hepatic Oxi-Inflammation and Neophobia as Potential Liver–Brain Axis Targets for Alzheimer’s Disease and Aging, with Strong Sensitivity to Sex, Isolation, and Obesity. Cells. 2023. 12, n^o 11: 1517. https://doi.org/10.3390/cells12111517. (UAB)

– Muntsant A, del Mar Castillo-Ruiz M, and Giménez-Llort L. Survival Bias, Non-Lineal Behavioral and Cortico-Limbic Neuropathological Signatures in 3xTg-AD Mice for Alzheimer’s Disease from Premorbid to Advanced Stages and Compared to Normal Aging. International Journal of Molecular Sciences. 2023. 24, n^o 18: 13796. https://doi.org/10.3390/ijms241813796. (UAB)

– Johansson B, Oasa S, Muntsant Soria A, Tiiman A, Söderberg L, Amandius E, Möller C, Lannfelt L, Terenius L, Giménez-Llort L, Vukojević V. The interwoven fibril-like structure of amyloid-beta plaques in mouse brain tissue visualized using super-resolution STED microscopy. Cell & Bioscience. 2023. 13, n^o 1: 142. https://doi.org/10.1186/s13578-023-01086-4. (UAB)

– Marín-Pardo D, and Giménez-Llort L. Food Finding Test without Deprivation: A Sensorial Paradigm Sensitive to Sex, Genotype, and Isolation Shows Signatures of Derangements in Old Mice with Alzheimer’s Disease Pathology and Normal Aging. Brain Sciences. 2024. 14, n^o 3: 288. https://doi.org/10.3390/brainsci14030288. (UAB)

– Fraile-Ramos J, Reig-Vilallonga J, and Giménez-Llort L. Glomerular Hypertrophy and Splenic Red Pulp Degeneration Concurrent with Oxidative Stress in 3xTg-AD Mice Model for Alzheimer’s Disease and Its Exacerbation with Sex and Social Isolation. International Journal of Molecular Sciences. 2024. 25, n^o 11: 6112. https://doi.org/10.3390/ijms25116112. (UAB)

– Alveal-Mellado D, Giménez-Llort L. Use of Ordered Beta Regression Unveils Cognitive Flexibility Index and Longitudinal Cognitive Training Signatures in Normal and Alzheimer’s Disease Pathological Aging. Brain Sciences. 2024. 14, n^o 5: 501. https://doi.org/10.3390/brainsci14050501. (UAB)

– Masaru T, Battaglia S, Giménez-Llort L, Chen C, Hepsomali P, Avenanti A, and Vécsei L. Innovation at the Intersection: Emerging Translational Research in Neurology and Psychiatry. Cells. 2024. 13, n^o 10: 790. https://doi.org/10.3390/cells13100790. (UAB)

– Castillo-Mariqueo L, Alveal-Mellado D, and Giménez-Llort L. Phenotypical, Behavioral, and Systemic Hallmarks in End-Point Mouse Scenarios. Animals : an Open Access Journal from MDPI. 2025. 15, n^o 4: 521. https://doi.org/10.3390/ani15040521. (UAB)

Review on miRNAs:

–Wojda U. The Perspective of Exosomal MicroRNAs as Biomarkers for Preclinical Alzheimer’s Disease. Biological Psychiatry. 2022. 92:5-7. https://doi.org/10.1016/j.biopsych.2022.04.006 (NENCKI).