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Yusuf Hamied Department of Chemistry

 

Publications by Professor Andreas Bender

Benchmarking causal reasoning algorithms for gene expression-based compound mechanism of action analysis.
A Bender
– BMC bioinformatics
(2023)
24,
154
(DOI: 10.1186/s12859-023-05277-1)
Deep generative models for 3D molecular structure
B Baillif, J Cole, P McCabe, A Bender
– Current opinion in structural biology
(2023)
80,
102566
(DOI: 10.1016/j.sbi.2023.102566)
Using Transcriptomics and Cell Morphology Data in Drug Discovery: The Long Road to Practice
L-L Pruteanu, A Bender
– ACS Medicinal Chemistry Letters
(2023)
14,
386
(DOI: 10.1021/acsmedchemlett.3c00015)
Mechanism of action deconvolution of the small-molecule pathological tau aggregation inhibitor Anle138b.
L Hosseini-Gerami, E Ficulle, N Humphryes-Kirilov, DC Airey, J Scherschel, S Kananathan, BJ Eastwood, S Bose, DA Collier, E Laing, D Evans, H Broughton, A Bender
– Alzheimer S Research and Therapy
(2023)
15,
52
(DOI: 10.1186/s13195-023-01182-0)
Mechanism of action deconvolution of the small-molecule pathological tau aggregation inhibitor Anle138b
L Hosseini-Gerami, E Ficulle, N Humphryes-Kirilov, DC Airey, J Scherschel, S Kananathan, BJ Eastwood, S Bose, DA Collier, E Laing, D Evans, H Broughton, A Bender
– Alzheimer's Research & Therapy
(2023)
15,
52
(DOI: 10.1186/s13195-023-01182-0)
Integrating structure-based approaches in generative molecular design.
M Thomas, A Bender, C de Graaf
– Current Opinion in Structural Biology
(2023)
79,
102559
(DOI: 10.1016/j.sbi.2023.102559)
<i>In silico</i> prediction and biological assessment of novel angiogenesis modulators from traditional Chinese medicine.
Y Zhu, H Yang, L Han, LH Mervin, L Hosseini-Gerami, P Li, P Wright, M-A Trapotsi, K Liu, T-P Fan, A Bender
– Frontiers in pharmacology
(2023)
14,
1116081
(DOI: 10.3389/fphar.2023.1116081)
Using chemical and biological data to predict drug toxicity.
A Liu, S Seal, H Yang, A Bender
– Slas Discovery
(2023)
28,
53
(DOI: 10.1016/j.slasd.2022.12.003)
Using Transcriptomics and Cell Morphology Data in Drug Discovery: The Long Road to Practice
L-L Pruteanu, A Bender
– ACS MEDICINAL CHEMISTRY LETTERS
(2023)
(DOI: 10.1021/acsmedchemlett.3c00015386)
Prediction of inotropic effect based on calcium transients in human iPSC-derived cardiomyocytes and machine learning
H Yang, O Obrezanova, A Pointon, W Stebbeds, J Francis, KA Beattie, P Clements, JS Harvey, GF Smith, A Bender
– Toxicology and applied pharmacology
(2022)
459,
116342
(DOI: 10.1016/j.taap.2022.116342)
Statistical analysis of preclinical inter-species concordance of histopathological findings in the eTOX database.
PSR Wright, KA Briggs, R Thomas, GF Smith, G Maglennon, P Mikulskis, M Chapman, N Greene, BU Phillips, A Bender
– Regul Toxicol Pharmacol
(2022)
138,
105308
(DOI: 10.1016/j.yrtph.2022.105308)
Retrospective analysis of the potential use of virtual control groups in preclinical toxicity assessment using the eTOX database.
PSR Wright, GF Smith, KA Briggs, R Thomas, G Maglennon, P Mikulskis, M Chapman, N Greene, BU Phillips, A Bender
– Regulatory toxicology and pharmacology : RTP
(2022)
138,
105309
(DOI: 10.1016/j.yrtph.2022.105309)
Augmented Hill-Climb increases reinforcement learning efficiency for language-based de novo molecule generation
M Thomas, NM O'Boyle, A Bender, C de Graaf
– J Cheminform
(2022)
14,
68
(DOI: 10.1186/s13321-022-00646-z)
A review of biomedical datasets relating to drug discovery: a knowledge graph perspective.
S Bonner, IP Barrett, C Ye, R Swiers, O Engkvist, A Bender, CT Hoyt, WL Hamilton
– Brief Bioinform
(2022)
23,
bbac404
(DOI: 10.1093/bib/bbac404)
scRNA-Seq-based drug repurposing targeting idiopathic pulmonary fibrosis (IPF)
A Liu, J-H Lee, N Han, A Bender
(2022)
(DOI: 10.1101/2022.09.17.508360)
Using chemical and biological data and AI for predictive safety - fundamental concepts, new readouts, applications, limitations
A Bender
– Toxicology Letters
(2022)
368,
s11
(DOI: 10.1016/j.toxlet.2022.07.045)
Identification of potential biomarker candidates of drug-induced vascular injury (DIVI) in rats using gene expression and histopathology data
A Liu, J Munoz-Muriedas, A Bender, D Dalmas
(2022)
(DOI: 10.1101/2022.08.24.505120)
Integrating cell morphology with gene expression and chemical structure to aid mitochondrial toxicity detection
S Seal, J Carreras-Puigvert, M-A Trapotsi, H Yang, O Spjuth, A Bender
– Communications biology
(2022)
5,
858
(DOI: 10.1038/s42003-022-03763-5)
Monomerization of Homodimeric Trefoil Factor 3 (TFF3) by an Aminonitrile Compound Inhibits TFF3-Dependent Cancer Cell Survival.
V Pandey, X Zhang, H-M Poh, B Wang, D Dukanya, L Ma, Z Yin, A Bender, G Periyasamy, T Zhu, KS Rangappa, B Basappa, PE Lobie
– ACS Pharmacol Transl Sci
(2022)
5,
761
(DOI: 10.1021/acsptsci.2c00044)
Merging Bioactivity Predictions from Cell Morphology and Chemical Fingerprint Models Using Similarity to Training Data
S Seal, H Yang, M-A Trapotsi, S Singh, J Carreras-Puigvert, O Spjuth, A Bender
(2022)
(DOI: 10.1101/2022.08.11.503624)

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