Search Results - "Keiser MJ"

MIC: A deep learning tool for assigning ions and waters in cryo-EM and crystal structures.

Authors: Shub L Liu W Skiniotis G et al.

Source: Nature communications [Nat Commun] 2025 Jul 04; Vol. 16 (1), pp. 6182. Date of Electronic Publication: 2025 Jul 04.

Publication Type: Journal Article

Journal Info: Publisher: Nature Pub. Group Country of Publication: England NLM ID: 101528555 Publication Model: Electronic Cited Medium: Internet ISSN: 2041-1723 (Electronic) Linking ISSN: 20411723 NLM ISO Abbreviation: Nat Commun Subsets: MEDLINE

Evolutionary-scale enzymology enables exploration of a rugged catalytic landscape.

Authors: Muir DF Asper GPR Notin P et al.

Source: Science (New York, N.Y.) [Science] 2025 Jun 12; Vol. 388 (6752), pp. eadu1058. Date of Electronic Publication: 2025 Jun 12.

Publication Type: Journal Article

Journal Info: Publisher: American Association for the Advancement of Science Country of Publication: United States NLM ID: 0404511 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1095-9203 (Electronic) Linking ISSN: 00368075 NLM ISO Abbreviation: Science Subsets: MEDLINE

ChromaFactor: Deconvolution of single-molecule chromatin organization with non-negative matrix factorization.

Authors: Gunsalus LM Keiser MJ Pollard KS

Source: PLoS computational biology [PLoS Comput Biol] 2025 Feb 18; Vol. 21 (2), pp. e1012841. Date of Electronic Publication: 2025 Feb 18 (Print Publication: 2025).

Publication Type: Dataset; Journal Article

Journal Info: Publisher: Public Library of Science Country of Publication: United States NLM ID: 101238922 Publication Model: eCollection Cited Medium: Internet ISSN: 1553-7358 (Electronic) Linking ISSN: 1553734X NLM ISO Abbreviation: PLoS Comput Biol Subsets: MEDLINE

Deep phenotypic profiling of neuroactive drugs in larval zebrafish.

Authors: Gendelev L Taylor J Myers-Turnbull D et al.

Source: Nature communications [Nat Commun] 2024 Nov 17; Vol. 15 (1), pp. 9955. Date of Electronic Publication: 2024 Nov 17.

Publication Type: Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Nature Pub. Group Country of Publication: England NLM ID: 101528555 Publication Model: Electronic Cited Medium: Internet ISSN: 2041-1723 (Electronic) Linking ISSN: 20411723 NLM ISO Abbreviation: Nat Commun Subsets: MEDLINE

Accelerating biomedical discoveries in brain health through transformative neuropathology of aging and neurodegeneration.

Authors: Murray ME Smith C Menon V et al.

Source: Neuron [Neuron] 2025 Nov 19; Vol. 113 (22), pp. 3703-3721. Date of Electronic Publication: 2025 Jul 18.

Publication Type: Journal Article; Review

Journal Info: Publisher: Cell Press Country of Publication: United States NLM ID: 8809320 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1097-4199 (Electronic) Linking ISSN: 08966273 NLM ISO Abbreviation: Neuron Subsets: MEDLINE

Deep learning finds convergent melanocytic morphology despite noisy archival slides.

Authors: Tada M Gaskins G Ghandian S et al.

Source: Cell reports methods [Cell Rep Methods] 2025 Oct 20; Vol. 5 (10), pp. 101201.

Publication Type: Journal Article

Journal Info: Publisher: Elsevier Inc Country of Publication: United States NLM ID: 9918227360606676 Publication Model: Print Cited Medium: Internet ISSN: 2667-2375 (Electronic) Linking ISSN: 26672375 NLM ISO Abbreviation: Cell Rep Methods Subsets: MEDLINE

Cell-type-directed network-correcting combination therapy for Alzheimer's disease.

Authors: Li Y Pereda Serras C Blumenfeld J et al.

Source: Cell [Cell] 2025 Oct 02; Vol. 188 (20), pp. 5516-5534.e18. Date of Electronic Publication: 2025 Jul 21.

Publication Type: Journal Article

Journal Info: Publisher: Cell Press Country of Publication: United States NLM ID: 0413066 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1097-4172 (Electronic) Linking ISSN: 00928674 NLM ISO Abbreviation: Cell Subsets: MEDLINE

Autoparty: Machine Learning-Guided Visual Inspection of Molecular Docking Results.

Authors: Shub L Korczynska M Muir DF et al.

Source: Journal of chemical information and modeling [J Chem Inf Model] 2025 Aug 11; Vol. 65 (15), pp. 7817-7826. Date of Electronic Publication: 2025 Jul 29.

Publication Type: Journal Article

Journal Info: Publisher: American Chemical Society Country of Publication: United States NLM ID: 101230060 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1549-960X (Electronic) Linking ISSN: 15499596 NLM ISO Abbreviation: J Chem Inf Model Subsets: MEDLINE

An improved model for prediction of de novo designed proteins with diverse geometries.

Authors: Orr B Crilly SE Akpinaroglu D et al.

Source: BioRxiv : the preprint server for biology [bioRxiv] 2025 Jun 06. Date of Electronic Publication: 2025 Jun 06.

Publication Type: Journal Article; Preprint

Journal Info: Country of Publication: United States NLM ID: 101680187 Publication Model: Electronic Cited Medium: Internet ISSN: 2692-8205 (Electronic) Linking ISSN: 26928205 NLM ISO Abbreviation: bioRxiv Subsets: PubMed not MEDLINE

Fuzz Testing Molecular Representation Using Deep Variational Anomaly Generation.

Authors: Nogueira VHR Sharma R Guido RVC et al.

Source: Journal of chemical information and modeling [J Chem Inf Model] 2025 Feb 24; Vol. 65 (4), pp. 1911-1927. Date of Electronic Publication: 2025 Feb 05.

Publication Type: Journal Article

Journal Info: Publisher: American Chemical Society Country of Publication: United States NLM ID: 101230060 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1549-960X (Electronic) Linking ISSN: 15499596 NLM ISO Abbreviation: J Chem Inf Model Subsets: MEDLINE

Data-driven discovery of cell-type-directed network-correcting combination therapy for Alzheimer's disease.

Authors: Li Y Serras CP Blumenfeld J et al.

Source: BioRxiv : the preprint server for biology [bioRxiv] 2024 Dec 13. Date of Electronic Publication: 2024 Dec 13.

Publication Type: Journal Article; Preprint

Journal Info: Country of Publication: United States NLM ID: 101680187 Publication Model: Electronic Cited Medium: Internet ISSN: 2692-8205 (Electronic) Linking ISSN: 26928205 NLM ISO Abbreviation: bioRxiv Subsets: PubMed not MEDLINE

Evolutionary-Scale Enzymology Enables Biochemical Constant Prediction Across a Multi-Peaked Catalytic Landscape.

Authors: Muir DF Asper GPR Notin P et al.

Source: BioRxiv : the preprint server for biology [bioRxiv] 2024 Oct 25. Date of Electronic Publication: 2024 Oct 25.

Publication Type: Journal Article; Preprint

Journal Info: Country of Publication: United States NLM ID: 101680187 Publication Model: Electronic Cited Medium: Internet ISSN: 2692-8205 (Electronic) Linking ISSN: 26928205 NLM ISO Abbreviation: bioRxiv Subsets: PubMed not MEDLINE

Retrieval Augmented Docking Using Hierarchical Navigable Small Worlds.

Authors: Hall BW Keiser MJ

Source: Journal of chemical information and modeling [J Chem Inf Model] 2024 Oct 14; Vol. 64 (19), pp. 7398-7408. Date of Electronic Publication: 2024 Oct 03.

Publication Type: Journal Article

Journal Info: Publisher: American Chemical Society Country of Publication: United States NLM ID: 101230060 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1549-960X (Electronic) Linking ISSN: 15499596 NLM ISO Abbreviation: J Chem Inf Model Subsets: MEDLINE

Learning precise segmentation of neurofibrillary tangles from rapid manual point annotations.

Authors: Ghandian S Albarghouthi L Nava K et al.

Source: BioRxiv : the preprint server for biology [bioRxiv] 2024 Sep 24. Date of Electronic Publication: 2024 Sep 24.

Publication Type: Journal Article; Preprint

Journal Info: Country of Publication: United States NLM ID: 101680187 Publication Model: Electronic Cited Medium: Internet ISSN: 2692-8205 (Electronic) Linking ISSN: 26928205 NLM ISO Abbreviation: bioRxiv Subsets: PubMed not MEDLINE

Learning chemical sensitivity reveals mechanisms of cellular response.

Authors: Connell W Garcia K Goodarzi H et al.

Source: Communications biology [Commun Biol] 2024 Sep 15; Vol. 7 (1), pp. 1149. Date of Electronic Publication: 2024 Sep 15.

Publication Type: Journal Article

Journal Info: Publisher: Nature Publishing Group UK Country of Publication: England NLM ID: 101719179 Publication Model: Electronic Cited Medium: Internet ISSN: 2399-3642 (Electronic) Linking ISSN: 23993642 NLM ISO Abbreviation: Commun Biol Subsets: MEDLINE

Proximity Graph Networks: Predicting Ligand Affinity with Message Passing Neural Networks.

Authors: Gale-Day ZJ Shub L Chuang KV et al.

Source: Journal of chemical information and modeling [J Chem Inf Model] 2024 Jul 22; Vol. 64 (14), pp. 5439-5450. Date of Electronic Publication: 2024 Jul 02.

Publication Type: Journal Article

Journal Info: Publisher: American Chemical Society Country of Publication: United States NLM ID: 101230060 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1549-960X (Electronic) Linking ISSN: 15499596 NLM ISO Abbreviation: J Chem Inf Model Subsets: MEDLINE

Toward a generalizable machine learning workflow for neurodegenerative disease staging with focus on neurofibrillary tangles.

Authors: Vizcarra JC Pearce TM Dugger BN et al.

Source: Acta neuropathologica communications [Acta Neuropathol Commun] 2023 Dec 18; Vol. 11 (1), pp. 202. Date of Electronic Publication: 2023 Dec 18.

Publication Type: Journal Article; Research Support, N.I.H., Extramural

Journal Info: Publisher: BioMed Central Country of Publication: England NLM ID: 101610673 Publication Model: Electronic Cited Medium: Internet ISSN: 2051-5960 (Electronic) Linking ISSN: 20515960 NLM ISO Abbreviation: Acta Neuropathol Commun Subsets: MEDLINE

ChromaFactor: deconvolution of single-molecule chromatin organization with non-negative matrix factorization.

Authors: Gunsalus LM Keiser MJ Pollard KS

Source: BioRxiv : the preprint server for biology [bioRxiv] 2023 Nov 22. Date of Electronic Publication: 2023 Nov 22.

Publication Type: Preprint; Journal Article

Journal Info: Country of Publication: United States NLM ID: 101680187 Publication Model: Electronic Cited Medium: Internet ISSN: 2692-8205 (Electronic) Linking ISSN: 26928205 NLM ISO Abbreviation: bioRxiv Subsets: PubMed not MEDLINE

In silico discovery of repetitive elements as key sequence determinants of 3D genome folding.

Authors: Gunsalus LM Keiser MJ Pollard KS

Source: Cell genomics [Cell Genom] 2023 Sep 25; Vol. 3 (10), pp. 100410. Date of Electronic Publication: 2023 Sep 25 (Print Publication: 2023).

Publication Type: Journal Article

Journal Info: Publisher: Elsevier, Inc Country of Publication: United States NLM ID: 9918284260106676 Publication Model: eCollection Cited Medium: Internet ISSN: 2666-979X (Electronic) Linking ISSN: 2666979X NLM ISO Abbreviation: Cell Genom Subsets: PubMed not MEDLINE

Learning chemical sensitivity reveals mechanisms of cellular response.

Authors: Connell W Garcia K Goodarzi H et al.

Source: BioRxiv : the preprint server for biology [bioRxiv] 2023 Aug 28. Date of Electronic Publication: 2023 Aug 28.

Publication Type: Preprint; Journal Article

Journal Info: Country of Publication: United States NLM ID: 101680187 Publication Model: Electronic Cited Medium: Internet ISSN: 2692-8205 (Electronic) Linking ISSN: 26928205 NLM ISO Abbreviation: bioRxiv Subsets: PubMed not MEDLINE