BioParity.UFO / UAP research

64 papers for “Garry Nolan”

Results

PaperS7676

The commitment of the human cell atlas to humanity

Ido Amit and coauthors (including Garry Nolan). ebi.ac.uk. November 20, 2024.

This HCA perspective, coauthored by Garry Nolan, describes equitable participation, local research leadership, informed consent, privacy and open versus managed data access. Its claims concern consortium aims and reported activities, rather than a clinical trial or proof of universal benefits. Public scientific collaboration and institutional affiliations do not demonstrate a secret government approach or UAP programme.

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PaperS7526

Graph Fourier transform for spatial omics representation and analyses of complex organs

Yuzhou Chang, Jixin Liu, Yi Jiang, Anjun Ma, Yao Yu Yeo, Qi Guo, Megan McNutt, Jordan E Krull, Scott J Rodig, Dan H Barouch, Garry P Nolan, Dong Xu, Sizun Jiang, Zihai Li, Bingqiang Liu, Qin Ma. ebi.ac.uk. August 29, 2024.

SpaGFT represents spatial data using graph topology and low-frequency assumptions. Benchmarks vary by dataset, and some methods perform better in particular examples. Selected marker references, repeated tissue regions and alternate analysis methods do not independently establish biological causation or patient replication.

Main text and selected supporting materials read
PaperS7686

Spatially Segregated Macrophage Populations Predict Distinct Outcomes in Colon Cancer

Magdalena Matusiak, John W. Hickey, David G.P. van IJzendoorn, Guolan Lu, Lukasz Kidziński, Shirley Zhu, Deana R.C. Colburg, Bogdan Luca, Darci J. Phillips, Sky W. Brubaker, Gregory W. Charville, Jeanne Shen, Kyle M. Loh, Derick K. Okwan-Duodu, Garry P. Nolan, Aaron M. Newman, Robert B. West, Matt van de Rijn. ebi.ac.uk. March 27, 2024.

This observational human-tissue study associates distinct macrophage populations with different colon-cancer outcomes: IL4I1 with favorable survival in two reported cohorts and SPP1 with unfavorable survival in one. Nested cells and tissue regions are not independent patients; no adjusted or prospectively validated clinical predictor is established. A reused breast-cancer treatment-response measure is T-cell receptor expansion, a surrogate. Nolan is a Resources coauthor. Public cancer-research grants name other recipients and establish no classified approach or UAP programme. Figures and supplements remain unreviewed.

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PaperS7694

Multimodal and spatially resolved profiling identifies distinct patterns of T cell infiltration in nodal B cell lymphoma entities

Tobias Roider, Marc A Baertsch, Donnacha Fitzgerald, Harald Vöhringer, Berit J Brinkmann, Felix Czernilofsky, Mareike Knoll, Laura Llaó-Cid, Anna Mathioudaki, Bianca Faßbender, Maxime Herbon, Tobias Lautwein, Peter-Martin Bruch, Nora Liebers, Christian M Schürch, Verena Passerini, Marc Seifert, Alexander Brobeil, Gunhild Mechtersheimer, Carsten Müller-Tidow, Oliver Weigert, Martina Seiffert, Garry P Nolan, Wolfgang Huber, Sascha Dietrich. pmc.ncbi.nlm.nih.gov. February 20, 2024.

This lymphoma study maps T-cell composition across 101 lymph-node samples and imaging specimens from 19 patients. Cells, cores and repeated assays remain dependent. External cohorts associate signatures with survival, but thresholds are data-derived and endpoint wording conflicts remain. Spatial proximity and inferred trajectories do not establish mechanism or clinical accuracy. Nolan contributes resources, supervision and funding acquisition; commercial roles and research support do not establish a classified UAP approach.

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PaperS7570

MAPS: pathologist-level cell type annotation from tissue images through machine learning

Muhammad Shaban, Yunhao Bai, Huaying Qiu, Shulin Mao, Jason Yeung, Yao Yu Yeo, Vignesh Shanmugam, Han Chen, Bokai Zhu, Jason L Weirather, Garry P Nolan, Margaret A Shipp, Scott J Rodig, Sizun Jiang, Faisal Mahmood. ebi.ac.uk. January 2, 2024.

MAPS uses expert-labelled protein-expression data to classify cells. The authors report strong results within datasets, while acknowledging leakage risk from splitting one patient’s CODEX image by cells. Performance falls across cohorts and competing methods sometimes do better. Nolan is a coauthor and supervisor; disclosed commercial interests, reporting differences and missing original materials accompany the findings.

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PaperS7679

Integration of spatial and single-cell data across modalities with weakly linked features

Shuxiao Chen, Bokai Zhu, Sijia Huang, John W Hickey, Kevin Z Lin, Michael Snyder, William J Greenleaf, Garry P Nolan, Nancy R Zhang, Zongming Ma. ebi.ac.uk. September 7, 2023.

This Nolan-coauthored study introduces MaxFuse, a computational method for aligning cell measurements across weakly linked data types. Benchmarks report gains on selected datasets; inferred spatial gene activity is distinguished from measurements actually made in each cell. Reused cell batches and tuned comparisons limit broader conclusions. The article explicitly attributes FDA Medical Countermeasures Initiative contracts and NIH support to Nolan, without reporting a secret approach or classified UAP programme.

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PaperS7692

Organization of the human intestine at single-cell resolution

John W. Hickey, Winston R. Becker, Stephanie A. Nevins, Aaron Horning, Almudena Espin Perez, Chenchen Zhu, Bokai Zhu, Bei Wei, Roxanne Chiu, Derek C. Chen, Daniel L. Cotter, Edward D. Esplin, Annika K. Weimer, Chiara Caraccio, Vishal Venkataraaman, Christian M. Schürch, Sarah Black, Maria Brbić, Kaidi Cao, Shuxiao Chen, Weiruo Zhang, Emma Monte, Nancy R. Zhang, Zongming Ma, Jure Leskovec, Zhengyan Zhang, Shin Lin, Teri Longacre, Sylvia K. Plevritis, Yiing Lin, Garry P. Nolan, William J. Greenleaf, Michael Snyder. pmc.ncbi.nlm.nih.gov. July 19, 2023.

This healthy-adult intestine atlas describes regional tissue composition and spatial organization in nine donors. Millions of cells and regional sections remain nested within donors. Predicted signalling and regulatory associations are hypotheses; subset validation overlaps one donor and does not establish a clinical or causal mechanism. Nolan is a corresponding coauthor and supervisor. Published funding and commercial disclosures provide ordinary research context, without establishing a classified approach or UAP programme.

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PaperS7683

Expanded vacuum-stable gels for multiplexed high-resolution spatial histopathology

Yunhao Bai, Bokai Zhu, John-Paul Oliveria, Bryan J. Cannon, Dorien Feyaerts, Marc Bosse, Kausalia Vijayaragavan, Noah F. Greenwald, Darci Phillips, Christian M. Schürch, Samuel M. Naik, Edward A. Ganio, Brice Gaudilliere, Scott J. Rodig, Michael B. Miller, Michael Angelo, Sean C. Bendall, Xavier Rovira-Clavé, Garry P. Nolan, Sizun Jiang. pmc.ncbi.nlm.nih.gov. July 7, 2023.

This proof-of-concept study introduces ExPRESSO for higher-resolution imaging of archived tissue on existing mass-spectrometry platforms. The reported lateral enlargement is about 3.7-fold, with axial compression, edge distortion and marker-specific signal limits. Alzheimer’s examples use six individuals, not hundreds of patients; vessel counts and image fields are nested observations. Nolan’s disclosed FDA funding and instrument-company interests are explicit. The study does not report UAP patients, a secret government approach or a clinical diagnostic trial.

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PaperS7698

Dasatinib overcomes glucocorticoid resistance in B-cell acute lymphoblastic leukemia

Jolanda Sarno, Pablo Domizi, Yuxuan Liu, Milton Merchant, Christina Bligaard Pedersen, Dorra Jedoui, Astraea Jager, Garry P. Nolan, Giuseppe Gaipa, Sean C. Bendall, Felice-Alessio Bava, Kara L. Davis. pmc.ncbi.nlm.nih.gov. May 22, 2023.

This leukemia paper reports laboratory, mouse and limited human-sample findings. The primary-sample combination result at 48 hours does not improve apoptosis beyond steroid alone; longer-culture observations use two selected specimens. Mouse survival findings require qualification for unequal toxicity censoring. It does not establish human combination-treatment efficacy. Nolan is credited with resources and clinical data alongside a coauthor, without a named funding award or government/UAP approach in this article.

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PaperS7693

A tissue atlas of ulcerative colitis revealing evidence of sex-dependent differences in disease-driving inflammatory cell types and resistance to TNF inhibitor therapy

Aaron T Mayer, Derek R Holman, Anav Sood, Utkarsh Tandon, Salil S Bhate, Sunil Bodapati, Graham L Barlow, Jeff Chang, Sarah Black, Erica C Crenshaw, Alexander N Koron, Sarah E Streett, Sanjiv S Gambhir, William J Sandborn, Brigid S Boland, Trevor Hastie, Robert Tibshirani, John T Chang, Garry P Nolan, Christian M Schürch, Stephan Rogalla. pmc.ncbi.nlm.nih.gov. January 20, 2023.

This observational ulcerative-colitis atlas describes tissue organization in29patients and five controls. Cells and regions remain nested within individuals. Cross-sectional treatment and sex associations do not establish a resistance mechanism, and19-patient response prediction was unstable and nonsignificant. Nolan is a coauthor with published funding and commercial interests, not a corresponding author. These ordinary scientific attributions supply no classified approach or UAP programme evidence.

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PaperS7520

Highly multiplexed spatial profiling with CODEX: bioinformatic analysis and application in human disease

Wilson Kuswanto, Garry Nolan, Guolan Lu. ebi.ac.uk. November 21, 2022.

This narrative review explains CODEX tissue imaging, processing limitations and spatial analysis. Its disease examples summarize cited studies; they do not supply a new patient cohort or independent replication. The review calls for stronger causal and prospective validation.

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A curated public selection. Source review describes what was read; it does not establish that a claim is true. Our research approach