{"apiVersion":"1","version":"sha256:faade27e0b75b2aca6311142ff65347b4dacc153e8d28cbdf0e8a237319331f9","data":{"id":"S7697","title":"Reprogramming of stroma-derived chemokine networks drives the loss of tissue organization in nodal B cell lymphoma","authors":["Felix Czernilofsky","Anna Mathioudaki","Lea Jopp-Saile","Raphael Lutz","Dominik Vonficht","Xi Wang","Christina Schniederjohann","Harald Voehringer","Tobias Roider","Marc-Andrea Baertsch","Claus Rodemer","Henry Löffler-Wirth","Michael Grau","Donnacha Fitzgerald","Johannes Mammen","Jan Kosla","Nora Liebers","Peter-Martin Bruch","Diana Ordoñez-Rueda","Alexander Brobeil","Gunhild Mechtersheimer","Caroline Pabst","Carsten Müller-Tidow","Andreas Trumpp","Marc Seifert","Frank Neumann","Mathias Heikenwälder","Vladimir Benes","Wolfgang Huber","Jörg Distler","Georg Lenz","Hans Binder","Reiner Siebert","Garry P. Nolan","Moritz Gerstung","Judith B. Zaugg","Daniel Hübschmann","Simon Haas","Sascha Dietrich"],"publishedDate":"2026-03-25","format":"Paper","url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC13035477/","summary":"This lymphoma study combines new tissue profiling, reused datasets, limited cell cultures and retrospective survival associations to propose a model of altered tissue organization. Its assays overlap an earlier Nolan-linked atlas, and cells or repeated measurements are not independent patients. Data-derived survival thresholds and unresolved denominator/method wording qualify clinical interpretation. Nolan provided access to existing imaging and immune datasets; this article does not assign him a funding award or report a classified UAP approach.","subjects":["Imaging","Research methods"],"people":["Garry Nolan"],"review":{"label":"Complete specialist supplied XML text; native apparatus unreviewed","scope":"Specialist read all 112,482 supplied XML characters in 13 contiguous untruncated returns, including five main and ten extended figure captions and 60 reference entries. Root reviewed the complete final analytical packet. Native graphics/layout, reporting summary, supplements, source-data files, raw datasets, code, referee reports, patent and cited-original bodies unreviewed here; no individual patient records collected.","gaps":["Nineteen enriched-profile patients: five reactive nodes, six FL and eight DLBCL. Sorting enriches rare stromal populations, and remodeled clusters are defined by over90% DLBCL contribution. Reactive nodes are not an unselected healthy population; cell fractions are selection-dependent.","Imaging13 tissues/3,681,735 cells partially overlaps new single-cell samples; Xenium has one FL and one DLBCL core. Reused CITE31 and TCR11 samples come from the earlier Roider2024 atlas S7694. Cells, neighbouring regions and assays are nested, not additive independent cohorts.","Architecture bulk dataset totals633 patients/controls; plasma assays use40patients with technical duplicates. Migration assays use three patients per condition with triplicates. Exact overlaps are unestablished, so no global unique-patient total is assigned.","Cultures use one donor-derived stromal line and small primary-lymphocyte groups. These support the model in limited culture conditions, without establishing human longitudinal transformation, every mediator, in-vivo rescue or a clinical survival benefit.","Authors report five previously published survival cohorts totaling1,726DLBCL patients with retrospective associations and adjustment. Optimized within-dataset cutpoints are not a transported locked threshold or prospective clinical trial. Source overlap, exact graphical effect sizes/confidence intervals and every null remain unverified.","B-cell CXCR5 expression and migration capacity remain preserved, and FL largely retains organization. Selected significant chemokine changes do not establish a universal effect. Spatial proximity and inferred attraction are not directly measured signalling or causal force.","Reported63438 versus290193 cell-pair denominators and57 versus63 ligand/receptor pairs have unreconciled filtering populations. Figure5 high/low groups total618versus619; other survival subsets differ from source-cohort totals. Missingness and exact joins remain unestablished.","Methods Bonferroni versus caption BH/FDR wording, gene thresholds and GO supplementary-table references differ. Preprint/published references partly overlap. No predetermined sample size, randomization or blinding; no-exclusion wording coexists with quality filtering.","Nolan is author34of39, contributing access to existing imaging/CITE/TCR data and manuscript review, without being a named new clinical-sample provider, corresponding author, supervisor or analysis lead. This article assigns no explicit funding recipient to him.","Exact European/ERC, DFG/BMBF and other support recipients are preserved privately. ERC grants101044873/101078713 collectively name Zaugg/Haas without one-to-one mapping; Haas metadata CRC1709 differs from acknowledgement TRR1709. Original awards unreviewed; no classified/UAP inference.","Nolan declares Akoya cofounder/stockholder and patentUS9909167 inventorship. Patent body/current interests unreviewed; declarations do not prove bias or a government approach.","Fifteen native graphics/layouts, Reporting Summary, Supplementary Tables1–9,15 source-data files, controlled EGA/raw datasets, Zenodo10.5281/zenodo.18474620, LNarch code and referee bodies were not acquired. Sixty references are bibliography, not original-body reading. Full illustrated article/Nolan/project corpus incomplete."]},"familyId":"NOLAN-STROMA-NETWORK-2026-01136-Z","citationUrl":"https://bioparity.io/sources/S7697","citation":"Felix Czernilofsky, Anna Mathioudaki, Lea Jopp-Saile, Raphael Lutz, Dominik Vonficht, Xi Wang, Christina Schniederjohann, Harald Voehringer, Tobias Roider, Marc-Andrea Baertsch, Claus Rodemer, Henry Löffler-Wirth, Michael Grau, Donnacha Fitzgerald, Johannes Mammen, Jan Kosla, Nora Liebers, Peter-Martin Bruch, Diana Ordoñez-Rueda, Alexander Brobeil, Gunhild Mechtersheimer, Caroline Pabst, Carsten Müller-Tidow, Andreas Trumpp, Marc Seifert, Frank Neumann, Mathias Heikenwälder, Vladimir Benes, Wolfgang Huber, Jörg Distler, Georg Lenz, Hans Binder, Reiner Siebert, Garry P. Nolan, Moritz Gerstung, Judith B. Zaugg, Daniel Hübschmann, Simon Haas, Sascha Dietrich. Reprogramming of stroma-derived chemokine networks drives the loss of tissue organization in nodal B cell lymphoma. March 25, 2026. BioParity S7697. https://bioparity.io/sources/S7697"}}