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http://hdl.handle.net/1942/41477
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DC Field | Value | Language |
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dc.contributor.author | AGTEN, Annelies | - |
dc.contributor.author | Blazquez-Moreno, Alfonso | - |
dc.contributor.author | Crabbe, Marjolein | - |
dc.contributor.author | Tuefferd, Marianne | - |
dc.contributor.author | Goehlmann, Hinrich | - |
dc.contributor.author | GEYS, Helena | - |
dc.contributor.author | Peng, Cheng-Yuan | - |
dc.contributor.author | CLAES, Jari | - |
dc.contributor.author | NEYENS, Thomas | - |
dc.contributor.author | FAES, Christel | - |
dc.date.accessioned | 2023-10-09T07:46:05Z | - |
dc.date.available | 2023-10-09T07:46:05Z | - |
dc.date.issued | 2023 | - |
dc.date.submitted | 2023-10-09T07:10:36Z | - |
dc.identifier.citation | COMPUTERS IN BIOLOGY AND MEDICINE, 165 (Art N° 107382) | - |
dc.identifier.uri | http://hdl.handle.net/1942/41477 | - |
dc.description.abstract | The organization and interaction between hepatocytes and other hepatic non-parenchymal cells plays a pivotal role in maintaining normal liver function and structure. Although spatial heterogeneity within the tumor micro environment has been proven to be a fundamental feature in cancer progression, the role of liver tissue topology and micro-environmental factors in the context of liver damage in chronic infection has not been widely studied yet. We obtained images from 110 core needle biopsies from a cohort of chronic hepatitis B patients with different fibrosis stages according to METAVIR score. The tissue sections were immunofluorescently stained and imaged to determine the locations of CD45 positive immune cells and HBsAg-negative and HBsAg-positive hepatocytes within the tissue. We applied several descriptive techniques adopted from ecology, including Getis- Ord, the Shannon Index and the Morisita-Horn Index, to quantify the extent to which immune cells and different types of liver cells co-localize in the tissue biopsies. Additionally, we modeled the spatial distribution of the different cell types using a joint log-Gaussian Cox process and proposed several features to quantify spatial heterogeneity. We then related these measures to the patient fibrosis stage by using a linear discriminant analysis approach. Our analysis revealed that the co-localization of HBsAg-negative hepatocytes with immune cells and the co-localization of HBsAg-positive hepatocytes with immune cells are equally important factors for explaining the METAVIR score in chronic hepatitis B patients. Moreover, we found that if we allow for an error of 1 on the METAVIR score, we are able to reach an accuracy of around 80%. With this study we demonstrate how methods adopted from ecology and applied to the liver tissue micro-environment can be used to quantify heterogeneity and how these approaches can be valuable in biomarker analyses for liver topology. | - |
dc.description.sponsorship | Thomas Neyens gratefully acknowledges funding by the Internal Funds KU Leuven (project number 3M190682) and by the Research Foundation - Flanders (grant number G0A4121N). Christel Faes and Jari Claes gratefully acknowledge funding by the Bijzonder Onderzoeksfonds UHasselt (project ‘‘Future proof pathology for predictive medicine and disease prognosis based on tumor heterogeneity’’). | - |
dc.language.iso | en | - |
dc.publisher | PERGAMON-ELSEVIER SCIENCE LTD | - |
dc.rights | 2023 Elsevier Ltd. All rights reserved | - |
dc.subject.other | Liver fibrosis | - |
dc.subject.other | Tissue micro-environment | - |
dc.subject.other | Spatial heterogeneity | - |
dc.subject.other | Immunofluorescence | - |
dc.subject.other | Classification | - |
dc.subject.other | Biomarker analysis | - |
dc.subject.other | Getis-ord | - |
dc.subject.other | Log-Gaussian cox | - |
dc.subject.other | Point process | - |
dc.subject.other | Morisita-Horn | - |
dc.subject.other | Shannon diversity index | - |
dc.subject.other | Single cell data | - |
dc.subject.other | Chronic hepatitis B | - |
dc.subject.other | Cell type co-localization | - |
dc.subject.other | Immunology | - |
dc.subject.other | Hepatocyte immune cell interaction | - |
dc.subject.other | Immune hotspot | - |
dc.title | Measures of spatial heterogeneity in the liver tissue micro-environment as predictive factors for fibrosis score | - |
dc.type | Journal Contribution | - |
dc.identifier.volume | 165 | - |
local.format.pages | 12 | - |
local.bibliographicCitation.jcat | A1 | - |
dc.description.notes | Agten, A (corresponding author), UHasselt Hasselt Univ, Data Sci Inst, Agoralaan 1, BE-3590 Diepenbeek, Belgium. | - |
dc.description.notes | annelies.agten@uhasselt.be | - |
local.publisher.place | THE BOULEVARD, LANGFORD LANE, KIDLINGTON, OXFORD OX5 1GB, ENGLAND | - |
local.type.refereed | Refereed | - |
local.type.specified | Article | - |
local.bibliographicCitation.artnr | 107382 | - |
dc.identifier.doi | 10.1016/j.compbiomed.2023.107382 | - |
dc.identifier.pmid | 37634463 | - |
dc.identifier.isi | 001072010900001 | - |
dc.contributor.orcid | Neyens, Thomas/0000-0003-2364-7555; AGTEN, Annelies/0000-0002-0180-0777; | - |
dc.contributor.orcid | Gohlmann, Hinrich/0000-0002-6582-5455; Peng, | - |
dc.contributor.orcid | Cheng-Yuan/0000-0001-9030-6086 | - |
local.provider.type | wosris | - |
local.description.affiliation | [Agten, Annelies; Claes, Jari; Neyens, Thomas; Faes, Christel] UHasselt Hasselt Univ, Data Sci Inst, Agoralaan 1, BE-3590 Diepenbeek, Belgium. | - |
local.description.affiliation | [Blazquez-Moreno, Alfonso; Crabbe, Marjolein; Geys, Helena] Janssen Pharmaceut, Pharmaceut Res & Dev, Global Analyt Dev, Turnhoutseweg 30, B-2340 Beerse, Belgium. | - |
local.description.affiliation | [Tuefferd, Marianne; Goehlmann, Hinrich] Janssen Res & Dev, Infect Dis BVBA, Turnhoutseweg 30, B-2340 Beerse, Belgium. | - |
local.description.affiliation | [Peng, Cheng-Yuan] China Med Univ Hosp, Taichung, Taiwan. | - |
local.description.affiliation | [Neyens, Thomas] Univ Leuven, I BioStat, KU Leuven, Kapucijnenvoer 35 Blok D, B-3000 Leuven, Belgium. | - |
local.uhasselt.international | no | - |
item.fulltext | With Fulltext | - |
item.contributor | AGTEN, Annelies | - |
item.contributor | Blazquez-Moreno, Alfonso | - |
item.contributor | Crabbe, Marjolein | - |
item.contributor | Tuefferd, Marianne | - |
item.contributor | Goehlmann, Hinrich | - |
item.contributor | GEYS, Helena | - |
item.contributor | Peng, Cheng-Yuan | - |
item.contributor | CLAES, Jari | - |
item.contributor | NEYENS, Thomas | - |
item.contributor | FAES, Christel | - |
item.fullcitation | AGTEN, Annelies; Blazquez-Moreno, Alfonso; Crabbe, Marjolein; Tuefferd, Marianne; Goehlmann, Hinrich; GEYS, Helena; Peng, Cheng-Yuan; CLAES, Jari; NEYENS, Thomas & FAES, Christel (2023) Measures of spatial heterogeneity in the liver tissue micro-environment as predictive factors for fibrosis score. In: COMPUTERS IN BIOLOGY AND MEDICINE, 165 (Art N° 107382). | - |
item.embargoEndDate | 2024-10-31 | - |
item.accessRights | Embargoed Access | - |
crisitem.journal.issn | 0010-4825 | - |
crisitem.journal.eissn | 1879-0534 | - |
Appears in Collections: | Research publications |
Files in This Item:
File | Description | Size | Format | |
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Measures of spatial heterogeneity in the liver tissue micro-environment as predictive factors for fibrosis score.pdf Restricted Access | Published version | 3.19 MB | Adobe PDF | View/Open Request a copy |
Liver Topology manuscript REVISION.pdf Until 2024-10-31 | Peer-reviewed author version | 2.65 MB | Adobe PDF | View/Open Request a copy |
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