Evidence map›Paper›PMID 31878981›Full record

ArticleBreast cancer research : BCR2019

Comprehensive evaluation of methods to assess overall and cell-specific immune infiltrates in breast cancer.

Iris Nederlof, Davide De Bortoli, Yacine Bareche, Bastien Nguyen, Michiel de Maaker, Gerrit K J Hooijer, Laurence Buisseret, Marleen Kok, Marcel Smid, Gert G G M Van den Eynden and 11 more

Open access · goldAbstract read
In one paragraph

Article in Breast cancer research : BCR, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.

0numbers the graph read from it
0cells of the map it votes in
27citing papers in PubMed
2.1field-weighted citation impact, top 11% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

27 citing papers in PubMed, 50 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
  4. Article
  5. Article
  6. Review
  7. Article
  8. Article
  9. Article
  10. Article
  11. Article
  12. Article
  13. Article
  14. Article
  15. Review
  16. Review
  17. Article
  18. Review
  19. Article
  20. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

21 authors at 10 institutions in 5 countries.

Iris NederlofDepartment of Pathology, Amsterdam University Medical Centre, Meibergdreef 9, 1105 AZ, Amsterdam, The Netherlands.
Davide De BortoliUnit of Medical Statistics, Biometry and Bioinformatics "Giulio A. Maccacaro," Department of Clinical Sciences and Community Health and DSRC, University of Milan, Campus Cascina Rosa, Fondazione IRCCS Istituto Nazionale Tumori, Milan, Italy.
Yacine BarecheJ.C. Heuson Breast Cancer Translational Research Laboratory, Université Libre de Bruxelles, Institut Jules Bordet, 1000, Brussels, Belgium.
Bastien NguyenJ.C. Heuson Breast Cancer Translational Research Laboratory, Université Libre de Bruxelles, Institut Jules Bordet, 1000, Brussels, Belgium.
Michiel de MaakerDivision of Molecular Pathology, The Netherlands Cancer Institute, Plesmanlaan 121, 1066 CX, Amsterdam, The Netherlands.
Gerrit K J HooijerDepartment of Pathology, Amsterdam University Medical Centre, Meibergdreef 9, 1105 AZ, Amsterdam, The Netherlands.
Laurence BuisseretJ.C. Heuson Breast Cancer Translational Research Laboratory, Université Libre de Bruxelles, Institut Jules Bordet, 1000, Brussels, Belgium.
Marleen KokDepartments of Medical Oncology and Tumor Biology and Immunology, The Netherlands Cancer Institute, Amsterdam, The Netherlands.
Marcel SmidDepartment of Medical Oncology and Cancer Genomics Centre Netherlands, Erasmus MC Cancer Institute, Erasmus University Medical Center, 3015 CN, Rotterdam, The Netherlands.
Gert G G M Van den EyndenDepartment of Pathology, GZA-ZNA Ziekenhuizen, Wilrijk, Belgium.
Arie B BrinkmanDepartment of Molecular Biology, Nijmegen Centre for Molecular Life Sciences, Faculty of Science, Radboud University, 6500 HB, Nijmegen, The Netherlands.
Jan HudecekDepartment of Research IT, The Netherlands Cancer Institute - Antoni van Leeuwenhoek, Amsterdam, The Netherlands.
Jan KosterDepartment of Oncogenomics, Amsterdam University Medical Centre, Meibergdreef 9, 1105 AZ, Amsterdam, The Netherlands.
Christos SotiriouJ.C. Heuson Breast Cancer Translational Research Laboratory, Université Libre de Bruxelles, Institut Jules Bordet, 1000, Brussels, Belgium.
Denis LarsimontPathology Department, Institut Jules Bordet, 1000, Brussels, Belgium.
John W M MartensDepartment of Medical Oncology and Cancer Genomics Centre Netherlands, Erasmus MC Cancer Institute, Erasmus University Medical Center, 3015 CN, Rotterdam, The Netherlands.
Marc J van de VijverDepartment of Pathology, Amsterdam University Medical Centre, Meibergdreef 9, 1105 AZ, Amsterdam, The Netherlands.
Hugo M HorlingsDivision of Molecular Pathology, The Netherlands Cancer Institute, Plesmanlaan 121, 1066 CX, Amsterdam, The Netherlands.
Roberto SalgadoDepartment of Pathology, GZA-ZNA Ziekenhuizen, Wilrijk, Belgium.
Elia BiganzoliUnit of Medical Statistics, Biometry and Bioinformatics "Giulio A. Maccacaro," Department of Clinical Sciences and Community Health and DSRC, University of Milan, Campus Cascina Rosa, Fondazione IRCCS Istituto Nazionale Tumori, Milan, Italy.
Christine DesmedtDepartment of Oncology, Laboratory for Translational Breast Cancer Research, KU Leuven, Leuven, Belgium. christine.desmedt@kuleuven.be.ORCID 0000-0002-5223-5579
The Netherlands Cancer Institute · NLUniversité Libre de Bruxelles · BEErasmus MC · NLUniversity of Milan · ITBreast Cancer Research Foundation · USGZA Ziekenhuizen Campus Sint-Augustinus · BEInstitut Jules Bordet · BERadboud University Nijmegen · NLThe University of Melbourne · AUUniversity of Amsterdam · NL

Funding

Wellcome Trust
6 · The paper itself

Abstract

backgroundBreast cancer (BC) immune infiltrates play a critical role in tumor progression and response to treatment. Besides stromal tumor infiltrating lymphocytes (sTILs) which have recently reached level 1B evidence as a prognostic marker in triple negative BC, a plethora of methods to assess immune infiltration exists, and it is unclear how these compare to each other and if they can be used interchangeably.

methodsTwo experienced pathologists scored sTIL, intra-tumoral TIL (itTIL), and 6 immune cell types (CD3

resultsThe concordance correlation coefficient (CCC) between pathologists for sTIL was very good (0.84) and for cell-specific immune infiltrates slightly lower (0.63-0.66). Comparison between tissue microarray and whole slide pathology scores revealed systematically higher values in whole slides (ratio 2.60-5.98). The Spearman correlations between microscopic sTIL and transcriptomic- or methylomic-based assessment of immune infiltrates were highly variable (r = 0.01-0.56). Similar observations were made for cell type-specific quantifications (r = 0.001-0.54). We observed a strong inter-method variability between the omics-derived estimations, which is further cell type dependent. Finally, we demonstrated that most methods more accurately identify highly infiltrated (sTIL ≥ 60%; area under the curve, AUC, 0.64-0.99) as compared to lowly infiltrated tumors (sTIL ≤ 10%; AUC 0.52-0.82).

conclusionsThere is a lower inter-pathologist concordance for cell-specific quantification as compared to overall infiltration quantification. Microscopic assessments are underestimated when considering small cores (tissue microarray) instead of whole slides. Results further highlight considerable differences between the microscopic-, transcriptomic-, and methylomic-based methods in the assessment of overall and cell-specific immune infiltration in BC. We therefore call for extreme caution when assessing immune infiltrates using current methods and emphasize the need for standardized immune characterization beyond TIL.

Indexed as

Disease SusceptibilityBiomarkers, TumorBreast NeoplasmsEpigenomeFemaleGene Expression ProfilingGene Expression Regulation, NeoplasticHumansLymphocytesLymphocytes, Tumor-InfiltratingTissue Array AnalysisTranscriptomeTumor MicroenvironmentBiomarkers, TumorBenchmarkingBreast cancerDigital pathologyImmune infiltrateMethodologyMethylomeMicroscopyTranscriptomeTumor infiltrating lymphocytes

Identifiers

PMID31878981
PMCPMC6933637
OpenAlexW2997592474

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.