Nuclei Detection and Segmentation of Histopathological Images Using a Feature Pyramidal Network Variant of a Mask R-CNN
Cell nuclei interpretation is crucial in pathological diagnostics, especially in tumor specimens. A critical step in computational pathology is to detect and analyze individual nuclear properties using segmentation algorithms. Conventionally, a semantic segmentation network is used, where individual...
Saved in:
| Main Authors: | , , , , , , , , , , |
|---|---|
| Format: | Article (Journal) |
| Language: | English |
| Published: |
1 October 2024
|
| In: |
Bioengineering
Year: 2024, Volume: 11, Issue: 10, Pages: 1-13 |
| ISSN: | 2306-5354 |
| DOI: | 10.3390/bioengineering11100994 |
| Online Access: | Verlag, kostenfrei, Volltext: https://doi.org/10.3390/bioengineering11100994 Verlag, kostenfrei, Volltext: https://www.mdpi.com/2306-5354/11/10/994 
|
| Author Notes: | Vignesh Ramakrishnan, Annalena Artinger, Laura Alexandra Daza Barragan, Jimmy Daza, Lina Winter, Tanja Niedermair, Timo Itzel, Pablo Arbelaez, Andreas Teufel, Cristina L. Cotarelo and Christoph Brochhausen |
MARC
| LEADER | 00000caa a2200000 c 4500 | ||
|---|---|---|---|
| 001 | 1921160535 | ||
| 003 | DE-627 | ||
| 005 | 20250717004304.0 | ||
| 007 | cr uuu---uuuuu | ||
| 008 | 250402s2024 xx |||||o 00| ||eng c | ||
| 024 | 7 | |a 10.3390/bioengineering11100994 |2 doi | |
| 035 | |a (DE-627)1921160535 | ||
| 035 | |a (DE-599)KXP1921160535 | ||
| 035 | |a (OCoLC)1528044067 | ||
| 040 | |a DE-627 |b ger |c DE-627 |e rda | ||
| 041 | |a eng | ||
| 084 | |a 33 |2 sdnb | ||
| 100 | 1 | |a Ramakrishnan, Vignesh |e VerfasserIn |0 (DE-588)1324477741 |0 (DE-627)1884336302 |4 aut | |
| 245 | 1 | 0 | |a Nuclei Detection and Segmentation of Histopathological Images Using a Feature Pyramidal Network Variant of a Mask R-CNN |c Vignesh Ramakrishnan, Annalena Artinger, Laura Alexandra Daza Barragan, Jimmy Daza, Lina Winter, Tanja Niedermair, Timo Itzel, Pablo Arbelaez, Andreas Teufel, Cristina L. Cotarelo and Christoph Brochhausen |
| 264 | 1 | |c 1 October 2024 | |
| 300 | |b Illustrationen | ||
| 300 | |a 13 | ||
| 336 | |a Text |b txt |2 rdacontent | ||
| 337 | |a Computermedien |b c |2 rdamedia | ||
| 338 | |a Online-Ressource |b cr |2 rdacarrier | ||
| 500 | |a Gesehen am 02.04.2025 | ||
| 520 | |a Cell nuclei interpretation is crucial in pathological diagnostics, especially in tumor specimens. A critical step in computational pathology is to detect and analyze individual nuclear properties using segmentation algorithms. Conventionally, a semantic segmentation network is used, where individual nuclear properties are derived after post-processing a segmentation mask. In this study, we focus on showing that an object-detection-based instance segmentation network, the Mask R-CNN, after integrating it with a Feature Pyramidal Network (FPN), gives mature and reliable results for nuclei detection without the need for additional post-processing. The results were analyzed using the Kumar dataset, a public dataset with over 20,000 nuclei annotations from various organs. The dice score of the baseline Mask R-CNN improved from 76% to 83% after integration with an FPN. This was comparable with the 82.6% dice score achieved by modern semantic-segmentation-based networks. Thus, evidence is provided that an end-to-end trainable detection-based instance segmentation algorithm with minimal post-processing steps can reliably be used for the detection and analysis of individual nuclear properties. This represents a relevant task for research and diagnosis in digital pathology, which can improve the automated analysis of histopathological images. | ||
| 650 | 4 | |a artificial intelligence | |
| 650 | 4 | |a digital pathology | |
| 650 | 4 | |a histopathology | |
| 650 | 4 | |a Mask R-CNN | |
| 650 | 4 | |a nuclei detection | |
| 700 | 1 | |a Artinger, Annalena |d 1997- |e VerfasserIn |0 (DE-588)1324478225 |0 (DE-627)1884337384 |4 aut | |
| 700 | 1 | |a Daza Barragan, Laura Alexandra |e VerfasserIn |4 aut | |
| 700 | 1 | |a Daza Barragán, Jimmy Andres |d 1990- |e VerfasserIn |0 (DE-588)1237697921 |0 (DE-627)176462193X |4 aut | |
| 700 | 1 | |a Winter, Lina |e VerfasserIn |0 (DE-588)1324478454 |0 (DE-627)1884337805 |4 aut | |
| 700 | 1 | |a Niedermair, Tanja |e VerfasserIn |4 aut | |
| 700 | 1 | |a Itzel, Timo |d 1979- |e VerfasserIn |0 (DE-588)1196136319 |0 (DE-627)1677983841 |4 aut | |
| 700 | 1 | |a Arbelaez, Pablo |e VerfasserIn |4 aut | |
| 700 | 1 | |a Teufel, Andreas |d 1971- |e VerfasserIn |0 (DE-588)121120031 |0 (DE-627)081100035 |0 (DE-576)292546750 |4 aut | |
| 700 | 1 | |a López-Cotarelo Rodríguez-Noriega, Cristina |d 1970- |e VerfasserIn |0 (DE-588)121996662 |0 (DE-627)705730646 |0 (DE-576)29303799X |4 aut | |
| 700 | 1 | |a Brochhausen, Christoph |d 1969- |e VerfasserIn |0 (DE-588)123220963 |0 (DE-627)082421226 |0 (DE-576)293610843 |4 aut | |
| 773 | 0 | 8 | |i Enthalten in |t Bioengineering |d Basel : MDPI, 2014 |g 11(2024), 10, Artikel-ID 994, Seite 1-13 |h Online-Ressource |w (DE-627)774814020 |w (DE-600)2746191-9 |w (DE-576)399193375 |x 2306-5354 |7 nnas |a Nuclei Detection and Segmentation of Histopathological Images Using a Feature Pyramidal Network Variant of a Mask R-CNN |
| 773 | 1 | 8 | |g volume:11 |g year:2024 |g number:10 |g elocationid:994 |g pages:1-13 |g extent:13 |a Nuclei Detection and Segmentation of Histopathological Images Using a Feature Pyramidal Network Variant of a Mask R-CNN |
| 856 | 4 | 0 | |u https://doi.org/10.3390/bioengineering11100994 |x Verlag |x Resolving-System |z kostenfrei |3 Volltext |
| 856 | 4 | 0 | |u https://www.mdpi.com/2306-5354/11/10/994 |x Verlag |z kostenfrei |3 Volltext |
| 951 | |a AR | ||
| 992 | |a 20250402 | ||
| 993 | |a Article | ||
| 994 | |a 2024 | ||
| 998 | |g 123220963 |a Brochhausen, Christoph |m 123220963:Brochhausen, Christoph |d 60000 |d 63400 |e 60000PB123220963 |e 63400PB123220963 |k 0/60000/ |k 1/60000/63400/ |p 11 |y j | ||
| 998 | |g 121996662 |a López-Cotarelo Rodríguez-Noriega, Cristina |m 121996662:López-Cotarelo Rodríguez-Noriega, Cristina |d 60000 |e 60000PL121996662 |k 0/60000/ |p 10 | ||
| 998 | |g 121120031 |a Teufel, Andreas |m 121120031:Teufel, Andreas |d 60000 |d 61100 |e 60000PT121120031 |e 61100PT121120031 |k 0/60000/ |k 1/60000/61100/ |p 9 | ||
| 998 | |g 1196136319 |a Itzel, Timo |m 1196136319:Itzel, Timo |d 60000 |d 61100 |e 60000PI1196136319 |e 61100PI1196136319 |k 0/60000/ |k 1/60000/61100/ |p 7 | ||
| 998 | |g 1324478454 |a Winter, Lina |m 1324478454:Winter, Lina |d 60000 |d 63400 |e 60000PW1324478454 |e 63400PW1324478454 |k 0/60000/ |k 1/60000/63400/ |p 5 | ||
| 998 | |g 1237697921 |a Daza Barragán, Jimmy Andres |m 1237697921:Daza Barragán, Jimmy Andres |d 60000 |d 61100 |e 60000PD1237697921 |e 61100PD1237697921 |k 0/60000/ |k 1/60000/61100/ |p 4 | ||
| 999 | |a KXP-PPN1921160535 |e 469648856X | ||
| BIB | |a Y | ||
| SER | |a journal | ||
| JSO | |a {"title":[{"title":"Nuclei Detection and Segmentation of Histopathological Images Using a Feature Pyramidal Network Variant of a Mask R-CNN","title_sort":"Nuclei Detection and Segmentation of Histopathological Images Using a Feature Pyramidal Network Variant of a Mask R-CNN"}],"type":{"bibl":"article-journal","media":"Online-Ressource"},"person":[{"role":"aut","family":"Ramakrishnan","roleDisplay":"VerfasserIn","display":"Ramakrishnan, Vignesh","given":"Vignesh"},{"role":"aut","family":"Artinger","roleDisplay":"VerfasserIn","given":"Annalena","display":"Artinger, Annalena"},{"role":"aut","display":"Daza Barragan, Laura Alexandra","roleDisplay":"VerfasserIn","given":"Laura Alexandra","family":"Daza Barragan"},{"role":"aut","family":"Daza Barragán","given":"Jimmy Andres","roleDisplay":"VerfasserIn","display":"Daza Barragán, Jimmy Andres"},{"family":"Winter","roleDisplay":"VerfasserIn","given":"Lina","display":"Winter, Lina","role":"aut"},{"roleDisplay":"VerfasserIn","display":"Niedermair, Tanja","given":"Tanja","family":"Niedermair","role":"aut"},{"role":"aut","family":"Itzel","display":"Itzel, Timo","roleDisplay":"VerfasserIn","given":"Timo"},{"role":"aut","family":"Arbelaez","roleDisplay":"VerfasserIn","display":"Arbelaez, Pablo","given":"Pablo"},{"role":"aut","roleDisplay":"VerfasserIn","given":"Andreas","display":"Teufel, Andreas","family":"Teufel"},{"roleDisplay":"VerfasserIn","given":"Cristina","display":"López-Cotarelo Rodríguez-Noriega, Cristina","family":"López-Cotarelo Rodríguez-Noriega","role":"aut"},{"role":"aut","roleDisplay":"VerfasserIn","given":"Christoph","display":"Brochhausen, Christoph","family":"Brochhausen"}],"name":{"displayForm":["Vignesh Ramakrishnan, Annalena Artinger, Laura Alexandra Daza Barragan, Jimmy Daza, Lina Winter, Tanja Niedermair, Timo Itzel, Pablo Arbelaez, Andreas Teufel, Cristina L. Cotarelo and Christoph Brochhausen"]},"id":{"doi":["10.3390/bioengineering11100994"],"eki":["1921160535"]},"recId":"1921160535","language":["eng"],"physDesc":[{"noteIll":"Illustrationen","extent":"13 S."}],"relHost":[{"id":{"issn":["2306-5354"],"eki":["774814020"],"zdb":["2746191-9"]},"recId":"774814020","origin":[{"dateIssuedKey":"2014","dateIssuedDisp":"2014-","publisher":"MDPI","publisherPlace":"Basel"}],"pubHistory":["1.2014 -"],"type":{"bibl":"periodical","media":"Online-Ressource"},"note":["Gesehen am 20.05.2020"],"physDesc":[{"extent":"Online-Ressource"}],"part":{"extent":"13","text":"11(2024), 10, Artikel-ID 994, Seite 1-13","volume":"11","issue":"10","pages":"1-13","year":"2024"},"disp":"Nuclei Detection and Segmentation of Histopathological Images Using a Feature Pyramidal Network Variant of a Mask R-CNNBioengineering","language":["eng"],"title":[{"title_sort":"Bioengineering","title":"Bioengineering","subtitle":"open access journal"}]}],"note":["Gesehen am 02.04.2025"],"origin":[{"dateIssuedDisp":"1 October 2024","dateIssuedKey":"2024"}]} | ||
| SRT | |a RAMAKRISHNNUCLEIDETE1202 | ||