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Month wise articles
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2022
January
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4
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2021
December
[
4
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November
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1
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September
[
3
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August
[
1
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June
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2
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May
[
2
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April
[
1
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March
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1
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February
[
3
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January
[
3
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2020
December
[
1
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November
[
1
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October
[
2
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September
[
1
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August
[
4
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July
[
1
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April
[
1
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March
[
1
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February
[
4
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2019
December
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2
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September
[
2
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July
[
2
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April
[
1
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February
[
1
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2018
December
[
4
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November
[
1
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October
[
3
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September
[
1
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July
[
1
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May
[
1
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April
[
2
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March
[
1
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February
[
2
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2017
December
[
3
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March
[
3
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2016
January
[
1
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2014
September
[
1
]
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Original Article:
Artificial intelligence in plasma cell myeloma: Neural networks and support vector machines in the classification of plasma cell myeloma data at diagnosis
Ashwini K Yenamandra, Caitlin Hughes, Alexander S Maris
J Pathol Inform
2021, 12:35 (16 September 2021)
DOI
:10.4103/jpi.jpi_26_21
Background:
Plasma cell neoplasm and/or plasma cell myeloma (PCM) is a mature B-cell lymphoproliferative neoplasm of plasma cells that secrete a single homogeneous immunoglobulin called paraprotein or M-protein. Plasma cells accumulate in the bone marrow (BM) leading to bone destruction and BM failure. Diagnosis of PCM is based on clinical, radiologic, and pathological characteristics. The percent of plasma cells by manual differential (bone marrow morphology), the white blood cell (WBC) count, cytogenetics, fluorescence
in situ
hybridization (FISH), microarray, and next-generation sequencing of BM are used in the risk stratification of newly diagnosed PCM patients. The genetics of PCM is highly complex and heterogeneous with several genetic subtypes that have different clinical outcomes. National Comprehensive Cancer Network guidelines recommend targeted FISH analysis of plasma cells with specific DNA probes to detect genetic abnormalities for the staging of PCM (4.2021). Recognition of risk categories through training software for classification of high-risk PCM and a novel way of addressing the current approaches through bioinformatics will be a significant step toward automation of PCM analysis.
Methods:
A new artificial neural network (ANN) classification model was developed and tested in Python programming language with a first data set of 301 cases and a second data set of 176 cases for a total of 477 cases of PCM at diagnosis. Classification model was also developed with support vector machines (SVM) algorithm in R studio and interactive data visuals using Tableau.
Results:
The resulting ANN algorithm had 94% accuracy for the first and second data sets with a classification summary of precision (PPV): 0.97, recall (sensitivity): 0.76, f1 score: 0.83, and accuracy of logistic regression of 1.0. SVM of plasma cells versus TP53 revealed a 95% accuracy level.
Conclusion:
A novel classification model based only on specific morphological and genetic variables was developed using a machine learning algorithm, the ANN. ANN identified an association of WBC and BM plasma cell percentage with two of the high-risk genetic categories in the diagnostic cases of PCM. With further training and testing of additional data sets that include morphologic and additional genetic rearrangements, the newly developed ANN model has the potential to develop an accurate classification of high-risk categories of PCM.
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Original Article:
Validation of a portable whole-slide imaging system for frozen section diagnosis
Rajiv Kumar Kaushal, Sathyanarayanan Rajaganesan, Vidya Rao, Akash Sali, Balaji More, Sangeeta B Desai
J Pathol Inform
2021, 12:33 (16 September 2021)
DOI
:10.4103/jpi.jpi_95_20
Background:
Frozen section (FS) diagnosis is one of the promising applications of digital pathology (DP). However, the implementation of an appropriate and economically viable DP solution for FS in routine practice is challenging. The objective of this study was to establish the non-inferiority of whole-slide imaging (WSI) versus optical microscopy (OM) for FS diagnosis using a low cost and portable DP system.
Materials
and Methods:
A validation study to investigate the technical performance and diagnostic accuracy of WSI versus OM for FS diagnosis was performed using 60 FS cases[120 slides i.e, 60 hematoxylin and eosin (H & E) and 60 toluidine blue (TOLB)]. The diagnostic concordance, inter- and intra-observer agreement for FS diagnosis by WSI versus OM were recorded.
Results:
The first time successful scanning rate was 89.1% (107/120). Mean scanning time per slide for H and E and TOLB slide was 1:47 min (range; 0:22–3: 21 min) and 1:46 min (range; 0:21–3: 20 min), respectively. Mean storage space per slide for H and E and TOLB slide was 0.83 GB (range: 0.12–1.73 GB) and 0.71 GB (range: 0.11–1.66 GB), respectively. Considering major discrepancies, the overall diagnostic concordance for OM and WSI, when compared with the reference standard, was 95.42% and 95.83%, respectively. There was almost perfect intra as well as inter-observer agreement (
k
≥ 0.8) among 4 pathologists between WSI and OM for FS diagnosis. Mean turnaround time (TAT) of 14:58 min was observed using WSI for FS diagnosis, which was within the College of American Pathologists recommended range for FS reporting. The image quality was average to best quality in most of the cases.
Conclusion:
WSI was noninferior to OM for FS diagnosis across various specimen types. This portable WSI system can be safely adopted for routine FS diagnosis and provides an economically viable alternative to high-end scanners.
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Original Article:
Flextilesource: An openseadragon extension for efficient whole-slide image visualization
Peter J Schüffler, Gamze Gokturk Ozcan, Hikmat Al-Ahmadie, Thomas J Fuchs
J Pathol Inform
2021, 12:31 (14 September 2021)
DOI
:10.4103/jpi.jpi_13_21
Background:
Web-based digital slide viewers for pathology commonly use OpenSlide and OpenSeadragon (OSD) to access, visualize, and navigate whole-slide images (WSI). Their standard settings represent WSI as deep zoom images (DZI), a generic image pyramid structure that differs from the proprietary pyramid structure in the WSI files. The transformation from WSI to DZI is an additional, time-consuming step when rendering digital slides in the viewer, and inefficiency of digital slide viewers is a major criticism for digital pathology.
Aims
: To increase efficiency of digital slide visualization by serving tiles directly from the native WSI pyramid, making the transformation from WSI to DZI obsolete.
Methods:
We implemented a new flexible tile source for OSD that accepts arbitrary native pyramid structures instead of DZI levels. We measured its performance on a data set of 8104 WSI reviewed by 207 pathologists over 40 days in a web-based digital slide viewer used for routine diagnostics.
Results:
The new
FlexTileSource
accelerates the display of a field of view in general by 67 ms and even by 117 ms if the block size of the WSI and the tile size of the viewer is increased to 1024 px. We provide the code of our open-source library freely on https://github.com/schuefflerlab/openseadragon.
Conclusions:
This is the first study to quantify visualization performance on a web-based slide viewer at scale, taking block size and tile size of digital slides into account. Quantifying performance will enable to compare and improve web-based viewers and therewith facilitate the adoption of digital pathology.
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© Journal of Pathology Informatics | Published by Wolters Kluwer -
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th
March, 2010