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Showing 1 to 12 of 13 entries
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Prostate cancer risk stratification via non-destructive 3D pathology with deep learning-assisted gland analysis.

Cancer research

Xie W, Reder NP, Koyuncu CF, Leo P, Hawley S, Huang H, Mao C, Postupna N, Kang S, Serafin R, Gao G, Han Q, Bishop KW, Barner LA, Fu P, Wright JL, Keene CD, Vaughan JC, Janowczyk A, Glaser AK, Madabhushi A, True LD, Liu JT.
PMID: 34853071
Cancer Res. 2021 Dec 01; doi: 10.1158/0008-5472.CAN-21-2843. Epub 2021 Dec 01.

Prostate cancer treatment planning is largely dependent upon examination of core-needle biopsies. The microscopic architecture of the prostate glands forms the basis for prognostic grading by pathologists. Interpretation of these convoluted 3D glandular structures via visual inspection of a...

Prostate cancer risk stratification via non-destructive 3D pathology with deep learning-assisted gland analysis.

Cancer research

Xie W, Reder NP, Koyuncu CF, Leo P, Hawley S, Huang H, Mao C, Postupna N, Kang S, Serafin R, Gao G, Han Q, Bishop KW, Barner LA, Fu P, Wright JL, Keene CD, Vaughan JC, Janowczyk A, Glaser AK, Madabhushi A, True LD, Liu JT.
PMID: 34853071
Cancer Res. 2021 Dec 01; doi: 10.1158/0008-5472.CAN-21-2843. Epub 2021 Dec 01.

Prostate cancer treatment planning is largely dependent upon examination of core-needle biopsies. The microscopic architecture of the prostate glands forms the basis for prognostic grading by pathologists. Interpretation of these convoluted 3D glandular structures via visual inspection of a...

Laminin-5 and type I collagen promote adhesion and osteogenic differentiation of animal serum-free expanded human mesenchymal stromal cells.

Orthopedic reviews

Mittag F, Falkenberg EM, Janczyk A, Götze M, Felka T, Aicher WK, Kluba T.
PMID: 23589764
Orthop Rev (Pavia). 2012 Dec 11;4(4):e36. doi: 10.4081/or.2012.e36. Print 2012 Nov 02.

Mesenchymal stromal cells (MSC) are differentiation competent cells and may generate, among others, mature osteoblasts or chondrocytes in vitro and in vivo. Laminin-5 and type I collagen are important components of the extracellular matrix. They are involved in a...

Update on the current opinion, status and future development of digital pathology in Switzerland in light of COVID-19.

Journal of clinical pathology

Koelzer VH, Grobholz R, Zlobec I, Janowczyk A.
PMID: 34518361
J Clin Pathol. 2021 Sep 13; doi: 10.1136/jclinpath-2021-207768. Epub 2021 Sep 13.

AIMS: The transition from analogue to digital pathology (DP) in Switzerland has coincided with the COVID-19 crisis. The Swiss Digital Pathology Consortium conducted a national survey to assess the experience of pathologists in dealing with the challenges of the...

Deep learning for digital pathology image analysis: A comprehensive tutorial with selected use cases.

Journal of pathology informatics

Janowczyk A, Madabhushi A.
PMID: 27563488
J Pathol Inform. 2016 Jul 26;7:29. doi: 10.4103/2153-3539.186902. eCollection 2016.

BACKGROUND: Deep learning (DL) is a representation learning approach ideally suited for image analysis challenges in digital pathology (DP). The variety of image analysis tasks in the context of DP includes detection and counting (e.g., mitotic events), segmentation (e.g.,...

Quick Annotator: an open-source digital pathology based rapid image annotation tool.

The journal of pathology. Clinical research

Miao R, Toth R, Zhou Y, Madabhushi A, Janowczyk A.
PMID: 34288586
J Pathol Clin Res. 2021 Nov;7(6):542-547. doi: 10.1002/cjp2.229. Epub 2021 Jul 19.

Image-based biomarker discovery typically requires accurate segmentation of histologic structures (e.g. cell nuclei, tubules, and epithelial regions) in digital pathology whole slide images (WSIs). Unfortunately, annotating each structure of interest is laborious and often intractable even in moderately sized...

Computationally Derived Cribriform Area Index from Prostate Cancer Hematoxylin and Eosin Images Is Associated with Biochemical Recurrence Following Radical Prostatectomy and Is Most Prognostic in Gleason Grade Group 2.

European urology focus

Leo P, Chandramouli S, Farré X, Elliott R, Janowczyk A, Bera K, Fu P, Janaki N, El-Fahmawi A, Shahait M, Kim J, Lee D, Yamoah K, Rebbeck TR, Khani F, Robinson BD, Shih NNC, Feldman M, Gupta S, McKenney J, Lal P, Madabhushi A.
PMID: 33941504
Eur Urol Focus. 2021 Jul;7(4):722-732. doi: 10.1016/j.euf.2021.04.016. Epub 2021 Apr 30.

BACKGROUND: The presence of invasive cribriform adenocarcinoma (ICC), an expanse of cells containing punched-out lumina uninterrupted by stroma, in radical prostatectomy (RP) specimens has been associated with biochemical recurrence (BCR). However, ICC identification has only moderate inter-reviewer agreement.OBJECTIVE: To...

Computer extracted gland features from H&E predicts prostate cancer recurrence comparably to a genomic companion diagnostic test: a large multi-site study.

NPJ precision oncology

Leo P, Janowczyk A, Elliott R, Janaki N, Bera K, Shiradkar R, Farré X, Fu P, El-Fahmawi A, Shahait M, Kim J, Lee D, Yamoah K, Rebbeck TR, Khani F, Robinson BD, Eklund L, Jambor I, Merisaari H, Ettala O, Taimen P, Aronen HJ, Boström PJ, Tewari A, Magi-Galluzzi C, Klein E, Purysko A, Nc Shih N, Feldman M, Gupta S, Lal P, Madabhushi A.
PMID: 33941830
NPJ Precis Oncol. 2021 May 03;5(1):35. doi: 10.1038/s41698-021-00174-3.

Existing tools for post-radical prostatectomy (RP) prostate cancer biochemical recurrence (BCR) prognosis rely on human pathologist-derived parameters such as tumor grade, with the resulting inter-reviewer variability. Genomic companion diagnostic tests such as Decipher tend to be tissue destructive, expensive,...

A resolution adaptive deep hierarchical (RADHicaL) learning scheme applied to nuclear segmentation of digital pathology images.

Computer methods in biomechanics and biomedical engineering. Imaging & visualization

Janowczyk A, Doyle S, Gilmore H, Madabhushi A.
PMID: 29732269
Comput Methods Biomech Biomed Eng Imaging Vis. 2018;6(3):270-276. doi: 10.1080/21681163.2016.1141063. Epub 2016 Apr 28.

Deep learning (DL) has recently been successfully applied to a number of image analysis problems. However, DL approaches tend to be inefficient for segmentation on large image data, such as high-resolution digital pathology slide images. For example, typical breast...

Correction to: T1 and T2 MR fingerprinting measurements of prostate cancer and prostatitis correlate with deep learning-derived estimates of epithelium, lumen, and stromal composition on corresponding whole mount histopathology.

European radiology

Shiradkar R, Panda A, Leo P, Janowczyk A, Farre X, Janaki N, Li L, Pahwa S, Mahran A, Buzzy C, Fu P, Elliott R, MacLennan G, Ponsky L, Gulani V, Madabhushi A.
PMID: 32945970
Eur Radiol. 2021 Apr;31(4):2644. doi: 10.1007/s00330-020-07285-8.

No abstract available.

Competition between metal-amido and metal-imido chemistries in the alkaline earth series: an experimental and theoretical study of BaNH.

Journal of the American Chemical Society

Janczyk A, Lichtenberger DL, Ziurys LM.
PMID: 16433526
J Am Chem Soc. 2006 Feb 01;128(4):1109-18. doi: 10.1021/ja053473k.

The pure rotational spectrum of BaNH in its X(1)Sigma(+) ground electronic state has been recorded using millimeter/submillimeter direct absorption methods; data for the deuterium and barium 137 isotopomers have been measured as well. The molecules were produced by the...

A Neuro-behavioral Test and Algorithms for Screening and Evaluating Therapy in ADHD.

Conference proceedings : ... Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual Conference

Modarres-Zadeh M, Xu X, Jaromczyk A, Senders S.
PMID: 17282742
Conf Proc IEEE Eng Med Biol Soc. 2005;2005:2486-9. doi: 10.1109/IEMBS.2005.1616973.

A new neuro-behavioral test with analysis algorithms has been developed for use in screening individuals for attention deficit hyperactivity disorder (ADHD) and for the quantitative evaluation of ADHD medication/therapy in diagnosed patients. This technique combines a 15 minute auditory-based...

Showing 1 to 12 of 13 entries