دورية أكاديمية
أعرض في EDS

Diagnosis of T-cell-mediated kidney rejection in formalin-fixed, paraffin-embedded tissues using RNA-Seq-based machine learning algorithms.

التفاصيل البيبلوغرافية
العنوان: Diagnosis of T-cell-mediated kidney rejection in formalin-fixed, paraffin-embedded tissues using RNA-Seq-based machine learning algorithms.
المؤلفون: Liu P; Department of Biostatistics, Graduate School of Public Health, University of Pittsburgh Medical Center, Pittsburgh, PA 15213, USA., Tseng G; Department of Biostatistics, Graduate School of Public Health, University of Pittsburgh Medical Center, Pittsburgh, PA 15213, USA., Wang Z; Department of Pathology, University of Pittsburgh Medical Center, Pittsburgh, PA 15213, USA., Huang Y; Department of Pathology, University of Pittsburgh Medical Center, Pittsburgh, PA 15213, USA., Randhawa P; Department of Pathology, University of Pittsburgh Medical Center, Pittsburgh, PA 15213, USA. Electronic address: randhawapa@upmc.edu.
المصدر: Human pathology [Hum Pathol] 2019 Feb; Vol. 84, pp. 283-290. Date of Electronic Publication: 2018 Oct 06.
نوع المنشور: Journal Article; Research Support, Non-U.S. Gov't
اللغة: English
بيانات الدورية: Publisher: W B Saunders Country of Publication: United States NLM ID: 9421547 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1532-8392 (Electronic) Linking ISSN: 00468177 NLM ISO Abbreviation: Hum Pathol Subsets: MEDLINE
أسماء مطبوعة: Publication: Philadelphia, PA : W B Saunders
Original Publication: Philadelphia, W B. Saunders Co.
مواضيع طبية MeSH: Algorithms* , Kidney Transplantation* , Machine Learning*, Graft Rejection/*diagnosis , Sequence Analysis, RNA/*methods, Adult ; Aged ; Female ; Formaldehyde ; Graft Rejection/immunology ; Humans ; Male ; Middle Aged ; Paraffin Embedding ; T-Lymphocytes/immunology ; Tissue Fixation ; Young Adult
مستخلص: Molecular diagnosis is being increasingly used in transplant pathology to render more objective and quantitative determinations that also provide mechanistic and prognostic insights. This study performed RNA-Seq on biopsies from kidneys with stable function (STA) and biopsies with classical findings of T-cell-mediated rejection (TCMR). Machine learning tools were used to develop prediction models for distinguishing TCMR and STA samples using the top genes identified by DSeq2. The prediction models were tested on 703 biopsies with Affymetrix chip gene expression profiles available in the public domain. Linear discriminant analysis predicted TCMR in 55 of 67 biopsies labeled TCMR, and 65 of 105 biopsies designated as antibody-mediated rejection. The random forest and support vector machine models showed comparable performance. These data illustrate the feasibility of using RNA-Seq for molecular diagnosis of TCMR in formalin-fixed tissue. Application of the derived diagnostic algorithms to publicly available data sets demonstrates frequent coexistence of TCMR in biopsies designated as antibody-mediated rejection. This underrecognition of TCMR in renal allograft biopsies has significant implications with respect to patient care.
(Copyright © 2018 Elsevier Inc. All rights reserved.)
فهرسة مساهمة: Keywords: Diagnosis; Formalin; Kidney; Paraffin; RNA-Seq; Rejection; Transplant
المشرفين على المادة: 1HG84L3525 (Formaldehyde)
تواريخ الأحداث: Date Created: 20181009 Date Completed: 20191115 Latest Revision: 20191115
رمز التحديث: 20240628
DOI: 10.1016/j.humpath.2018.09.013
PMID: 30296518
قاعدة البيانات: MEDLINE
الوصف
تدمد:1532-8392
DOI:10.1016/j.humpath.2018.09.013