Results 1 to 10 of about 10,190 (249)

Proteogenomic characterization of cholangiocarcinoma

Hepatology, EarlyView., 2022
Proteogenomic characterization of cholangiocarcinoma with therapeutic strategies Abstract Background and Aims Cholangiocarcinoma (CCA) is a highly heterogeneous cancer with limited understanding and few effective therapeutic approaches. We aimed at providing a proteogenomic CCA characterization to inform biological processes and treatment ...
Mengjie Deng, Peng Ran, Lingli Chen, Yunzhi Wang, Zixiang Yu, Ke Cai, Jinwen Feng, Zhaoyu Qin, Yanan Yin, Subei Tan, Yang Liu, Chen Xu, Guoming Shi, Yuan Ji, Jian‐Yuan Zhao, Jian Zhou, Jia Fan, Yingyong Hou, Chen Ding   +18 more
wiley   +3 more sources

Proteogenomics of different urothelial bladder cancer stages reveals distinct molecular features for papillary cancer and carcinoma in situ [PDF]

Nature Communications, 2023
The progression of urothelial bladder cancer (UC) is a complicated multi-step process. We perform a comprehensive multi-omics analysis of 448 samples from 190 UC patients, covering the whole spectrum of disease stages and grades.
Zhenmei Yao, Ning Xu, Guoguo Shang, Hai Wang, Hui Tao, Yunzhi Wang, Zhaoyu Qin, Subei Tan, Jinwen Feng, Jiajun Zhu, Fahan Ma, Sha Tian, Qiao Zhang, Yuanyuan Qu, Jun Hou, Jianming Guo, Jian‐Yuan Zhao, Yingyong Hou, Chen Ding   +18 more
openalex   +2 more sources

Proteogenomics in Nephrology: A New Frontier in Nephrological Research. [PDF]

Curr Issues Mol Biol
Proteogenomics represents a transformative intersection in nephrology, uniting genomics, transcriptomics, and proteomics to unravel the molecular intricacies of kidney diseases.
Chavali K, Coker H, Youngblood E, Karaduta O.   +3 more
europepmc   +2 more sources

Phenotyping Tumor Heterogeneity through Proteogenomics: Study Models and Challenges. [PDF]

Int J Mol Sci
Tumor heterogeneity refers to the diversity observed among tumor cells: both between different tumors (inter-tumor heterogeneity) and within a single tumor (intra-tumor heterogeneity).
Piana D, Iavarone F, De Paolis E, Daniele G, Parisella F, Minucci A, Greco V, Urbani A.   +7 more
europepmc   +2 more sources

Rp3: Ribosome profiling-assisted proteogenomics improves coverage and confidence during microprotein discovery. [PDF]

Nat Commun
There has been a dramatic increase in the identification of non-canonical translation and a significant expansion of the protein-coding genome. Among the strategies used to identify unannotated small Open Reading Frames (smORFs) that encode microproteins,
Vieira de Souza E, L Bookout A, Barnes CA, Miller B, Machado P, Basso LA, Bizarro CV, Saghatelian A.   +7 more
europepmc   +2 more sources

Application of Proteogenomics to Urine Analysis towards the Identification of Novel Biomarkers of Prostate Cancer: An Exploratory Study [PDF]

Cancers, 2022
Simple Summary Prostate cancer (PCa) is one of the most common cancers. Due to the limited and invasive approaches for PCa diagnosis, it is crucial to identify more accurate and non-invasive biomarkers for its detection.
Tânia Lima, António S. Barros, Fábio Trindade, Rita Ferreira, Adelino Leite‐Moreira, Daniela Barros‐Silva, Cármen Jerónimo, Luís Araújo, Rui Henrique, Rui Vitorino, Margarida Fardilha   +10 more
openalex   +2 more sources

Lung Cancer Proteogenomics: Shaping the Future of Clinical Investigation. [PDF]

Cancers (Basel)
Simple Summary Lung cancer remains the number one public health burden related to cancer worldwide. The integration of genomic profiling with in-depth proteomic profiling has introduced a new dimension of molecular cancer research, termed proteogenomics.
Vavilis T, Petre ML, Vatsellas G, Ainatzoglou A, Stamoula E, Sachinidis A, Lamprinou M, Dardalas I, Vamvakaris IN, Gkiozos I, Syrigos KN, Anagnostopoulos AK.   +11 more
europepmc   +2 more sources

Proteogenomics analysis of human tissues using pangenomes

bioRxiv
The genomics landscape is evolving with the emergence of pangenomes, challenging the conventional single-reference genome model. The new human pangenome reference provides an extra dimension by incorporating variations observed in different human ...
Wang D, Bouwmeester R, Zheng P, Dai C, Sanchez A, Shu K, Bai M, Umer HM, Perez-Riverol Y.   +8 more
europepmc   +2 more sources

Exploring the Immunogenicity of Noncanonical HLA-I Tumor Ligands Identified through Proteogenomics

Clinical Cancer Research, 2023
Purpose: Tumor antigens are central to antitumor immunity. Recent evidence suggests that peptides from noncanonical (nonC) aberrantly translated proteins can be presented on HLA-I by tumor cells. Here, we investigated the immunogenicity of nonC tumor HLA-
M. Lozano-Rabella, Andrea García-Garijo, Jara Palomero, Anna Yuste-Estevanez, Florian Erhard, J. Martín-Liberal, Maria Ochoa-de-Olza, I. Matos, J. Gartner, Michael Ghosh, F. Canals, A. Vidal, J. Piulats, X. Matías-Guiu, I. Braña, E. Muñoz-Couselo, E. Garralda, A. Schlosser, A. Gros   +18 more
semanticscholar   +1 more source

Unipept Desktop 2.0: construction of targeted reference protein databases for proteogenomics analyses

bioRxiv, 2023
Unipept Desktop 2.0 is the most recent iteration of the Unipept Desktop tool that adds support for the analysis of proteogenomics datasets. Unipept Desktop now supports the automatic construction of targeted protein reference databases that only contain ...
Pieter Verschaffelt, A. Tanca, Marcello Abbondio, T. Van Den Bossche, Tibo Vande Moortele, P. Dawyndt, L. Martens, Bart Mesuere   +7 more
semanticscholar   +1 more source