Nature Search

Investigating proteogenomic divergence in patient-derived xenograft models of ovarian cancer

Jesenia M. Perez
Jolene M. Duda
Stefani N. Thomas
ResearchOpen Access04 Jan 2025
Scientific Reports

Volume: 15, P: 1-18
Proteogenomic characterization of invasive breast tumors in young women

Praveen-Kumar Raj-Kumar
Jianfang Liu
Hai Hu
ResearchOpen Access18 Aug 2025
npj Breast Cancer

Volume: 11, P: 1-19
Integrative proteogenomic characterization of early esophageal cancer

The progression of oesophageal squamous cell carcinoma (ESCC) from early to advanced stages requires comprehensive molecular characterisation. Here, the authors perform a proteogenomics analysis of ESCC patient samples across nine histopathological stages and three phases, identifying key alterations and paths for progression.

Lingling Li
Dongxian Jiang
Chen Ding
ResearchOpen Access25 Mar 2023
Nature Communications

Volume: 14, P: 1-28
Comprehensive proteogenomic characterization of early duodenal cancer reveals the carcinogenesis tracks of different subtypes

Duodenal cancer (DC) has complex subtypes and undergoes complicated morphological changes throughout progression, so understanding the molecular basis is crucial. Here, the authors perform a proteogenomics analysis of 156 DCs, revealing molecular subtypes as well as the roles of smoking, AARS1 and PARP1.

Lingling Li
Dongxian Jiang
Chen Ding
ResearchOpen Access29 Mar 2023
Nature Communications

Volume: 14, P: 1-24
Pan-cancer molecular subtypes revealed by mass-spectrometry-based proteomic characterization of more than 500 human cancers

Mass-spectrometry-based profiling can be used to stratify tumours into molecular subtypes. Here, by classifying over 500 tumours, the authors show that this approach reveals proteomic subgroups which cut across tumour types.

Fengju Chen
Darshan S. Chandrashekar
Chad J. Creighton
ResearchOpen Access12 Dec 2019
Nature Communications

Volume: 10, P: 1-15
Rps14 haploinsufficiency causes a block in erythroid differentiation mediated by S100A8 and S100A9

In a mouse model of the 5q- subtype of myelodysplastic syndrome, haploinsufficiency of the ribosomal protein gene Rps14 leads to anemia through a mechanism involving innate immune signaling and the Tlr4 ligand S100A8, which induces a p53-dependent block to erythroid differentiation.

Rebekka K Schneider
Monica Schenone
Benjamin L Ebert
Research15 Feb 2016
Nature Medicine

Volume: 22, P: 288-297
Single-cell transcriptomics identifies potential cells of origin of MYC rhabdoid tumors

Rhabdoid tumors (RT) are aggressive paediatric cancers with yet unknown cells of origin. Here, the authors establish genetically engineered mouse models of RT and, using single-cell RNA-seq and epigenomics, identify potential cells of origin for the SHH and MYC subtypes.

Monika Graf
Marta Interlandi
Kornelius Kerl
ResearchOpen Access22 Mar 2022
Nature Communications

Volume: 13, P: 1-19
Rapid and deep-scale ubiquitylation profiling for biology and translational research

Comprehensive protein ubiquitylation profiling by mass spectrometry typically requires large sample amounts, limiting its applicability to tissue samples. Here, the authors present an optimized proteomics method that enables multiplexed ubiquitylome analysis of cells and tumor tissue samples.

Namrata D. Udeshi
Deepak C. Mani
Steven A. Carr
ResearchOpen Access17 Jan 2020
Nature Communications

Volume: 11, P: 1-11
Defining the landscape of circular RNAs in neuroblastoma unveils a global suppressive function of MYCN

The role of circular RNAs (circRNAs) in modulating gene expression in cancer remains to be investigated. Here, the authors perform whole transcriptome sequencing in 104 primary neuroblastomas and reveal the involvement of MYCN in regulating circRNAs.

Steffen Fuchs
Clara Danßmann
Johannes H. Schulte
ResearchOpen Access04 Jul 2023
Nature Communications

Volume: 14, P: 1-21
Epithelial coxsackievirus adenovirus receptor promotes house dust mite-induced lung inflammation

The epithelial protein Coxsackievirus Adenovirus Receptor (CAR) is a virus receptor but may have other functions. Here the authors show that deletion of CAR in mice leads to reduced house dust mite-induced lung inflammation, reduced neutrophil accumulation and alterations in airway remodelling.

Elena Ortiz-Zapater
Dustin C. Bagley
Maddy Parsons
ResearchOpen Access27 Oct 2022
Nature Communications

Volume: 13, P: 1-19
Integrated proteogenomic characterization of ampullary adenocarcinoma

Qiao Zhang
Xiaomeng Xu
Chen Ding
ResearchOpen Access07 Jan 2025
Cell Discovery

Volume: 11, P: 1-25
DNA methylation-based classification of sinonasal tumors

Sinonasal tumour diagnosis can be complicated by the heterogeneity of disease and classification systems. Here, the authors use machine learning to classify sinonasal undifferentiated carcinomas into 4 molecular classe with differences in differentiation state and clinical outcome.

Philipp Jurmeister
Stefanie Glöß
David Capper
ResearchOpen Access28 Nov 2022
Nature Communications

Volume: 13, P: 1-14
Proteogenomic insights into the biology and treatment of pan-melanoma

Hang Xiang
Rongkui Luo
Chen Ding
ResearchOpen Access23 Jul 2024
Cell Discovery

Volume: 10, P: 1-35
Proteogenomic characterization of human colon and rectal cancer

Proteome analysis of The Cancer Genome Atlas (TCGA) colorectal cancer specimens reveals that DNA- or RNA-level measurements cannot reliably predict protein abundance, colorectal tumours can be separated into distinct proteotypes, and that copy number alterations drive mRNA abundance changes but few extend to protein-level changes.

Bing Zhang
Jing Wang
R. Reid Townsend
Research20 Jul 2014
Nature

Volume: 513, P: 382-387
Author Correction: Targeting wild-type KRAS-amplified gastroesophageal cancer through combined MEK and SHP2 inhibition

Gabrielle S. Wong
Jin Zhou
Adam J. Bass
Amendments and Corrections09 Aug 2018
Nature Medicine

Volume: 24, P: 1627
Targeting wild-type KRAS-amplified gastroesophageal cancer through combined MEK and SHP2 inhibition

Amplification of wild-type KRAS in a subset of gastroesophageal tumors drives intrinsic resistance to MAPK inhibition that can be overcome by combined targeting of MEK and SHP2.

Gabrielle S. Wong
Jin Zhou
Adam J. Bass
Research28 May 2018
Nature Medicine

Volume: 24, P: 968-977
CLCN2 chloride channel mutations in familial hyperaldosteronism type II

Whole-exome sequencing identifies mutations in CLCN2 in individuals with familial hyperaldosteronism type II or early-onset primary aldosteronism. These gain-of-function mutations cause chloride channel opening and glomerulosa cell depolarization, showing a role for anion channels in aldosterone production.

Ute I. Scholl
Gabriel Stölting
Richard P. Lifton
Research05 Feb 2018
Nature Genetics

Volume: 50, P: 349-354
Identification of regulators of the innate immune response to cytosolic DNA and retroviral infection by an integrative approach

Hacohen and colleagues use an integrative approach that combines quantitative proteomics, genomics and small molecule perturbations to identify new genes involved in DNA sensing and type I interferon production.

Mark N Lee
Matthew Roy
Nir Hacohen
Research23 Dec 2012
Nature Immunology

Volume: 14, P: 179-185
P21-dependent G₁arrest with downregulation of cyclin D1 and upregulation of cyclin E by the histone deacetylase inhibitor FR901228

V Sandor
A Senderowicz
S E Bates
ResearchOpen Access22 Aug 2000
British Journal of Cancer

Volume: 83, P: 817-825

Search

Investigating proteogenomic divergence in patient-derived xenograft models of ovarian cancer

Proteogenomic characterization of invasive breast tumors in young women

Integrative proteogenomic characterization of early esophageal cancer

Comprehensive proteogenomic characterization of early duodenal cancer reveals the carcinogenesis tracks of different subtypes

Pan-cancer molecular subtypes revealed by mass-spectrometry-based proteomic characterization of more than 500 human cancers

Rps14 haploinsufficiency causes a block in erythroid differentiation mediated by S100A8 and S100A9

Single-cell transcriptomics identifies potential cells of origin of MYC rhabdoid tumors

Rapid and deep-scale ubiquitylation profiling for biology and translational research

Defining the landscape of circular RNAs in neuroblastoma unveils a global suppressive function of MYCN

Epithelial coxsackievirus adenovirus receptor promotes house dust mite-induced lung inflammation

Integrated proteogenomic characterization of ampullary adenocarcinoma

DNA methylation-based classification of sinonasal tumors

Proteogenomic insights into the biology and treatment of pan-melanoma

Proteogenomic characterization of human colon and rectal cancer

Author Correction: Targeting wild-type KRAS-amplified gastroesophageal cancer through combined MEK and SHP2 inhibition

Targeting wild-type KRAS-amplified gastroesophageal cancer through combined MEK and SHP2 inhibition

CLCN2 chloride channel mutations in familial hyperaldosteronism type II

Identification of regulators of the innate immune response to cytosolic DNA and retroviral infection by an integrative approach

P21-dependent G₁arrest with downregulation of cyclin D1 and upregulation of cyclin E by the histone deacetylase inhibitor FR901228

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