Biomarker Candidates for Tumors Identified from Deep-Profiled Plasma Stem Predominantly from the Low Abundant Area

Extending the Depth of Human Plasma Proteome Coverage Using Simple Fractionation Techniques

(2021) Gurjeet Kaur et al.   JOURNAL OF PROTEOME RESEARCH

Evaluation of Spin Columns for Human Plasma Depletion to Facilitate MS-Based Proteomics Analysis of Plasma

(2021) Xiaofang Cao et al.   JOURNAL OF PROTEOME RESEARCH

Pan-cancer analysis of whole genomes

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How Machine Learning Will Transform Biomedicine

(2020) Jeremy Goecks et al.   CELL

CCN-Based Therapeutic Peptides Modify Pancreatic Ductal Adenocarcinoma Microenvironment and Decrease Tumor Growth in Combination with Chemotherapy

(2020) Andrea Resovi et al.   Cells

Ultra-High-Throughput Clinical Proteomics Reveals Classifiers of COVID-19 Infection

(2020) Christoph B. Messner et al.   Cell Systems

MassIVE.quant: a community resource of quantitative mass spectrometry–based proteomics datasets

(2020) Meena Choi et al.   NATURE METHODS

Plasma proteome atlas for differentiating tumor stage and post-surgical prognosis of hepatocellular carcinoma and cholangiocarcinoma

(2020) Ting-Tsung Chang et al.   PLoS One

Protein aggregation capture on microparticles enables multi-purpose proteomics sample preparation.

(2019) Tanveer Singh Batth et al.   MOLECULAR & CELLULAR PROTEOMICS

Analysis of 1508 plasma samples by capillary flow data-independent acquisition profiles proteomics of weight loss and maintenance

(2019) Roland Bruderer et al.   MOLECULAR & CELLULAR PROTEOMICS

In-depth human plasma proteome analysis captures tissue proteins and transfer of protein variants across the placenta

(2019) Maria Pernemalm et al.   eLife

Biology and significance of alpha‐fetoprotein in hepatocellular carcinoma

(2019) Peter R. Galle et al.   LIVER INTERNATIONAL

Plasma proteomics-based identification of novel biomarkers in early gastric cancer

(2019) Bin Zhou et al.   CLINICAL BIOCHEMISTRY

Mass Spectrometry-Based Plasma Proteomics: Considerations from Sample Collection to Achieving Translational Data

(2019) Vera Ignjatovic et al.   JOURNAL OF PROTEOME RESEARCH

CD9 identifies pancreatic cancer stem cells and modulates glutamine metabolism to fuel tumour growth

(2019) Victoria M.-Y. Wang et al.   NATURE CELL BIOLOGY

Plasma/serum proteomics: depletion strategies for reducing high-abundance proteins for biomarker discovery

(2019) Pey Yee Lee et al.   Bioanalysis

Detection and localization of surgically resectable cancers with a multi-analyte blood test

(2018) Joshua D. Cohen et al.   SCIENCE

MS-based lipidomics of human blood plasma - a community-initiated position paper to develop accepted guidelines

(2018) Bo Burla et al.   JOURNAL OF LIPID RESEARCH

High-performance medicine: the convergence of human and artificial intelligence

(2018) Eric J. Topol   NATURE MEDICINE

Optimization of Experimental Parameters in Data-Independent Mass Spectrometry Significantly Increases Depth and Reproducibility of Results

(2017) Roland Bruderer et al.   MOLECULAR & CELLULAR PROTEOMICS

Revisiting biomarker discovery by plasma proteomics

(2017) Philipp E Geyer et al.   Molecular Systems Biology

DrugBank 5.0: a major update to the DrugBank database for 2018

(2017) David S Wishart et al.   NUCLEIC ACIDS RESEARCH

Prognostic value of GLUT-1 expression in pancreatic cancer: results from 538 patients

(2017) Gaowa Sharen et al.   Oncotarget

mixOmics: An R package for ‘omics feature selection and multiple data integration

(2017) Florian Rohart et al.   PLoS Computational Biology

Transgelin increases metastatic potential of colorectal cancer cells in vivo and alters expression of genes involved in cell motility

(2016) Hui-min Zhou et al.   BMC CANCER

MalaCards: an amalgamated human disease compendium with diverse clinical and genetic annotation and structured search

(2016) Noa Rappaport et al.   NUCLEIC ACIDS RESEARCH

Plasma Proteome Profiling to Assess Human Health and Disease

(2016) Philipp E. Geyer et al.   Cell Systems

Proteomic Biomarker Discovery in 1000 Human Plasma Samples with Mass Spectrometry

(2015) Ornella Cominetti et al.   JOURNAL OF PROTEOME RESEARCH

Extending the Limits of Quantitative Proteome Profiling with Data-Independent Acquisition and Application to Acetaminophen-Treated Three-Dimensional Liver Microtissues

(2015) Roland Bruderer et al.   MOLECULAR & CELLULAR PROTEOMICS

Quantitative variability of 342 plasma proteins in a human twin population

(2015) Y. Liu et al.   Molecular Systems Biology

DIA-Umpire: comprehensive computational framework for data-independent acquisition proteomics

(2015) Chih-Chiang Tsou et al.   NATURE METHODS

Why have so few proteomic biomarkers “survived” validation? (Sample size and independent validation considerations)

(2014) Belinda Hernández et al.   PROTEOMICS

Statistical Design for Biospecimen Cohort Size in Proteomics-based Biomarker Discovery and Verification Studies

(2013) Steven J. Skates et al.   JOURNAL OF PROTEOME RESEARCH

Pitfalls and limitations in translation from biomarker discovery to clinical utility in predictive and personalised medicine

(2013) Elisabeth Drucker et al.   EPMA Journal

Normalization and missing value imputation for label-free LC-MS analysis

(2012) Yuliya V Karpievitch et al.   BMC BIOINFORMATICS

Diagnosis and Classification of Diabetes Mellitus

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Novel prognostic protein markers of resectable pancreatic cancer identified by coupled shotgun and targeted proteomics using formalin-fixed paraffin-embedded tissues

(2012) Tatsuyuki Takadate et al.   INTERNATIONAL JOURNAL OF CANCER

Identification of Glycoprotein Markers for Pancreatic Cancer CD24+CD44+ Stem-like Cells Using Nano-LC–MS/MS and Tissue Microarray

(2012) Jianhui Zhu et al.   JOURNAL OF PROTEOME RESEARCH

Optimized Fast and Sensitive Acquisition Methods for Shotgun Proteomics on a Quadrupole Orbitrap Mass Spectrometer

(2012) Christian D. Kelstrup et al.   JOURNAL OF PROTEOME RESEARCH

Tumor Markers in Clinical Practice: A Review Focusing on Common Solid Cancers

(2012) Michael J. Duffy   MEDICAL PRINCIPLES AND PRACTICE

The Potential Role of ORM2 in the Development of Colorectal Cancer

(2012) Xuhua Zhang et al.   PLoS One

Sparse PLS discriminant analysis: biologically relevant feature selection and graphical displays for multiclass problems

(2011) Kim-Anh Lê Cao et al.   BMC BIOINFORMATICS

Identification of Novel Accessible Proteins Bearing Diagnostic and Therapeutic Potential in Human Pancreatic Ductal Adenocarcinoma

(2011) Andrei Turtoi et al.   JOURNAL OF PROTEOME RESEARCH

Quantitative profiling of serum samples using TMT protein labelling, fractionation and LC–MS/MS

(2011) John Sinclair et al.   METHODS

Increased level of exogenous zinc induces cytotoxicity and up-regulates the expression of the ZnT-1 zinc transporter gene in pancreatic cancer cells

(2010) Arathi K. Jayaraman et al.   JOURNAL OF NUTRITIONAL BIOCHEMISTRY

GOrilla: a tool for discovery and visualization of enriched GO terms in ranked gene lists

(2009) Eran Eden et al.   BMC BIOINFORMATICS

IDPicker 2.0: Improved Protein Assembly with High Discrimination Peptide Identification Filtering

(2009) Ze-Qiang Ma et al.   JOURNAL OF PROTEOME RESEARCH

Universal sample preparation method for proteome analysis

(2009) Jacek R Wiśniewski et al.   NATURE METHODS

Free  -Subunit of Human Chorionic Gonadotropin in Serum Is a Diagnostically Sensitive Marker of Seminomatous Testicular Cancer

(2008) A. Lempiainen et al.   CLINICAL CHEMISTRY