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List of works by Paul M. Thomas

A five-level classification system for proteoform identifications

scientific article published on 01 October 2019

A scalable platform to identify fungal secondary metabolites and their gene clusters ⬇️

scientific article published on 12 June 2017

A synthetic biology approach to probing nucleosome symmetry.

scientific article published on 12 September 2017

Analysis of intact monoclonal antibody IgG1 by electron transfer dissociation Orbitrap FTMS.

scientific article

Applying label-free quantitation to top down proteomics.

scientific article

Bioinformatics Analysis of Top-Down Mass Spectrometry Data with ProSight Lite

scientific article

Bone protein "extractomics": comparing the efficiency of bone protein extractions of Gallus gallus in tandem mass spectrometry, with an eye towards paleoproteomics

scientific article

Cell-free protein synthesis from genomically recoded bacteria enables multisite incorporation of noncanonical amino acids.

scientific article

Characterization of Methanobactin from Methylosinus sp. LW4.

scientific article published on 15 August 2016

Characterization of a long overlooked copper protein from methane- and ammonia-oxidizing bacteria

scientific article published in Nature Communications

Comparative top down proteomics of peripheral blood mononuclear cells from kidney transplant recipients with normal kidney biopsies or acute rejection.

scientific article published on 27 April 2016

Complete protein characterization using top-down mass spectrometry and ultraviolet photodissociation

scientific article published on 04 June 2013

Deciphering the late biosynthetic steps of antimalarial compound FR-900098.

scientific article

Deconstruction of iterative multidomain polyketide synthase function.

scientific article

Deep and quantitative top-down proteomics in clinical and translational research

scientific article

Defining the Neuropeptidome of the Spiny Lobster Panulirus interruptus Brain Using a Multidimensional Mass Spectrometry-Based Platform

scientific article published on 21 September 2015

Determination of 5-methyltetrahydrofolic acid and folic acid in citrus juices using stable isotope dilution-mass spectrometry.

scientific article published in February 2003

Determination of nonsteroidal anti-inflammatory drugs, caffeine, and triclosan in wastewater by gas chromatography-mass spectrometry.

scientific article published in January 2004

Developing top down proteomics to maximize proteome and sequence coverage from cells and tissues.

scientific article published on 27 August 2013

Development of novel methods for non-canonical myeloma protein analysis with an innovative adaptation of immunofixation electrophoresis, native top-down mass spectrometry, and middle-down de novo sequencing

scientific article published on 20 October 2020

Discovery and in vitro biosynthesis of haloduracin, a two-component lantibiotic

scientific article

Diversity of Amyloid-beta Proteoforms in the Alzheimer's Disease Brain.

scientific article published on 25 August 2017

EphA2 proteomics in human keratinocytes reveals a novel association with afadin and epidermal tight junctions

scientific article published on 4 November 2016

Evaluation of the compact high-field orbitrap for top-down proteomics of human cells

scientific article

Expansion for the Brachylophosaurus canadensis Collagen I Sequence and Additional Evidence of the Preservation of Cretaceous Protein.

scientific article

Fragmentation of integral membrane proteins in the gas phase

scientific article

Fungal artificial chromosomes for mining of the fungal secondary metabolome

scientific article published on 29 April 2015

Gatekeeping versus promiscuity in the early stages of the andrimid biosynthetic assembly line.

scientific article published on 25 July 2008

High-Throughput Analysis of Intact Human Proteins Using UVPD and HCD on an Orbitrap Mass Spectrometer

scientific article published on 17 April 2017

High-definition de novo sequencing of crustacean hyperglycemic hormone (CHH)-family neuropeptides

scientific article

How many human proteoforms are there?

scientific article published in February 2018

Identification and Characterization of Human Proteoforms by Top-Down LC-21 Tesla FT-ICR Mass Spectrometry.

scientific article published on 12 December 2016

Identification and targeting of novel CDK9 complexes in acute myeloid leukemia

scientific article published on 26 December 2018

Identification of the First Diketomorpholine Biosynthetic Pathway Using FAC-MS Technology.

scientific article published on 9 April 2018

In vitro biosynthesis of unnatural enterocin and wailupemycin polyketides

scientific article

Integrated Bottom-Up and Top-Down Proteomics of Patient-Derived Breast Tumor Xenografts

scientific article published on 26 October 2015

Interrogation of Benzomalvin Biosynthesis Using Fungal Artificial Chromosomes with Metabolomic Scoring (FAC-MS): Discovery of a Benzodiazepine Synthase Activity.

scientific article published on 13 March 2018

Kinetics of re-establishing H3K79 methylation marks in global human chromatin.

scientific article

Large-scale top-down proteomics of the human proteome: membrane proteins, mitochondria, and senescence.

scientific article published on 10 September 2013

Loss of BAP1 function leads to EZH2-dependent transformation

scientific article published on 5 October 2015

Mapping intact protein isoforms in discovery mode using top-down proteomics

scientific article

Mass Spectrometry and Antibody-Based Characterization of Blood Vessels from Brachylophosaurus canadensis

scientific article

Measurement of acetylation turnover at distinct lysines in human histones identifies long-lived acetylation sites.

scientific article published on January 2013

Mechanism-based small molecule cross-linkers of HECT E3 ubiquitin ligase-substrate pairs

scientific article published on 09 October 2012

Microbial and metabolic succession on common building materials under high humidity conditions

scientific article published on 16 April 2019

Multidimensional Top-Down Proteomics of Brain-Region-Specific Mouse Brain Proteoforms Responsive to Cocaine and Estradiol

scientific article published on 02 October 2019

NMT1 and NMT2 are lysine myristoyltransferases regulating the ARF6 GTPase cycle

scientific article published on 26 February 2020

Native top-down mass spectrometry provides insights into the copper centers of membrane-bound methane monooxygenase.

scientific article published on 17 June 2019

On the scalability and requirements of whole protein mass spectrometry

scientific article

PAI-1 is a critical regulator of FGF23 homeostasis

scientific article published on 13 September 2017

ProSight Lite: graphical software to analyze top-down mass spectrometry data

scientific article

Programmed Ribosomal Frameshifting Generates a Copper Transporter and a Copper Chaperone from the Same Gene

scientific article published in January 2017

Proteoforms in Peripheral Blood Mononuclear Cells as Novel Rejection Biomarkers in Liver Transplant Recipients

scientific article published on 16 May 2017

Reassignment of the structure of the antibiotic A53868 reveals an unusual amino dehydrophosphonic acid

scientific article published on 01 January 2007

Reply to "Uveal melanoma cells are resistant to EZH2 inhibition regardless of BAP1 status".

scientific article published in June 2016

Site-specific human histone H3 methylation stability: fast K4me3 turnover

scientific article

Size-sorting combined with improved nanocapillary liquid chromatography-mass spectrometry for identification of intact proteins up to 80 kDa

scientific article

Targeted detection and quantitation of histone modifications from 1,000 cells

scientific article published on 26 October 2020

The C-score: a Bayesian framework to sharply improve proteoform scoring in high-throughput top down proteomics

scientific article

The Human Proteoform Atlas: a FAIR community resource for experimentally derived proteoforms

scientific article published on 01 January 2022

The MMSET histone methyl transferase switches global histone methylation and alters gene expression in t(4;14) multiple myeloma cells.

scientific article

The Value of Activated Ion Electron Transfer Dissociation for High-Throughput Top-Down Characterization of Intact Proteins

scientific article published on 05 July 2018

The biosynthesis of methanobactin.

scientific article

The first pilot project of the consortium for top-down proteomics: a status report

scientific article

The serine hydroxymethyltransferase-2 (SHMT2) initiates lymphoma development through epigenetic tumor suppressor silencing

scientific article published on 22 June 2020

The vermiform appendix impacts the risk of developing Parkinson's disease

scientific article published on 01 October 2018

Thorough Performance Evaluation of 213 nm Ultraviolet Photodissociation for Top-down Proteomics

scientific article published on 30 December 2019

Top Down Proteomics Reveals Mature Proteoforms Expressed in Subcellular Fractions of the Echinococcus granulosus Preadult Stage

scientific article

Top down proteomics of human membrane proteins from enriched mitochondrial fractions

scientific article published on 23 January 2013

Top-Down Proteomics Enables Comparative Analysis of Brain Proteoforms Between Mouse Strains.

scientific article published on 26 February 2018

Top-down proteomics on a chromatographic time scale using linear ion trap fourier transform hybrid mass spectrometers

scientific article

Top-down proteomics with mass spectrometry imaging: a pilot study towards discovery of biomarkers for neurodevelopmental disorders

scientific article

Total kinetic analysis reveals how combinatorial methylation patterns are established on lysines 27 and 36 of histone H3

scientific article

Tracking acidic pharmaceuticals, caffeine, and triclosan through the wastewater treatment process.

scientific article

Ultraviolet photodissociation for characterization of whole proteins on a chromatographic time scale

scientific article

Unabridged Analysis of Human Histone H3 by Differential Top-Down Mass Spectrometry Reveals Hypermethylated Proteoforms from MMSET/NSD2 Overexpression

scientific article published on 13 August 2015

Unusual transformations in the biosynthesis of the antibiotic phosphinothricin tripeptide.

scientific article

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