Application of proteomics in cancer: recent trends and approaches for biomarkers discovery

YW Kwon, HS Jo, S Bae, Y Seo, P Song, M Song… - Frontiers in …, 2021 - frontiersin.org
Proteomics has become an important field in molecular sciences, as it provides valuable
information on the identity, expression levels, and modification of proteins. For example …

Spatially resolved mass spectrometry at the single cell: recent innovations in proteomics and metabolomics

MJ Taylor, JK Lukowski… - Journal of the American …, 2021 - ACS Publications
Biological systems are composed of heterogeneous populations of cells that
intercommunicate to form a functional living tissue. Biological function varies greatly across …

Single-cell proteomic and transcriptomic analysis of macrophage heterogeneity using SCoPE2

H Specht, E Emmott, AA Petelski, RG Huffman… - Genome biology, 2021 - Springer
Background Macrophages are innate immune cells with diverse functional and molecular
phenotypes. This diversity is largely unexplored at the level of single-cell proteomes …

Large-scale proteomic analysis of Alzheimer's disease brain and cerebrospinal fluid reveals early changes in energy metabolism associated with microglia and …

ECB Johnson, EB Dammer, DM Duong, L **… - Nature medicine, 2020 - nature.com
Our understanding of Alzheimer's disease (AD) pathophysiology remains incomplete. Here
we used quantitative mass spectrometry and coexpression network analysis to conduct the …

Integrated proteomics reveals brain-based cerebrospinal fluid biomarkers in asymptomatic and symptomatic Alzheimer's disease

L Higginbotham, L **, EB Dammer, DM Duong… - Science …, 2020 - science.org
Alzheimer's disease (AD) lacks protein biomarkers reflective of its diverse underlying
pathophysiology, hindering diagnostic and therapeutic advancements. Here, we used …

Defining the carrier proteome limit for single-cell proteomics

TK Cheung, CY Lee, FP Bayer, A McCoy, B Kuster… - Nature …, 2021 - nature.com
Single-cell proteomics by mass spectrometry (SCoPE-MS) is a recently introduced method
to quantify multiplexed single-cell proteomes. While this technique has generated great …

Proteomic analysis of archival breast cancer clinical specimens identifies biological subtypes with distinct survival outcomes

K Asleh, GL Negri, SE Spencer Miko… - Nature …, 2022 - nature.com
Despite advances in genomic classification of breast cancer, current clinical tests and
treatment decisions are commonly based on protein level information. Formalin-fixed …

Workflow enabling deepscale immunopeptidome, proteome, ubiquitylome, phosphoproteome, and acetylome analyses of sample-limited tissues

JG Abelin, EJ Bergstrom, KD Rivera, HB Taylor… - Nature …, 2023 - nature.com
Serial multi-omic analysis of proteome, phosphoproteome, and acetylome provides insights
into changes in protein expression, cell signaling, cross-talk and epigenetic pathways …

A review of the current state of single-cell proteomics and future perspective

R Ahmad, B Budnik - Analytical and Bioanalytical Chemistry, 2023 - Springer
Single-cell methodologies and technologies have started a revolution in biology which until
recently has primarily been limited to deep sequencing and imaging modalities. With the …

TMTpro: design, synthesis, and initial evaluation of a proline-based isobaric 16-plex tandem mass tag reagent set

A Thompson, N Wölmer, S Koncarevic… - Analytical …, 2019 - ACS Publications
The design and synthesis of a proline-based reporter isobaric Tandem Mass Tag structure
(TMTpro) is presented. An analysis is made of the performance of the new TMTpro tags in …