ReviewMolecular & cellular proteomics : MCP2022
Subcellular Transcriptomics and Proteomics: A Comparative Methods Review.
Review in Molecular & cellular proteomics : MCP, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers, 1 of them a synthesis that pooled it.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
31 citing papers in PubMed, 1 synthesis or guideline pooled it.
- The family of glutathione peroxidase proteins and their role against biotic stress in plants: a systematic review.Frontiers in plant science · 2025Pooled it
- Prediction of single cell expression from low-plex immunofluorescence images for guiding precision oncology.NPJ precision oncology · 2026Article
- Dissecting autonomous enzymatic variability in single cells.Nature communications · 2026Article
- Towards the construction of a virtual yeast.Nature · 2026Review
- The good, the bad, and the ugly: opportunities, challenges, and pitfalls in spatial proteomics modeling.Briefings in bioinformatics · 2026Review
- FracFixR: a compositional statistical framework for absolute proportion estimation between fractions in RNA sequencing data.Bioinformatics (Oxford, England) · 2026Article
- Spatial multi-omics technologies in gastric cancer: applications and advances.Frontiers in immunology · 2026Review
- Crosstalk between innate immune signaling pathways and integrated TLR, NLRP3 inflammasome, cGAS-STING, and NF-κB networks in sepsis.Frontiers in cell and developmental biology · 2026Review
- EngineeringFrontiers in microbiology · 2026Review
- RBProximity-CLIP Enables Subcellular Mapping of RNA-Binding Protein Interactions at Nucleotide Resolution.bioRxiv : the preprint server for biology · 2025Article
- ProteinFormer: protein subcellular localization based on bioimages and modified pre-trained transformer.BMC genomics · 2025Article
- Spatial omics technology potentially promotes the progress of tumor immunotherapy.British journal of cancer · 2025Review
- SLC7 transporters at the crossroads of amino acid metabolism and diabetes pathophysiology: insights and therapeutic perspectives.Frontiers in nutrition · 2025Review
- SPOT: spatial proteomics through on-site tissue-protein-labeling.Clinical proteomics · 2024Article
- Implementing distinct spatial proteogenomic technologies: opportunities, challenges, and key considerations.Clinical and experimental immunology · 2024Review
- Dissecting human adipose tissue heterogeneity using single-cell omics technologies.Stem cell research & therapy · 2024Review
- Proximitomics by Reactive Species.ACS central science · 2024Review
- Unveiling spatial complexity in solid tumor immune microenvironments through multiplexed imaging.Frontiers in immunology · 2024Article
- Dual-Signal Feature Spaces Map Protein Subcellular Locations Based on Immunohistochemistry Image and Protein Sequence.Sensors (Basel, Switzerland) · 2023Article
- Mass Spectrometry-Based Proteomic Technology and Its Application to Study Skeletal Muscle Cell Biology.Cells · 2023Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors.
Funding
Abstract
The internal environment of cells is molecularly crowded, which requires spatial organization via subcellular compartmentalization. These compartments harbor specific conditions for molecules to perform their biological functions, such as coordination of the cell cycle, cell survival, and growth. This compartmentalization is also not static, with molecules trafficking between these subcellular neighborhoods to carry out their functions. For example, some biomolecules are multifunctional, requiring an environment with differing conditions or interacting partners, and others traffic to export such molecules. Aberrant localization of proteins or RNA species has been linked to many pathological conditions, such as neurological, cancer, and pulmonary diseases. Differential expression studies in transcriptomics and proteomics are relatively common, but the majority have overlooked the importance of subcellular information. In addition, subcellular transcriptomics and proteomics data do not always colocate because of the biochemical processes that occur during and after translation, highlighting the complementary nature of these fields. In this review, we discuss and directly compare the current methods in spatial proteomics and transcriptomics, which include sequencing- and imaging-based strategies, to give the reader an overview of the current tools available. We also discuss current limitations of these strategies as well as future developments in the field of spatial -omics.
Indexed as
Identifiers
What Socratic holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the Socratic graph.