Joshua Eric Elias

Arrayed hydrogels pair whole-cell imaging with single-cell mass spectrometry proteomics

This paper introduces a platform called ProteoParcel that combines whole-cell imaging with single-cell mass spectrometry proteomics for breast cancer cells.

A multimodal perturbation atlas defines the phenotypic resolution of cellular morphology.

The paper presents a multimodal perturbation atlas using CRISPR knockouts in A549 cells, combining microscopy, phase imaging, and scRNA-seq to assess phenotypic resolution.

Cell size-dependent mRNA transcription drives proteome remodeling

The paper shows that cell size affects mRNA concentrations, driving proteome changes through transcriptional regulation.

Cell enlargement drives aging-associated proteome remodeling and shortens replicative lifespan

This study shows that cell enlargement drives proteome remodeling and shortens replicative lifespan in yeast, independent of known aging factors.

Optogenetic Proximity Labeling Maps Spatially Resolved Mitochondrial Surface Proteomes and a Locally Regulated Ribosome Pool

The paper introduces optogenetic proximity labeling to map mitochondrial surface proteomes and ribosome pools, revealing Miro1's role in spatially organizing mitochondrial protein biogenesis.

Replicating without stress: a dengue replicon model reveals distinct host rewiring to accommodate persistence

This study uses a dengue replicon model to show how host pathways are rewired to support persistent RNA replication without stress responses.

ADAR1 Restricts Poliovirus Infection through dual disruption of translation initiation and protein coding

The paper identifies ADAR1 as a host factor that restricts poliovirus infection by editing viral RNA to disrupt translation initiation and introduce a coding error.

Circadian rhythms mediate malaria transmission potential

The paper shows that mosquito salivary gland and sporozoite gene expression cycles with the day-night rhythm, affecting malaria transmission.

High-Throughput Stool Metaproteomics: Method and Application to Human Specimens

This paper introduces a high-throughput stool proteomic pipeline, SHT-Pro, and demonstrates its application in classifying dietary interventions based on proteomic profiles with up to 89% accuracy.

HIPK4 is essential for murine spermiogenesis

This study shows HIPK4 is essential for spermiogenesis and male fertility in mice, with defects in sperm head morphology and fertility.

Exercise conditioned plasma dampens inflammation via clusterin and boosts memory

The paper shows that plasma from exercising mice reduces brain inflammation and improves memory, with clusterin as a key anti-inflammatory factor also elevated in human exercisers.

Strategies for understanding dynamic, personalized profiles of host-derived proteins and microbes from human stool

This study quantifies variability in host proteins and bacterial taxa in stool samples from healthy individuals, showing greater inter-subject variation than temporal or technical variation.

Immuno-proteomic interrogation of dengue infection reveals novel HLA haplotype-specific MHC-I antigens

This study identifies novel MHC-I antigens specific to dengue virus infection using an immuno-proteomics approach, revealing ligands associated with distinct HLA haplotypes and T-cell recognition.

Measuring proteomes with long strings: A new, unconstrained paradigm in mass spectrum interpretation

The paper introduces TagGraph, a software tool that improves PTM identification in proteomics by addressing search space size and identification accuracy challenges, resulting in tripled confident identifications and expanded knowledge of PTM sites.