Lydia M. Contreras

Biochemistry, Genetics and Molecular Biology

Pilot corpus only

This score is computed over theSindex pilot corpus and does not cover the full scientific literature. Scores are relative to papers we have ingested — papers, authors, and institutions outside the pilot are not represented. Methodology.

Top 100%percentile

0Author DataRank

Indexed papers

0in pilot corpus

datarank_citation_only_1hop_v6· scope data_onlyMethodology

Papers

Driven by 21 papers. Top paper: “A small RNA regulates pprM, a modulator of pleiotropic proteins promoting DNA repair, in Deinococcus radiodurans under ionizing radiation”.

A small RNA regulates pprM, a modulator of pleiotropic proteins promoting DNA repair, in Deinococcus radiodurans under ionizing radiation

Scientific Reports(2021)10.1038/s41598-021-91335-8

N/A

0DataRank · unranked

29 citations

Runhua Han, Chen-Hsun Tsai, Angela Chen, Philip Sweet, Gabriela Franco +5 more

Uncovering Transcriptional Regulators and Targets of sRNAs Using an Integrative Data-Mining Approach: H-NS-Regulated RseX as a Case Study

Frontiers in Cellular and Infection Microbiology(2021)10.3389/fcimb.2021.696533

N/A

0DataRank · unranked

12 citations

Alyssa M. Ekdahl, Angela Chen, Abigail N. Leistra, Bridget Li, Javier González Martínez +6 more

A strategy to quantify myofibroblast activation on a continuous spectrum

Scientific Reports(2022)10.1038/s41598-022-16158-7

N/A

0DataRank · unranked

33 citations

Matthew S. Santoso, Sean M. Engels, Kathleen N. Halwachs, Lydia M. Contreras, Adrianne M. Rosales +1 more

PNPase and RhlB Interact and Reduce the Cellular Availability of Oxidized RNA in Deinococcus radiodurans

Microbiology Spectrum(2022)10.1128/spectrum.02140-22

N/A

0DataRank · unranked

22 citations

Jessie Jiang, Jaden Fang, Lydia M. Contreras, Runhua Han

Engineering Toehold-Mediated Switches for Native RNA Detection and Regulation in Bacteria

Journal of Molecular Biology(2022)10.1016/j.jmb.2022.167689

N/A

0DataRank · unranked

15 citations

Alejandra Matsuri Rojano-Nisimura, Lydia M. Contreras, Alyssa M. Ekdahl

A Strategy to Quantify Myofibroblast Activation on a Continuous Spectrum

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.03.09.483659

N/A

0DataRank · unranked

2 citations

Matthew S. Santoso, Sean M. Engels, Lydia M. Contreras, Adrianne M. Rosales, Alexander Hillsley

RNAs as Sensors of Oxidative Stress in Bacteria

Annual Review of Chemical and Biomolecular Engineering(2023)10.1146/annurev-chembioeng-101121-070250

N/A

0DataRank · unranked

23 citations

Philip Sweet, Aparna Anantharaman, Lydia M. Contreras, Ryan Buchser

Particulate matter composition drives differential molecular and morphological responses in lung epithelial cells

PNAS Nexus(2023)10.1093/pnasnexus/pgad415

N/A

0DataRank · unranked

21 citations

Pratik Kamat, G. Stavros Pafilis, Yukang Li, Anshika Agrawal, Daniel J. Haller +3 more

CsrA Shows Selective Regulation of sRNA-mRNA Networks

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.03.29.534774

N/A

0DataRank · unranked

3 citations

Trevor R. Simmons, Abigail N. Leistra, Mia K. Mihailovic, Ryan Buchser, Alyssa M. Ekdahl +4 more

Particulate matter composition drives differential molecular and morphological responses in lung epithelial cells

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.05.17.541204

N/A

0DataRank · unranked

1 citations

Pratik Kamat, G. Stavros Pafilis, Yukang Li, Anshika Agrawal, Daniel J. Haller +3 more

Rewiring native post-transcriptional carbon regulators to build multi-layered genetic circuits and optimize engineered microbes for bioproduction

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.10.04.560922

N/A

0DataRank · unranked

1 citations

Gina Partipilo, Anna C. Stankes, Rashmi Srivastava, Ryan Buchser, Darian Chiu +3 more

Rewiring native post-transcriptional global regulators to achieve designer, multi-layered genetic circuits

Nature Communications(2024)10.1038/s41467-024-52976-1

N/A

0DataRank · unranked

9 citations

Gina Partipilo, Ryan Buchser, Anna C. Stankes, Rashmi Srivastava, Darian Chiu +3 more

Selective 8-oxo-rG stalling occurs in the catalytic core of polynucleotide phosphorylase (PNPase) during degradation

Proceedings of the National Academy of Sciences(2024)10.1073/pnas.2317865121

N/A

0DataRank · unranked

9 citations

Wantae Kim, Shawn W. Schowe, Kathleen Taylor, Runhua Han, Vashita Jain +10 more

The Post-Transcriptional Regulatory Protein CsrA Amplifies Its Targetome through Direct Interactions with Stress-Response Regulatory Hubs: The EvgA and AcnA Cases

Microorganisms(2024)10.3390/microorganisms12040636

N/A

0DataRank · unranked

7 citations

Kobe B. Grismore, Josie S. Ruzek, Jacqueline L. Avila, Lydia M. Contreras, Alejandra Matsuri Rojano-Nisimura

Optimized chemical labeling method for isolation of 8-oxoG-modified RNA, ChLoRox-Seq, identifies mRNAs enriched in oxidation and transcriptome-wide distribution biases of oxidation events post environmental stress

RNA Biology(2024)10.1080/15476286.2024.2427903

N/A

0DataRank · unranked

5 citations

Philip Sweet, Lydia M. Contreras, Matthew R. Burroughs

A high-throughput search for intracellular factors that affect RNA folding identifies E. coli proteins PepA and YagL as RNA chaperones that promote RNA remodelling

RNA Biology(2024)10.1080/15476286.2024.2429956

N/A

0DataRank · unranked

0 citations

Lucas G. Miller, Aparna Anantharaman, Aaron T. Middleton, Elroi Kibret, Sung Hoon Jung +3 more

Thermodynamic modeling of RsmA - mRNA interactions capture novel direct binding across the Pseudomonas aeruginosa transcriptome

Frontiers in Molecular Biosciences(2025)10.3389/fmolb.2025.1493891

N/A

0DataRank · unranked

5 citations

Abigail N. Leistra, Lily Hoefner, Erika Monzon, Cindy J. Gode, Bryan Zorn +5 more

Concentration-Dependent CsrA Regulation of the uxuB Transcript Leads to Development of a Post-Transcriptional Bandpass Filter

ACS Synthetic Biology(2025)10.1021/acssynbio.4c00668

N/A

0DataRank · unranked

4 citations

Trevor R. Simmons, Alexandra J. Lukasiewicz, Ryan Buchser, Josie S. Ruzek, Jacqueline L. Avila +2 more

Multiscale regulation of nutrient stress responses in Escherichia coli from chromatin structure to small regulatory RNAs

Nucleic Acids Research(2025)10.1093/nar/gkaf647

N/A

0DataRank · unranked

2 citations

Tatiana Julien, Sahana Suraj, Judith F. Kribelbauer, Saeed Tavazoie, Lydia Freddolino +2 more

Conserved Heterochromatin-like Structures with Local Regulators Mediate the Iron Stress Response in Mycobacteria

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.08.23.671944

N/A

0DataRank · unranked

1 citations

Agata Turula, Jeremy W. Schroeder, Rebecca L. Hurto, Quancheng Liu, Lydia Freddolino +2 more

High-Throughput Microfluidic Technologies for Rapidly Screening Pollutant-Induced Cell Health Effects

ACS Bio & Med Chem Au(2025)10.1021/acsbiomedchemau.5c00094

N/A

0DataRank · unranked

0 citations

Niphattha Wongwiset, Pratik Kamat, Orian Stapleton, Sean M. Engels, Matthew R. Burroughs +4 more