Handuo Shi

Biochemistry, Genetics and Molecular BiologyEnvironmental Science

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 24 papers. Top paper: “Profiling the human intestinal environment under physiological conditions”.

Profiling the human intestinal environment under physiological conditions

Nature(2023)10.1038/s41586-023-05989-7

N/A

6.9DataRank · unranked

463 citations

Rebecca N. Culver, Jessica A. Grembi, Jacob Folz, Peter V. Treit, Handuo Shi +16 more

Profiling of the human intestinal microbiome and bile acids under physiologic conditions using an ingestible sampling device

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.01.19.476920

N/A

0.545DataRank · unranked

9 citations

Rebecca N. Culver, Jessica A. Grembi, Jacob Folz, Peter V. Treit, Les Dethlefsen +13 more

AimB Is a Small Protein Regulator of Cell Size and MreB Assembly

Biophysical Journal(2020)10.1016/j.bpj.2020.04.029

N/A

0DataRank · unranked

6 citations

Handuo Shi, Jen Hsin, Kerwyn Casey Huang, Zemer Gitai, Eric A. Klein +1 more

Environmental and physiological factors affecting high-throughput measurements of bacterial growth

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.06.16.156182

N/A

0DataRank · unranked

7 citations

Spencer Cesar, Heidi A. Arjes, Manohary Rajendram, Handuo Shi, Benjamin D. Knapp +5 more

Starvation induces shrinkage of the bacterial cytoplasm

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.12.06.413849

N/A

0DataRank · unranked

6 citations

Corey S. Westfall, Jesse Kao, Pascal D. Odermatt, Spencer Cesar, Sarah E. Anderson +9 more

Pictures of Tongues Sticking Out

Trends in Endocrinology and Metabolism(2020)10.1016/j.tem.2020.05.003

N/A

0DataRank · unranked

0 citations

Kerwyn Casey Huang, Handuo Shi

Starvation induces shrinkage of the bacterial cytoplasm

Proceedings of the National Academy of Sciences(2021)10.1073/pnas.2104686118

N/A

0DataRank · unranked

80 citations

Corey S. Westfall, Jesse Kao, Pascal D. Odermatt, Sarah E. Anderson, Spencer Cesar +9 more

Morphological and Transcriptional Responses to CRISPRi Knockdown of Essential Genes in Escherichia coli

mBio(2021)10.1128/mbio.02561-21

N/A

0DataRank · unranked

67 citations

Manohary Rajendram, Handuo Shi, Hendrik Osadnik, Andrew N. Gray, Spencer Cesar +7 more

Precise regulation of the relative rates of surface area and volume synthesis in bacterial cells growing in dynamic environments

Nature Communications(2021)10.1038/s41467-021-22092-5

N/A

0DataRank · unranked

58 citations

Yan Hu, Pascal D. Odermatt, Carlos G. Gonzalez, Lichao Zhang, Joshua E. Elias +3 more

Hyperosmotic Shock Transiently Accelerates Constriction Rate in Escherichia coli

Frontiers in Microbiology(2021)10.3389/fmicb.2021.718600

N/A

0DataRank · unranked

15 citations

Handuo Shi, Kerwyn Casey Huang, Jiawei Sun

Optimization of the 16S rRNA sequencing analysis pipeline for studying in vitro communities of gut commensals

iScience(2022)10.1016/j.isci.2022.103907

N/A

0DataRank · unranked

20 citations

Andrés Aranda-Díaz, Rebecca N. Culver, Katherine S. Xue, David A. Relman, Handuo Shi +2 more

Multiple conserved states characterize the twist landscape of the bacterial actin homolog MreB

Computational and Structural Biotechnology Journal(2022)10.1016/j.csbj.2022.10.008

N/A

0DataRank · unranked

3 citations

Michael D. Ward, Gregory R. Bowman, Handuo Shi, Kerwyn Casey Huang, Benjamin D. Knapp

Bacterial cell widening alters periplasmic size and activates envelope stress responses

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.07.26.501644

N/A

0DataRank · unranked

9 citations

Amanda Miguel, Iskander Khusainov, Handuo Shi, Abir T. Asmar, Sri Ram +9 more

Modulation of bacterial cell size and growth rate via activation of a cell envelope stress response

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.07.26.501648

N/A

0DataRank · unranked

6 citations

Matylda Zietek, Handuo Shi, Anna Sueki, Lisa Maier, Jolanda Verheul +5 more

Physiological and regulatory convergence between osmotic and nutrient stress responses in microbes

Current Opinion in Cell Biology(2023)10.1016/j.ceb.2023.102170

N/A

0DataRank · unranked

50 citations

Handuo Shi, Petra Anne Levin, Kerwyn Casey Huang, Adrienne M. Brauer

Previously uncharacterized rectangular bacterial structures in the dolphin mouth

Nature Communications(2023)10.1038/s41467-023-37638-y

N/A

0DataRank · unranked

9 citations

Jesús G. Galaz-Montoya, Handuo Shi, Megan L. Mayer, Cristina Danita, Arianna I. Celis +8 more

Abundance measurements reveal the balance between lysis and lysogeny in the human gut microbiome

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.09.27.614587

N/A

0DataRank · unranked

6 citations

Saria McKeithen-Mead, Handuo Shi, Taylor H. Nguyen, Kerwyn Casey Huang, Benjamin H. Good +1 more

Abundance measurements reveal the balance between lysis and lysogeny in the human gut microbiome

Current Biology(2025)10.1016/j.cub.2025.03.073

N/A

0DataRank · unranked

20 citations

Saria McKeithen-Mead, Handuo Shi, Taylor H. Nguyen, Kerwyn Casey Huang, Benjamin H. Good +1 more

Nutrient competition predicts gut microbiome restructuring under drug perturbations

Cell(2025)10.1016/j.cell.2025.10.038

N/A

0DataRank · unranked

12 citations

Daniel Newton, Taylor H. Nguyen, Sylvie Estrela, Juan M. Sánchez, Michael Tu +6 more

Modulation of bacterial cell size and growth rate via activation of a cell envelope stress response

mBio(2025)10.1128/mbio.02281-25

N/A

0DataRank · unranked

4 citations

Matylda Zietek, Handuo Shi, Anna Sueki, Federico Corona, Lisa Maier +6 more

Bacterial cell widening alters periplasmic size and activates envelope stress responses

The EMBO Journal(2025)10.1038/s44318-025-00534-w

N/A

0DataRank · unranked

3 citations

Amanda Miguel, Handuo Shi, Iskander Khusainov, Abir T. Asmar, Sri Ram +9 more

Environmental and Physiological Factors Affecting High-Throughput Measurements of Bacterial Growth

mBio(2020)10.1128/mbio.01378-20

N/A

0DataRank · unranked

64 citations

Spencer Cesar, Heidi A. Arjes, Manohary Rajendram, Handuo Shi, Benjamin D. Knapp +5 more

Harnessing gut microbial communities to unravel microbiome functions

Current Opinion in Microbiology(2025)10.1016/j.mib.2024.102578

N/A

0DataRank · unranked

6 citations

Handuo Shi, Athanasios Typas, Kerwyn Casey Huang, Samir Giri

Chiral twisting in a bacterial cytoskeletal polymer affects filament size and orientation

Nature Communications(2020)10.1038/s41467-020-14752-9

N/A

0DataRank · unranked

42 citations

David Quint, Gregory M. Grason, Ajay Gopinathan, Kerwyn Casey Huang, Handuo Shi