Qing Nie

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 3%percentile

1.1Author DataRank

Indexed papers

1in pilot corpus

datarank_citation_only_1hop_v6· scope data_onlyMethodology

Why this DataRank?

An author's DataRank is the sum of the DataRanks of all 1 indexed paper attributed to them. A prolific author with many moderate-impact papers can outrank one with a single high-impact paper.

Author scores recompute whenever paper DataRanks are refreshed, so this number lags the underlying paper scores by at most one batch run.

Read the full methodology →

The highest-impact dataset this researcher has shared, ranked by DataRank — the single contribution doing the most to lift their data-sharing standing.

A Roadmap for a Consensus Human Skin Cell Atlas and Single-Cell Data Standardization

Journal of Investigative Dermatology(2023)10.1016/j.jid.2023.03.1679

Top 19%

1.1DataRank

Top 19%30 citations

Hao Yuan, Karl Annusver, Raúl Ramos, Yingzi Liu, Julie Wiedemann +14 more

Papers

Driven by 94 papers — median percentile 81. Top paper: “scAI: an unsupervised approach for the integrative analysis of parallel single-cell transcriptomic and epigenomic profiles”.

scAI: an unsupervised approach for the integrative analysis of parallel single-cell transcriptomic and epigenomic profiles

Genome biology(2020)10.1186/s13059-020-1932-8

N/A

5.6DataRank · unranked

208 citations

Lihua Zhang, Qing Nie, Suoqin Jin

Screening cell–cell communication in spatial transcriptomics via collective optimal transport

Nature Methods(2023)10.1038/s41592-022-01728-4

N/A

4.1DataRank · unranked

455 citations

Yanxiang Zhao, Axel A. Almet, Adam R. Stabell, Raúl Ramos, Maksim V. Plikus +3 more

Inference and analysis of cell-cell communication using CellChat

Nature Communications(2021)10.1038/s41467-021-21246-9

N/A

1.3DataRank · unranked

7945 citations

Christian F. Guerrero-Juarez, Lihua Zhang, Ivan Chang, Raul Ramos, Chen-Hsiang Kuan +6 more

A Roadmap for a Consensus Human Skin Cell Atlas and Single-Cell Data Standardization

Journal of Investigative Dermatology(2023)10.1016/j.jid.2023.03.1679

Top 19%

1.1DataRank

Top 19%30 citations

Hao Yuan, Karl Annusver, Raúl Ramos, Yingzi Liu, Julie Wiedemann +14 more

NeST: nested hierarchical structure identification in spatial transcriptomic data

Nature Communications(2023)10.1038/s41467-023-42343-x

N/A

0.724DataRank · unranked

17 citations

Qing Nie, Benjamin L. Walker

Small data methods in omics: the power of one

Nature Methods(2024)10.1038/s41592-024-02390-8

N/A

0.503DataRank · unranked

10 citations

Steven F. Grieco, Qing Nie, Fabian Joachim Theis, Xiangmin Xu, Kevin G. Johnston

Detecting global and local hierarchical structures in cell-cell communication using CrossChat

Nature Communications(2024)10.1038/s41467-024-54821-x

N/A

0.265DataRank · unranked

4 citations

Axel A. Almet, Qing Nie, Xinyi Wang

Cycling Stem Cells Are Radioresistant and Regenerate the Intestine

Cell Reports(2020)10.1016/j.celrep.2020.107952

N/A

0DataRank · unranked

66 citations

Ziguang Lin, Cong Lv, Chunlei Shao, Xueyun Bi, Min Deng +21 more

Predicting transcription factor binding in single cells through deep learning

Science Advances(2020)10.1126/sciadv.aba9031

N/A

0DataRank · unranked

64 citations

Lihua Zhang, Emmanuel Dollinger, Qinke Peng, Qing Nie, Xiaohui Xie +1 more

Murine interfollicular epidermal differentiation is gradualistic with GRHL3 controlling progression from stem to transition cell states

Nature Communications(2020)10.1038/s41467-020-19234-6

N/A

0DataRank · unranked

60 citations

Suoqin Jin, Jefferson W. Chen, Zhuorui Li, Zhongqi Lin, Li Tang +3 more

Scaling a Dpp Morphogen Gradient through Feedback Control of Receptors and Co-receptors

Developmental Cell(2020)10.1016/j.devcel.2020.05.029

N/A

0DataRank · unranked

55 citations

Yuchi Qiu, Weitao Chen, Qing Nie, Arthur D. Lander, Yilun Zhu

Kernel Differential Subgraph Analysis to Reveal the Key Period Affecting Glioblastoma

Biomolecules(2020)10.3390/biom10020318

N/A

0DataRank · unranked

8 citations

Jiamin Sun, Jiatai Feng, Fuzhang Yang, Jiao Wang, Tieqiao Wen +2 more

DNF: A differential network flow method to identify rewiring drivers for gene regulatory networks

Neurocomputing(2020)10.1016/j.neucom.2020.05.028

N/A

0DataRank · unranked

13 citations

Fuzhang Yang, Jiao Wang, Mathew Karikomi, Yiting Yin, Jiamin Sun +3 more

Divergent Resistance Mechanisms to Immunotherapy Explain Responses in Different Skin Cancers

Cancers(2020)10.3390/cancers12102946

N/A

0DataRank · unranked

9 citations

Daniel Bergman, Peijie Zhou, Scott X. Atwood, Qing Nie, Emmanuel Dollinger

Regulatory feedback on receptor and non‐receptor synthesis for robust signaling

Developmental Dynamics(2020)10.1002/dvdy.160

N/A

0DataRank · unranked

4 citations

Qing Nie, Cynthia Sanchez‐Tapia, Aghavni Simonyan, Frederic Y. M. Wan, Arthur D. Lander

Inference and analysis of cell-cell communication using CellChat

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.07.21.214387

N/A

0DataRank · unranked

603 citations

Christian F. Guerrero-Juarez, Lihua Zhang, Ivan Chang, Peggy Myung, Maksim V. Plikus +2 more

UFold: Fast and Accurate RNA Secondary Structure Prediction with Deep Learning

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.08.17.254896

N/A

0DataRank · unranked

29 citations

Yingxin Cao, Jie Wu, Qinke Peng, Qing Nie, Xiaohui Xie +1 more

Predicting transcription factor binding in single cells through deep learning

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.01.14.905232

N/A

0DataRank · unranked

4 citations

Lihua Zhang, Emmanuel Dollinger, Qinke Peng, Qing Nie, Xiaohui Xie +1 more

Divergent resistance mechanisms to immunotherapy explains response in different skin cancers

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.09.15.298182

N/A

0DataRank · unranked

3 citations

Daniel Bergman, Peijie Zhou, Scott X. Atwood, Qing Nie, Emmanuel Dollinger

UFold: fast and accurate RNA secondary structure prediction with deep learning

Nucleic Acids Research(2021)10.1093/nar/gkab1074

N/A

0DataRank · unranked

284 citations

Yingxin Cao, Jie Wu, Qinke Peng, Qing Nie, Xiaohui Xie +1 more

scMC learns biological variation through the alignment of multiple single-cell genomics datasets

Genome biology(2021)10.1186/s13059-020-02238-2

N/A

0DataRank · unranked

867 citations

Qing Nie, Lihua Zhang

The landscape of cell–cell communication through single-cell transcriptomics

Current Opinion in Systems Biology(2021)10.1016/j.coisb.2021.03.007

N/A

0DataRank · unranked

213 citations

Zixuan Cang, Suoqin Jin, Qing Nie, Axel A. Almet

Dissecting transition cells from single-cell transcriptome data through multiscale stochastic dynamics

Nature Communications(2021)10.1038/s41467-021-25548-w

N/A

0DataRank · unranked

105 citations

Shuxiong Wang, Tiejun Li, Qing Nie, Peijie Zhou

Inference of Intercellular Communications and Multilayer Gene-Regulations of Epithelial–Mesenchymal Transition From Single-Cell Transcriptomic Data

Frontiers in Genetics(2021)10.3389/fgene.2020.604585

N/A

0DataRank · unranked

46 citations

Shuxiong Wang, Federico Bocci, Peijie Zhou, Qing Nie, Yutong Sha

Single-cell transcriptomic analysis of zebrafish cranial neural crest reveals spatiotemporal regulation of lineage decisions during development

Cell Reports(2021)10.1016/j.celrep.2021.110140

N/A

0DataRank · unranked

41 citations

Zixuan Cang, Xiaojun Wu, Praveer Sharma, Matthew Karikomi, Adam L. MacLean +3 more

DEEPsc: A Deep Learning-Based Map Connecting Single-Cell Transcriptomics and Spatial Imaging Data

Frontiers in Genetics(2021)10.3389/fgene.2021.636743

N/A

0DataRank · unranked

37 citations

Zixuan Cang, Qing Nie, Floyd Maseda

A multiscale model via single-cell transcriptomics reveals robust patterning mechanisms during early mammalian embryo development

PLoS Computational Biology(2021)10.1371/journal.pcbi.1008571

N/A

0DataRank · unranked

27 citations

Yangyang Wang, Qixuan Wang, Ken W. Y. Cho, William R. Holmes, Qing Nie +1 more

SAILER: scalable and accurate invariant representation learning for single-cell ATAC-seq processing and integration

Bioinformatics(2021)10.1093/bioinformatics/btab303

N/A

0DataRank · unranked

18 citations

Laiyi Fu, Jie Wu, Qinke Peng, Qing Nie, Jing Zhang +2 more

Modeling the effects of EMT-immune dynamics on carcinoma disease progression

Communications Biology(2021)10.1038/s42003-021-02499-y

N/A

0DataRank · unranked

11 citations

Matthew Karikomi, Min Yu, Qing Nie, Adam L. MacLean, Daniel Bergman

Examining age-dependent DNA methylation patterns and gene expression in the male and female mouse hippocampus

Neurobiology of Aging(2021)10.1016/j.neurobiolaging.2021.08.006

N/A

0DataRank · unranked

11 citations

Honglei Ren, Julien Morival, Qing Nie, Marcelo A. Wood, Timothy L. Downing +1 more

Single-Cell RNA-Seq Analysis Reveals the Acquisition of Cancer Stem Cell Traits and Increase of Cell–Cell Signaling during EMT Progression

Cancers(2021)10.3390/cancers13225726

N/A

0DataRank · unranked

20 citations

Peijie Zhou, Qing Nie, Federico Bocci

A Study of Gene Expression, Structure, and Contractility of iPSC-Derived Cardiac Myocytes from a Family with Heart Disease due to LMNA Mutation

Annals of Biomedical Engineering(2021)10.1007/s10439-021-02850-8

N/A

0DataRank · unranked

11 citations

Tessa Altair Morris, Zixuan Cang, Cecilia Nguyen, Yutong Sha, Mira N. Asad +7 more

Multiple morphogens and rapid elongation promote segmental patterning during development

PLoS Computational Biology(2021)10.1371/journal.pcbi.1009077

N/A

0DataRank · unranked

9 citations

Lianna Fung, Thomas F. Schilling, Qing Nie, Yuchi Qiu

Dissecting Transition Cells from Single-cell Transcriptome Data through Multiscale Stochastic Dynamics

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.03.07.434281

N/A

0DataRank · unranked

9 citations

Shuxiong Wang, Tiejun Li, Qing Nie, Peijie Zhou

SAILER: Scalable and Accurate Invariant Representation Learning for Single-Cell ATAC-Seq Processing and Integration

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.01.28.428689

N/A

0DataRank · unranked

5 citations

Laiyi Fu, Jie Wu, Qinke Peng, Qing Nie, Jing Zhang +2 more

Single-cell analysis of basal cell carcinoma reveals heat shock proteins promote tumor growth in response to WNT5A-mediated inflammatory signals

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.10.07.463571

N/A

0DataRank · unranked

1 citations

Gun Ho Lee, Yingzi Liu, Shuxiong Wang, Yutong Sha, Rachel Y. Chow +8 more

Pre-neoplastic stromal cells drive BRCA1-mediated breast tumorigenesis

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.10.20.465221

N/A

0DataRank · unranked

1 citations

Dennis Ma, Quy Nguyen, Nicholas Pervolarakis, Jacob Insua‐Rodríguez, Maren Pein +18 more

Identifying multicellular spatiotemporal organization of cells with SpaceFlow

Nature Communications(2022)10.1038/s41467-022-31739-w

N/A

0DataRank · unranked

229 citations

Benjamin L. Walker, Zixuan Cang, Qing Nie, Honglei Ren

Wound healing in aged skin exhibits systems-level alterations in cellular composition and cell-cell communication

Cell Reports(2022)10.1016/j.celrep.2022.111155

N/A

0DataRank · unranked

169 citations

Suoqin Jin, Peng Sun, Daniel Haensel, Quy Nguyen, Morgan Dragan +4 more

Deciphering tissue structure and function using spatial transcriptomics

Communications Biology(2022)10.1038/s42003-022-03175-5

N/A

0DataRank · unranked

123 citations

Zixuan Cang, Honglei Ren, Eric Bourgain-Chang, Qing Nie, Benjamin L. Walker

Integrated analysis of multimodal single-cell data with structural similarity

Nucleic Acids Research(2022)10.1093/nar/gkac781

N/A

0DataRank · unranked

109 citations

Laiyi Fu, Jie Wu, Qinke Peng, Qing Nie, Jing Zhang +2 more

Hedgehog signaling reprograms hair follicle niche fibroblasts to a hyper-activated state

Developmental Cell(2022)10.1016/j.devcel.2022.06.005

N/A

0DataRank · unranked

85 citations

Christian F. Guerrero-Juarez, Fei Xiao, Nitish Udupi Shettigar, Raúl Ramos, Chen‐Hsiang Kuan +13 more

spliceJAC: transition genes and state‐specific gene regulation from single‐cell transcriptome data

Molecular Systems Biology(2022)10.15252/msb.202211176

N/A

0DataRank · unranked

65 citations

Peijie Zhou, Qing Nie, Federico Bocci

Multimodal analyses of vitiligo skin idenitfy tissue characteristics of stable disease

JCI Insight(2022)10.1172/jci.insight.154585

N/A

0DataRank · unranked

56 citations

Lihua Zhang, Griffin Lentsch, Jessica L. Flesher, Suoqin Jin, Christopher Polleys +11 more

Single-cell analysis of human basal cell carcinoma reveals novel regulators of tumor growth and the tumor microenvironment

Science Advances(2022)10.1126/sciadv.abm7981

N/A

0DataRank · unranked

45 citations

Gun Ho Lee, Yingzi Liu, Shuxiong Wang, Matthew Karikomi, Yutong Sha +9 more

Magnitude and breadth of antibody cross-reactivity induced by recombinant influenza hemagglutinin trimer vaccine is enhanced by combination adjuvants

Scientific Reports(2022)10.1038/s41598-022-12727-y

N/A

0DataRank · unranked

27 citations

Emmanuel Dollinger, Egest J. Pone, Jiin Felgner, Li Liang, Shirin Strohmeier +11 more

Machine Learning of Single Cell Transcriptomic Data From anti-PD-1 Responders and Non-responders Reveals Distinct Resistance Mechanisms in Skin Cancers and PDAC

Frontiers in Genetics(2022)10.3389/fgene.2021.806457

N/A

0DataRank · unranked

10 citations

Emmanuel Dollinger, Qing Nie, Ryan Liu

DURIAN: an integrative deconvolution and imputation method for robust signaling analysis of single-cell transcriptomics data

Briefings in Bioinformatics(2022)10.1093/bib/bbac223

N/A

0DataRank · unranked

7 citations

Peijie Zhou, Qing Nie, Matthew Karikomi

Supervised Optimal Transport

SIAM Journal on Applied Mathematics(2022)10.1137/22m1469171

N/A

0DataRank · unranked

3 citations

Qing Nie, Yanxiang Zhao, Zixuan Cang

Screening cell-cell communication in spatial transcriptomics via collective optimal transport

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.08.24.505185

N/A

0DataRank · unranked

27 citations

Yanxiang Zhao, Axel A. Almet, Adam R. Stabell, Raúl Ramos, Maksim V. Plikus +3 more

Spatial-temporal order-disorder transition in angiogenic NOTCH signaling controls cell fate specification

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.12.07.519534

N/A

0DataRank · unranked

2 citations

Federico Bocci, Qing Nie, José N. Onuchic, Andre Levchenko, Tae-Yun Kang

Single cell transcriptomics of human skin equivalent organoids

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.07.27.501753

N/A

0DataRank · unranked

1 citations

Shuxiong Wang, Grace E. Lee, Ling Ji, Sandrine Nguyen, George L. Sen +3 more

A multifunctional Wnt regulator underlies the evolution of coat pattern in African striped mice

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.12.12.520043

N/A

0DataRank · unranked

1 citations

Sha Li, Christian F. Guerrero-Juarez, Pearson W. Miller, Benjamin J. Brack, Sarah A. Mereby +8 more

Reconstructing growth and dynamic trajectories from single-cell transcriptomics data

Nature Machine Intelligence(2023)10.1038/s42256-023-00763-w

N/A

0DataRank · unranked

99 citations

Yuchi Qiu, Peijie Zhou, Qing Nie, Yutong Sha

Inferring neuron-neuron communications from single-cell transcriptomics through NeuronChat

Nature Communications(2023)10.1038/s41467-023-36800-w

N/A

0DataRank · unranked

77 citations

Kevin G. Johnston, Honglei Ren, Xiangmin Xu, Qing Nie, Wei Zhao

The promising application of cell-cell interaction analysis in cancer from single-cell and spatial transcriptomics

Seminars in Cancer Biology(2023)10.1016/j.semcancer.2023.07.001

N/A

0DataRank · unranked

71 citations

Axel A. Almet, Qing Nie, Xinyi Wang

Differential cell composition and split epidermal differentiation in human palm, sole, and hip skin

Cell Reports(2023)10.1016/j.celrep.2023.111994

N/A

0DataRank · unranked

65 citations

Allison C. Billi, Federico Bocci, Ghaidaa Kashgari, Enze Xing, Lam C. Tsoi +13 more

Preneoplastic stromal cells promote BRCA1-mediated breast tumorigenesis

Nature Genetics(2023)10.1038/s41588-023-01298-x

N/A

0DataRank · unranked

64 citations

Dennis Ma, Quy Nguyen, Maren Pein, Nicholas Pervolarakis, Jacob Insua‐Rodríguez +19 more

Single-cell transcriptomics of human-skin-equivalent organoids

Cell Reports(2023)10.1016/j.celrep.2023.112511

N/A

0DataRank · unranked

25 citations

Grace E. Lee, Yunlong JIA, Kirsten N. Wong, Shuxiong Wang, Ling Ji +5 more

A multifunctional Wnt regulator underlies the evolution of rodent stripe patterns

Nature Ecology & Evolution(2023)10.1038/s41559-023-02213-7

N/A

0DataRank · unranked

23 citations

Sha Li, Christian F. Guerrero-Juarez, Pearson W. Miller, Benjamin J. Brack, Sarah A. Mereby +9 more

exFINDER: identify external communication signals using single-cell transcriptomics data

Nucleic Acids Research(2023)10.1093/nar/gkad262

N/A

0DataRank · unranked

17 citations

Peijie Zhou, Qing Nie, Changhan He

Theoretical and computational tools to model multistable gene regulatory networks

Reports on Progress in Physics(2023)10.1088/1361-6633/acec88

N/A

0DataRank · unranked

12 citations

Dongya Jia, Qing Nie, Mohit Kumar Jolly, José N. Onuchic, Federico Bocci

Spatial–temporal order–disorder transition in angiogenic NOTCH signaling controls cell fate specification

eLife(2023)10.7554/elife.89262

N/A

0DataRank · unranked

8 citations

Federico Bocci, Qing Nie, José N. Onuchic, Andre Levchenko, Tae-Yun Kang

Single-cell and spatial transcriptomics identify a macrophage population associated with skeletal muscle fibrosis

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.04.18.537253

N/A

0DataRank · unranked

9 citations

Diego Jaime, Christian F. Guerrero-Juarez, Jenna M. Kastenschmidt, Philip K. Farahat, Quy Nguyen +29 more

Inferring neuron-neuron communications from single-cell transcriptomics through NeuronChat

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.01.12.523826

N/A

0DataRank · unranked

6 citations

Kevin G. Johnston, Honglei Ren, Xiangmin Xu, Qing Nie, Wei Zhao

Leveraging gene correlations in single cell transcriptomic data

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.03.14.532643

N/A

0DataRank · unranked

2 citations

Emmanuel Dollinger, Josh Gervin, Scott X. Atwood, Qing Nie, Arthur D. Lander +1 more

Spatial-temporal order-disorder transition in angiogenic NOTCH signaling controls cell fate specification

(2023)10.7554/elife.89262.1

N/A

0DataRank · unranked

2 citations

Federico Bocci, Qing Nie, José N. Onuchic, Andre Levchenko, Tae-Yun Kang

Theoretical and computational tools to model multistable gene regulatory networks

arXiv (Cornell University)(2023)10.48550/arxiv.2302.07401

N/A

0DataRank · unranked

0 citations

Dongya Jia, Qing Nie, Mohit Kumar Jolly, José N. Onuchic, Federico Bocci

exFINDER: identify external communication signals using single-cell transcriptomics data

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.03.24.533888

N/A

0DataRank · unranked

0 citations

Peijie Zhou, Qing Nie, Changhan He

Interruption of the intratumor CD8+ T cell:Treg crosstalk improves the efficacy of PD-1 immunotherapy

Cancer Cell(2024)10.1016/j.ccell.2024.05.013

N/A

0DataRank · unranked

100 citations

Alexander Moshensky, Rachel S Sousa, Claire Murat, Matías A. Bustos, Benjamin L. Walker +12 more

Integrated Single-Cell Analysis Reveals Spatially and Temporally Dynamic Heterogeneity in Fibroblast States during Wound Healing

Journal of Investigative Dermatology(2024)10.1016/j.jid.2024.06.1281

N/A

0DataRank · unranked

35 citations

Yingzi Liu, Qing Nie, Maksim V. Plikus, Axel A. Almet

Inferring pattern-driving intercellular flows from single-cell and spatial transcriptomics

Nature Methods(2024)10.1038/s41592-024-02380-w

N/A

0DataRank · unranked

29 citations

Yuan‐Chen Tsai, Momoko Watanabe, Qing Nie, Axel A. Almet

Tipping points in epithelial-mesenchymal lineages from single-cell transcriptomics data

Biophysical Journal(2024)10.1016/j.bpj.2024.03.021

N/A

0DataRank · unranked

11 citations

Federico Bocci, Qing Nie, Manuel Barcenas

LMNA-Related Dilated Cardiomyopathy: Single-Cell Transcriptomics during Patient-Derived iPSC Differentiation Support Cell Type and Lineage-Specific Dysregulation of Gene Expression and Development for Cardiomyocytes and Epicardium-Derived Cells with Lamin A/C Haploinsufficiency

Cells(2024)10.3390/cells13171479

N/A

0DataRank · unranked

6 citations

Thuy-Anh Bui, Halida P. Widyastuti, Mehrsa Mehrabi, Zixuan Cang, Yutong Sha +3 more

Leveraging gene correlations in single cell transcriptomic data

BMC Bioinformatics(2024)10.1186/s12859-024-05926-z

N/A

0DataRank · unranked

7 citations

Emmanuel Dollinger, Joshua Gervin, Scott X. Atwood, Qing Nie, Arthur D. Lander +1 more

Spatial-temporal order-disorder transition in angiogenic NOTCH signaling controls cell fate specification

eLife(2024)10.7554/elife.89262.2

N/A

0DataRank · unranked

0 citations

Federico Bocci, Qing Nie, José N. Onuchic, Andre Levchenko, Tae-Yun Kang

Superstable lipid vacuoles endow cartilage with its shape and biomechanics

Science(2025)10.1126/science.ads9960

N/A

0DataRank · unranked

25 citations

Kim T. Pham, Richard C. Prince, Leith B. Leiser-Miller, Maneeshi S. Prasad, Xiaojie Wang +48 more

Dissecting crosstalk induced by cell-cell communication using single-cell transcriptomic data

Nature Communications(2025)10.1038/s41467-025-61149-7

N/A

0DataRank · unranked

8 citations

Wei Zhao, Qing Nie, Jiawen Hou

Spatial and Single-Cell Transcriptomics Reveal Keratinocytes as Key Players in Vulvar Lichen Sclerosus Pathogenesis

Journal of Investigative Dermatology(2025)10.1016/j.jid.2025.08.022

N/A

0DataRank · unranked

8 citations

Christina N. Kraus, Wei Zhao, Jiahui Xu, Susie Suh, Quy Nguyen +11 more

Retinal polyunsaturated fatty acid supplementation reverses aging-related vision decline in mice

Science Translational Medicine(2025)10.1126/scitranslmed.ads5769

N/A

0DataRank · unranked

7 citations

Emily Tom, Cezary Rydz, William Cho, Alexander V. Kolesnikov, Yutong Sha +12 more

Sequential emergence and contraction of epithelial subtypes in the prenatal human choroid plexus revealed by a stem cell model

Nature Communications(2025)10.1038/s41467-025-60361-9

N/A

0DataRank · unranked

4 citations

Shuxiong Wang, Christina Tu, Quy Nguyen, Yutong Sha, Matthew Karikomi +12 more

Optimal Transport based Cross-Domain Integration for Heterogeneous Data

Journal of the American Statistical Association(2025)10.1080/01621459.2025.2540653

N/A

0DataRank · unranked

3 citations

Yifan Zhang, Babak Shahbaba, Norbert J. Fortin, Keiland W Cooper, Qing Nie +2 more

Combination adjuvant improves influenza virus immunity by downregulation of immune homeostasis genes in lymphocytes

ImmunoHorizons(2025)10.1093/immhor/vlae007

N/A

0DataRank · unranked

3 citations

Jenny E. Hernandez‐Davies, Jiin Felgner, Aarti Jain, Ji Won Hwang, Erwin Strahsburger +7 more

Statistically principled feature selection for single cell transcriptomics

BMC Bioinformatics(2025)10.1186/s12859-025-06240-y

N/A

0DataRank · unranked

2 citations

Kai Silkwood, Scott X. Atwood, Qing Nie, Arthur D. Lander, Emmanuel Dollinger

Uncovering minimal pathways in melanoma initiation

Nature Communications(2025)10.1038/s41467-025-60742-0

N/A

0DataRank · unranked

2 citations

Jessica Shiu, Chi‐Fen Chen, Jie Wu, Peijie Zhou, Sahil S. Telang +6 more

Dissecting crosstalk induced by cell-cell communication using single-cell transcriptomic data

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.05.31.657197

N/A

0DataRank · unranked

0 citations

Wei Zhao, Qing Nie, Jiawen Hou

455 Treg-associated ICOS as a possible biomarker for PD-1 therapy resistance in melanoma patients

Regular and Young Investigator Award Abstracts(2025)10.1136/jitc-2025-sitc2025.0455

N/A

0DataRank · unranked

0 citations

Alexander Moshensky, Rachel S Sousa, Claire Murat, Matías A. Bustos, Benjamin L. Walker +13 more

A scalable maximum-likelihood framework for near-real-time monitoring of MERS-CoV evolutionary and zoonotic dynamics

Microbiology Spectrum(2025)10.1128/spectrum.02673-25

N/A

0DataRank · unranked

0 citations

Xiaoyu Yu, Qing Nie, Darren P. Martin, Quan Gu, Nídia S. Trovão +1 more

Inferring spatial and signaling relationships between cells from single cell transcriptomic data

Nature Communications(2020)10.1038/s41467-020-15968-5

N/A

0DataRank · unranked

426 citations

Qing Nie, Zixuan Cang

Defining Epidermal Basal Cell States during Skin Homeostasis and Wound Healing Using Single-Cell Transcriptomics

Cell Reports(2020)10.1016/j.celrep.2020.02.091

N/A

0DataRank · unranked

248 citations

Suoqin Jin, Peng Sun, Rachel Cinco, Morgan Dragan, Quy Nguyen +9 more

Single cell transcriptomics of human epidermis identifies basal stem cell transition states

Nature Communications(2020)10.1038/s41467-020-18075-7

N/A

0DataRank · unranked

222 citations

Michael L. Drummond, Christian F. Guerrero-Juarez, Eric Tarapore, Adam L. MacLean, Adam R. Stabell +7 more

Keratinocyte-Macrophage Crosstalk by the Nrf2/Ccl2/EGF Signaling Axis Orchestrates Tissue Repair

Cell Reports(2020)10.1016/j.celrep.2020.108417

N/A

0DataRank · unranked

85 citations

Melat Worku Tiruneh, Jasmine Lee, Christian F. Guerrero-Juarez, Joseph Kuhn, Joshua A. David +7 more

Inference and multiscale model of epithelial-to-mesenchymal transition via single-cell transcriptomic data

Nucleic Acids Research(2020)10.1093/nar/gkaa725

N/A

0DataRank · unranked

73 citations

Shuxiong Wang, Peijie Zhou, Qing Nie, Yutong Sha

The Msi1-mTOR pathway drives the pathogenesis of mammary and extramammary Paget’s disease

Cell Research(2020)10.1038/s41422-020-0334-5

N/A

0DataRank · unranked

70 citations

Christian F. Guerrero-Juarez, Zhongjian Chen, Yichen Tang, Xianghui Ma, Cong Lv +26 more

Qing Nie

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