Qing Nie | Scholar Profiles and Rankings

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Spatial transition tensor of single cells (journal article) Zhou, Peijie \| Bocci, Federico \| Li, Tiejun \| Nie, Qing Nature Methods, volume 21, issue 6, pages 1053-1062 (2024). 10.1038/s41592-024-02266-x Cite \| Source
Spatial–temporal order–disorder transition in angiogenic NOTCH signaling controls cell fate specification (journal article) Kang, Tae-Yun \| Bocci, Federico \| Nie, Qing \| Onuchic, José N \| Levchenko, Andre eLife, volume 12 (2024). 10.7554/eLife.89262.3 Cite \| Source
Spatial–temporal order–disorder transition in angiogenic NOTCH signaling controls cell fate specification (journal article) Kang, Tae-Yun \| Bocci, Federico \| Nie, Qing \| Onuchic, José N \| Levchenko, Andre eLife, volume 12 (2024). 10.7554/eLife.89262 Cite \| Source
Dissecting Spatiotemporal Structures in Spatial Transcriptomics via Diffusion-Based Adversarial Learning (journal article) Wang, Haiyun \| Zhao, Jianping \| Nie, Qing \| Zheng, Chunhou \| Sun, Xiaoqiang Research, volume 7 (2024). 10.34133/research.0390 Cite \| Source
Disruptions in cell‐cell communication in the entorhinal cortex of patients with Alzheimer’s disease and the 5xFAD mouse model (journal article) Bartas, Katrina \| Macchia, Desiree \| Zhao, Wei \| Nie, Qing \| Beier, Kevin T Alzheimer's & Dementia, volume 19, issue S24 (2023). 10.1002/alz.082517 Cite \| Source
Reconstructing growth and dynamic trajectories from single-cell transcriptomics data (journal article) Sha, Yutong \| Qiu, Yuchi \| Zhou, Peijie \| Nie, Qing Nature Machine Intelligence, volume 6, issue 1, pages 25-39 (2023). 10.1038/s42256-023-00763-w Cited by (3) \| Cite \| Source
NeST: nested hierarchical structure identification in spatial transcriptomic data (journal article) Walker, Benjamin L. \| Nie, Qing Nature Communications, volume 14, issue 1 (2023). 10.1038/s41467-023-42343-x Cited by (2) \| Cite \| Source
A multifunctional Wnt regulator underlies the evolution of rodent stripe patterns (journal article) Johnson, Matthew R. \| Li, Sha \| Guerrero-Juarez, Christian F. \| Miller, Pearson \| Brack, Benjamin J. \| Mereby, Sarah A. \| Moreno, Jorge A. \| Feigin, Charles Y. \| Gaska, Jenna \| Rivera-Perez, Jaime A. \| ... \| Mallarino, Ricardo Nature Ecology & Evolution, volume 7, issue 12, pages 2143-2159 (2023). 10.1038/s41559-023-02213-7 Cited by (4) \| Cite \| Source
The promising application of cell-cell interaction analysis in cancer from single-cell and spatial transcriptomics (journal article) Wang, Xinyi \| Almet, Axel A. \| Nie, Qing Seminars in Cancer Biology, volume 95 (2023). 10.1016/j.semcancer.2023.07.001 Cited by (11) \| Cite \| Source
exFINDER: identify external communication signals using single-cell transcriptomics data (journal article) He, Changhan \| Zhou, Peijie \| Nie, Qing Nucleic Acids Research, volume 51, issue 10, pages e58-e58 (2023). 10.1093/nar/gkad262 Cited by (3) \| Cite \| Source
Pandemic preparedness: Addition of TLR agonists CpG+MPLA to emulsified H5 confers protection against H5N1 challenge after a single dose. (journal article) Davies, Jenny E \| Hwang, Michael \| Dollinger, Emmanuel \| Felgner, Jiin \| Jain, Aarti \| Nie, Qing \| Othy, Shivashankar \| Pone, Egest \| Davies, D. Huw The Journal of Immunology, volume 210, issue 1_Supplement, pages 223.23-223.23 (2023). 10.4049/jimmunol.210.Supp.223.23 Cite \| Source
AVIDA: An alternating method for visualizing and integrating data (journal article) Dover, Kathryn \| Cang, Zixuan \| Ma, Anna \| Nie, Qing \| Vershynin, Roman Journal of Computational Science, volume 68 (2023). 10.1016/j.jocs.2023.101998 Cited by (1) \| Cite \| Source
Inferring neuron-neuron communications from single-cell transcriptomics through NeuronChat (journal article) Zhao, Wei \| Johnston, Kevin G. \| Ren, Honglei \| Xu, Xiangmin \| Nie, Qing Nature Communications, volume 14, issue 1 (2023). 10.1038/s41467-023-36800-w Cited by (12) \| Cite \| Source
Screening cell–cell communication in spatial transcriptomics via collective optimal transport (journal article) Cang, Zixuan \| Zhao, Yanxiang \| Almet, Axel A. \| Stabell, Adam \| Ramos, Raul \| Plikus, Maksim V. \| Atwood, Scott X. \| Nie, Qing Nature Methods, volume 20, issue 2, pages 218-228 (2023). 10.1038/s41592-022-01728-4 Cited by (58) \| Cite \| Source
Single-cell transcriptomic analysis reveals diversity within mammalian spinal motor neurons (journal article) Liau, Ee Shan \| Jin, Suoqin \| Chen, Yen-Chung \| Liu, Wei-Szu \| Calon, Maëliss \| Nedelec, Stéphane \| Nie, Qing \| Chen, Jun-An Nature Communications, volume 14, issue 1 (2023). 10.1038/s41467-022-35574-x Cited by (12) \| Cite \| Source
NEURALGENE: INFERRING GENE REGULATION AND CELL-FATE DYNAMICS FROM NEURAL ODES (journal article) Sha, Yutong \| Qiu, Yuchi \| Nie, Qing Journal of Machine Learning for Modeling and Computing, volume 4, issue 3, pages 1-15 (2023). 10.1615/JMachLearnModelComput.2023047369 Cite \| Source
Supervised Optimal Transport (journal article) Cang, Zixuan \| Nie, Qing \| Zhao, Yanxiang SIAM Journal on Applied Mathematics, volume 82, issue 5, pages 1851-1877 (2022). 10.1137/22M1469171 Cited by (1) \| Cite \| Source
spliceJAC : transition genes and state‐specific gene regulation from single‐cell transcriptome data (journal article) Bocci, Federico \| Zhou, Peijie \| Nie, Qing Molecular Systems Biology, volume 18, issue 11 (2022). 10.15252/msb.202211176 Cited by (12) \| Cite \| Source
Analyzing network diversity of cell–cell interactions in COVID-19 using single-cell transcriptomics (journal article) Wang, Xinyi \| Almet, Axel A. \| Nie, Qing Frontiers in Genetics, volume 13 (2022). 10.3389/fgene.2022.948508 Cite \| Source
Wound healing in aged skin exhibits systems-level alterations in cellular composition and cell-cell communication (journal article) Vu, Remy \| Jin, Suoqin \| Sun, Peng \| Haensel, Daniel \| Nguyen, Quy Hoa \| Dragan, Morgan \| Kessenbrock, Kai \| Nie, Qing \| Dai, Xing Cell Reports, volume 40, issue 5, pages 111155- (2022). 10.1016/j.celrep.2022.111155 Cited by (42) \| Cite \| Source

Title	Investigators	Year	Cost	Agency
Mathematical, Computational and Systems Biology	Lander, Arthur D \| NIE, Qing	2020	$382,295	NATIONAL INSTITUTE OF GENERAL MEDICAL SCIENCES
Spatial Dynamics of Tissue and Organ Size Control	Calof, Anne Leighton \| Lander, Arthur D \| NIE, Qing	2019	$419,073	NATIONAL INSTITUTE OF NEUROLOGICAL DISORDERS AND STROKE
Mathematical, Computational and Systems Biology	Lander, Arthur D \| NIE, Qing	2019	$255,993	NATIONAL INSTITUTE OF BIOMEDICAL IMAGING AND BIOENGINEERING
Spatial Dynamics of Tissue and Organ Size Control	Calof, Anne Leighton \| Lander, Arthur D \| NIE, Qing	2018	$419,073	NATIONAL INSTITUTE OF NEUROLOGICAL DISORDERS AND STROKE
Mathematical, Computational and Systems Biology	Lander, Arthur D \| NIE, Qing	2018	$254,425	NATIONAL INSTITUTE OF BIOMEDICAL IMAGING AND BIOENGINEERING
Stochastic Dynamics and Noise Control in Patterning Systems	NIE, Qing \| Schilling, Thomas F	2017	$320,478	NATIONAL INSTITUTE OF GENERAL MEDICAL SCIENCES
Spatial Dynamics of Tissue and Organ Size Control	Calof, Anne Leighton \| Lander, Arthur D \| NIE, Qing	2017	$419,073	NATIONAL INSTITUTE OF NEUROLOGICAL DISORDERS AND STROKE
Mathematical, Computational and Systems Biology	Lander, Arthur D \| NIE, Qing	2017	$249,388	NATIONAL INSTITUTE OF BIOMEDICAL IMAGING AND BIOENGINEERING
Spatial Dynamics of Tissue and Organ Size Control	Calof, Anne Leighton \| Lander, ARTHUR D (contact) \| NIE, Qing	2016	$419,073	NATIONAL INSTITUTE OF NEUROLOGICAL DISORDERS AND STROKE
Mathematical, Computational and Systems Biology	Lander, ARTHUR D (contact) \| NIE, Qing	2016	$246,998	NATIONAL INSTITUTE OF BIOMEDICAL IMAGING AND BIOENGINEERING
Spatial Dynamics of Tissue and Organ Size Control	Calof, Anne Leighton \| Lander, ARTHUR D (contact) \| NIE, Qing	2015	$443,815	NATIONAL INSTITUTE OF NEUROLOGICAL DISORDERS AND STROKE
Mathematical, Computational and Systems Biology	Lander, ARTHUR D (contact) \| NIE, Qing	2015	$243,707	NATIONAL INSTITUTE OF BIOMEDICAL IMAGING AND BIOENGINEERING
Mathematical, Computational and Systems Biology	Lander, ARTHUR D (contact) \| NIE, Qing	2013	$206,202	NATIONAL INSTITUTE OF BIOMEDICAL IMAGING AND BIOENGINEERING
Mathematical, Computational and Systems Biology	Lander, ARTHUR D (contact) \| NIE, Qing	2012	$230,869	NATIONAL INSTITUTE OF BIOMEDICAL IMAGING AND BIOENGINEERING
Mathematical, Computational and Systems Biology	Lander, ARTHUR D (contact) \| NIE, Qing	2011	$226,450	NATIONAL INSTITUTE OF BIOMEDICAL IMAGING AND BIOENGINEERING
Mathematical, Computational and Systems Biology	Lander, ARTHUR D (contact) \| NIE, Qing	2010	$225,348	NATIONAL INSTITUTE OF BIOMEDICAL IMAGING AND BIOENGINEERING
Mathematical, Computational and Systems Biology	Lander, ARTHUR D (contact) \| NIE, Qing	2009	$222,406	NATIONAL INSTITUTE OF BIOMEDICAL IMAGING AND BIOENGINEERING
Specificity and Spatial Dynamics of Cell Signaling: The*	NIE, Qing	2008	$266,787	NATIONAL INSTITUTE OF GENERAL MEDICAL SCIENCES
Specificity and Spatial Dynamics of Cell Signaling: The*	NIE, Qing	2007	$277,319	NATIONAL INSTITUTE OF GENERAL MEDICAL SCIENCES
Specificity and Spatial Dynamics of Cell Signaling: The*	NIE, Qing	2006	$286,903	NATIONAL INSTITUTE OF GENERAL MEDICAL SCIENCES
Specificity and Spatial Dynamics of Cell Signaling: The*	NIE, Qing	2005	$299,564	NATIONAL INSTITUTE OF GENERAL MEDICAL SCIENCES