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Wyświetlanie 1-10 z 16952
Tytuł:
Quantifying the clusterness and trajectoriness of single-cell RNA-seq data.
Autorzy:
Lim HS; Wallace H. Coulter Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, Atlanta, Georgia, United States of America.
Qiu P; Wallace H. Coulter Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, Atlanta, Georgia, United States of America.
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Źródło:
PLoS computational biology [PLoS Comput Biol] 2024 Feb 28; Vol. 20 (2), pp. e1011866. Date of Electronic Publication: 2024 Feb 28 (Print Publication: 2024).
Typ publikacji:
Journal Article
MeSH Terms:
Single-Cell Gene Expression Analysis*
Single-Cell Analysis*
Sequence Analysis, RNA ; Algorithms ; Cluster Analysis ; Gene Expression Profiling
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknie Pełny tekstSzczegóły
Tytuł:
A novel batch-effect correction method for scRNA-seq data based on Adversarial Information Factorization.
Autorzy:
Monnier L; Paris-Saclay University, CentraleSupélec, Laboratory of Mathematics and Computer Science (MICS), Gif-sur-Yvette, France.
Cournède PH; Paris-Saclay University, CentraleSupélec, Laboratory of Mathematics and Computer Science (MICS), Gif-sur-Yvette, France.
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Źródło:
PLoS computational biology [PLoS Comput Biol] 2024 Feb 22; Vol. 20 (2), pp. e1011880. Date of Electronic Publication: 2024 Feb 22 (Print Publication: 2024).
Typ publikacji:
Journal Article
MeSH Terms:
Single-Cell Gene Expression Analysis*
Single-Cell Analysis*/methods
Humans ; Cluster Analysis ; Exome Sequencing ; Benchmarking ; Sequence Analysis, RNA/methods ; Gene Expression Profiling ; Algorithms
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknie Pełny tekstSzczegóły
Tytuł:
cnnImpute: missing value recovery for single cell RNA sequencing data.
Autorzy:
Zhang W; MidSouth Bioinformatics Center and Joint Bioinformatics Graduate Program, University of Arkansas at Little Rock, University of Arkansas for Medical Sciences, Little Rock, 72204, AR, USA.; Department of Information Science, University of Arkansas at Little Rock, Little Rock, 72204, AR, USA.
Huckaby B; Department of Computer Science, University of Arkansas at Little Rock, Little Rock, 72204, AR, USA.
Talburt J; Department of Information Science, University of Arkansas at Little Rock, Little Rock, 72204, AR, USA.
Weissman S; Department of Genetics, Yale School of Medicine, New Haven, 06520, CT, USA.
Yang MQ; MidSouth Bioinformatics Center and Joint Bioinformatics Graduate Program, University of Arkansas at Little Rock, University of Arkansas for Medical Sciences, Little Rock, 72204, AR, USA. .; Department of Information Science, University of Arkansas at Little Rock, Little Rock, 72204, AR, USA. .
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Źródło:
Scientific reports [Sci Rep] 2024 Feb 16; Vol. 14 (1), pp. 3946. Date of Electronic Publication: 2024 Feb 16.
Typ publikacji:
Journal Article
MeSH Terms:
Gene Expression Profiling*/methods
Single-Cell Analysis*/methods
Sequence Analysis, RNA/methods ; Exome Sequencing ; Probability ; Cluster Analysis ; RNA
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknie Pełny tekstSzczegóły
Tytuł:
sc2MeNetDrug: A computational tool to uncover inter-cell signaling targets and identify relevant drugs based on single cell RNA-seq data.
Autorzy:
Feng J; Institute for Informatics (I2), Washington University School of Medicine, Washington University in St. Louis, St. Louis, Missouri, United States of America.; Department of Computer Science and Engineering, Washington University in St. Louis, St. Louis, Missouri, United States of America.
Goedegebuure SP; Department of Surgery, Washington University in St. Louis, St. Louis, Missouri, United States of America.; Siteman Cancer Center, Washington University in St. Louis, St. Louis, Missouri, United States of America.
Zeng A; Department of Computer Science and Engineering, Washington University in St. Louis, St. Louis, Missouri, United States of America.
Bi Y; Department of Surgery, Washington University in St. Louis, St. Louis, Missouri, United States of America.
Wang T; Department of Genetics, Washington University in St. Louis, St. Louis, Missouri, United States of America.; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, Missouri, United States of America.
Payne P; Institute for Informatics (I2), Washington University School of Medicine, Washington University in St. Louis, St. Louis, Missouri, United States of America.
Ding L; Siteman Cancer Center, Washington University in St. Louis, St. Louis, Missouri, United States of America.; Department of Genetics, Washington University in St. Louis, St. Louis, Missouri, United States of America.; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, Missouri, United States of America.; Department of Medicine, Washington University in St. Louis, St. Louis, Missouri, United States of America.
DeNardo D; Department of Surgery, Washington University in St. Louis, St. Louis, Missouri, United States of America.; Siteman Cancer Center, Washington University in St. Louis, St. Louis, Missouri, United States of America.
Hawkins W; Department of Surgery, Washington University in St. Louis, St. Louis, Missouri, United States of America.; Siteman Cancer Center, Washington University in St. Louis, St. Louis, Missouri, United States of America.
Fields RC; Department of Surgery, Washington University in St. Louis, St. Louis, Missouri, United States of America.; Siteman Cancer Center, Washington University in St. Louis, St. Louis, Missouri, United States of America.
Li F; Institute for Informatics (I2), Washington University School of Medicine, Washington University in St. Louis, St. Louis, Missouri, United States of America.; Department of Pediatrics, Washington University School of Medicine, Washington University in St. Louis, St. Louis, Missouri, United States of America.
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Źródło:
PLoS computational biology [PLoS Comput Biol] 2024 Jan 05; Vol. 20 (1), pp. e1011785. Date of Electronic Publication: 2024 Jan 05 (Print Publication: 2024).
Typ publikacji:
Journal Article
MeSH Terms:
Software*
Single-Cell Analysis*
RNA-Seq ; Sequence Analysis, RNA ; Gene Expression Profiling ; Signal Transduction/genetics
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknie Pełny tekstSzczegóły
Tytuł:
De novo identification of expressed cancer somatic mutations from single-cell RNA sequencing data.
Autorzy:
Zhang T; Department of Hepatobiliary and Pancreatic Surgery, First Affiliated Hospital, Zhejiang University School of Medicine, Hangzhou, 311121, Zhejiang Province, China.; Liangzhu Laboratory, Zhejiang University, 1369 West Wenyi Road, Hangzhou, Zhejiang Province, 311121, China.
Jia H; Liangzhu Laboratory, Zhejiang University, 1369 West Wenyi Road, Hangzhou, Zhejiang Province, 311121, China.; Kidney Disease Center, the First Affiliated Hospital, Zhejiang University School of Medicine, Zhejiang, 311121, China.
Song T; Liangzhu Laboratory, Zhejiang University, 1369 West Wenyi Road, Hangzhou, Zhejiang Province, 311121, China.
Lv L; Liangzhu Laboratory, Zhejiang University, 1369 West Wenyi Road, Hangzhou, Zhejiang Province, 311121, China.
Gulhan DC; Department of Biomedical Informatics, Harvard Medical School, Boston, MA, 02115, USA.
Wang H; College of Computer Science, Zhejiang University, Hangzhou, 311121, Zhejiang, China.
Guo W; Zhejiang University-University of Edinburgh Institute, School of Medicine, Zhejiang University, Jiaxing, 314400, China.
Xi R; School of Mathematical Sciences and Center for Statistical Science, Peking University, 5 Yiheyuan Road, Beijing, 100871, China.
Guo H; Liangzhu Laboratory, Zhejiang University, 1369 West Wenyi Road, Hangzhou, Zhejiang Province, 311121, China.; Bone Marrow Transplantation Center, The First Affiliated Hospital, Zhejiang University School of Medicine, Hangzhou, 310003, Zhejiang, China.
Shen N; Department of Hepatobiliary and Pancreatic Surgery, First Affiliated Hospital, Zhejiang University School of Medicine, Hangzhou, 311121, Zhejiang Province, China. .; Liangzhu Laboratory, Zhejiang University, 1369 West Wenyi Road, Hangzhou, Zhejiang Province, 311121, China. .
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Źródło:
Genome medicine [Genome Med] 2023 Dec 18; Vol. 15 (1), pp. 115. Date of Electronic Publication: 2023 Dec 18.
Typ publikacji:
Journal Article
MeSH Terms:
Single-Cell Analysis*/methods
Melanoma*/genetics
Humans ; Reproducibility of Results ; Sequence Analysis, RNA/methods ; Mutation ; Gene Expression Profiling/methods ; Cluster Analysis ; Software
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknie Pełny tekstSzczegóły
Tytuł:
A cell abundance analysis based on efficient PAM clustering for a better understanding of the dynamics of endometrial remodelling.
Autorzy:
Domingo J; Department of Informatics, ETSE, University of Valencia, Avda. de la Universidad, s/n, 46100, Burjasot, Valencia, Spain. .
Kutsyr-Kolesnyk O; Department of Statistics and Operations Research, University of Valencia, Avda. Vicente Andres Estelles, 46100, Burjasot, Valencia, Spain.
Leon T; Department of Statistics and Operations Research, University of Valencia, Avda. Vicente Andres Estelles, 46100, Burjasot, Valencia, Spain.
Perez-Moraga R; Carlos Simon Foundation, INCLIVA Health Research Institute, Eduardo Primo Yufera, 46012, Valencia, Valencia, Spain.; Igenomix R&D, Technology Park, 46980, Paterna, Valencia, Spain.
Ayala G; Department of Statistics and Operations Research, University of Valencia, Avda. Vicente Andres Estelles, 46100, Burjasot, Valencia, Spain.
Roson B; Carlos Simon Foundation, INCLIVA Health Research Institute, Eduardo Primo Yufera, 46012, Valencia, Valencia, Spain. .
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Źródło:
BMC bioinformatics [BMC Bioinformatics] 2023 Nov 22; Vol. 24 (1), pp. 440. Date of Electronic Publication: 2023 Nov 22.
Typ publikacji:
Journal Article
MeSH Terms:
Single-Cell Analysis*/methods
Endometrium*
Female ; Humans ; Sequence Analysis, RNA/methods ; Cluster Analysis ; Gene Expression Profiling/methods
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknie Pełny tekstSzczegóły
Tytuł:
A novel f-divergence based generative adversarial imputation method for scRNA-seq data analysis.
Autorzy:
Si T; Department of Mathematics and Statistics, Saint Louis University, St. Louis, MO, United States of America.
Hopkins Z; Department of Computer Science, Saint Louis University, St. Louis, MO, United States of America.
Yanev J; Department of Computer Science, Saint Louis University, St. Louis, MO, United States of America.
Hou J; Department of Computer Science, Saint Louis University, St. Louis, MO, United States of America.
Gong H; Department of Mathematics and Statistics, Saint Louis University, St. Louis, MO, United States of America.
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Źródło:
PloS one [PLoS One] 2023 Nov 10; Vol. 18 (11), pp. e0292792. Date of Electronic Publication: 2023 Nov 10 (Print Publication: 2023).
Typ publikacji:
Journal Article; Research Support, N.I.H., Extramural
MeSH Terms:
Single-Cell Gene Expression Analysis*
Single-Cell Analysis*/methods
Humans ; Algorithms ; Exome Sequencing ; Data Analysis ; Sequence Analysis, RNA/methods ; Gene Expression Profiling ; Software
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknie Pełny tekstSzczegóły
Tytuł:
A new and effective two-step clustering approach for single cell RNA sequencing data.
Autorzy:
Li R; Translational Medical Center for Stem Cell Therapy, Shanghai East Hospital, and School of Medicine, Tongji University, 1239 Siping Road, 200092, Shanghai, China.; Department of Computer Science and Technology, Tongji University, 4800 Caoan Road, 201804, Shanghai, China.
Guan J; Department of Computer Science and Technology, Tongji University, 4800 Caoan Road, 201804, Shanghai, China. .
Wang Z; Department of Computer Science and Technology, Tongji University, 4800 Caoan Road, 201804, Shanghai, China.
Zhou S; Shanghai Key Lab of Intelligent Information Processing, and School of Computer Science, Fudan University, 2005 Songhu Road, 200438, Shanghai, China. .
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Źródło:
BMC genomics [BMC Genomics] 2023 Nov 09; Vol. 23 (Suppl 6), pp. 864. Date of Electronic Publication: 2023 Nov 09.
Typ publikacji:
Journal Article
MeSH Terms:
Gene Expression Profiling*/methods
Single-Cell Analysis*/methods
Sequence Analysis, RNA/methods ; Cluster Analysis ; Data Analysis ; Algorithms
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknie Pełny tekstSzczegóły
Tytuł:
ScLSTM: single-cell type detection by siamese recurrent network and hierarchical clustering.
Autorzy:
Jiang H; Key Laboratory of Image Information Processing and Intelligent Control of Education Ministry of China, Institute of Artificial Intelligence, School of Artificial Intelligence and Automation, Huazhong University of Science and Technology, Wuhan, 430074, China.
Huang Y; Department of Pathology, Renmin Hospital of Wuhan University, Wuhan, 430060, China. .
Li Q; Institute of Automation, Chinese Academy of Sciences, Beijing, 100190, China.
Feng B; Key Laboratory of Image Information Processing and Intelligent Control of Education Ministry of China, Institute of Artificial Intelligence, School of Artificial Intelligence and Automation, Huazhong University of Science and Technology, Wuhan, 430074, China.
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Źródło:
BMC bioinformatics [BMC Bioinformatics] 2023 Nov 07; Vol. 24 (1), pp. 417. Date of Electronic Publication: 2023 Nov 07.
Typ publikacji:
Journal Article
MeSH Terms:
Gene Expression Profiling*/methods
Single-Cell Analysis*/methods
Humans ; Sequence Analysis, RNA/methods ; Cluster Analysis ; Algorithms
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknie Pełny tekstSzczegóły
Tytuł:
Single-cell Mayo Map (scMayoMap): an easy-to-use tool for cell type annotation in single-cell RNA-sequencing data analysis.
Autorzy:
Yang L; Division of Computational Biology, Department of Quantitative Health Sciences, Mayo Clinic, Rochester, MN, 55905, USA.; Center for Individualized Medicine, Mayo Clinic, Rochester, MN, 55905, USA.
Ng YE; Robert and Arlene Kogod Center On Aging, Mayo Clinic, Rochester, MN, 55905, USA.
Sun H; Department of Biochemistry and Microbiology, Rutgers University, New Brunswick, NJ, 08901, USA.
Li Y; Department of Quantitative Health Sciences, Mayo Clinic, Jacksonville, FL, 32224, USA.
Chini LCS; Robert and Arlene Kogod Center On Aging, Mayo Clinic, Rochester, MN, 55905, USA.
LeBrasseur NK; Robert and Arlene Kogod Center On Aging, Mayo Clinic, Rochester, MN, 55905, USA. .; Department of Physical Medicine and Rehabilitation, Mayo Clinic, Rochester, MN, 55905, USA. .
Chen J; Division of Computational Biology, Department of Quantitative Health Sciences, Mayo Clinic, Rochester, MN, 55905, USA. .; Center for Individualized Medicine, Mayo Clinic, Rochester, MN, 55905, USA. .
Zhang X; Robert and Arlene Kogod Center On Aging, Mayo Clinic, Rochester, MN, 55905, USA. .; Department of Biochemistry and Molecular Biology, Mayo Clinic, Rochester, MN, 55905, USA. .
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Źródło:
BMC biology [BMC Biol] 2023 Oct 20; Vol. 21 (1), pp. 223. Date of Electronic Publication: 2023 Oct 20.
Typ publikacji:
Journal Article; Research Support, U.S. Gov't, Non-P.H.S.; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't
MeSH Terms:
Software*
Single-Cell Analysis*/methods
Data Analysis ; RNA ; Sequence Analysis, RNA/methods ; Gene Expression Profiling/methods
Czasopismo naukowe
Pełny tekst  Link otwiera się w nowym oknie Pełny tekstSzczegóły
Wyświetlanie 1-10 z 16952

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