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检索条件"主题词=Automation in Bioinformatics"
11 条 记 录,以下是1-10 订阅
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scCATCH: Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
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ISCIENCE 2020年 第3期23卷 100882-100882页
作者: Shao, Xin Liao, Jie Lu, Xiaoyan Xue, Rui Ai, Ni Fan, Xiaohui Zhejiang Univ Coll Pharmaceut Sci Pharmaceut Informat Inst Hangzhou 310058 Peoples R China
Recent advancements in single-cell RNA sequencing (scRNA-seq) have facilitated the classification of thousands of cells through transcriptome profiling, wherein accurate cell type identification is critical for mechan... 详细信息
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EcSeg: Semantic Segmentation of Metaphase Images Containing Extrachromosomal DNA
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ISCIENCE 2019年 第November 22, 2019期21卷 428-+页
作者: Rajkumar, Utkrisht Turner, Kristen Luebeck, Jens Deshpande, Viraj Chandraker, Manmohan Mischel, Paul Bafna, Vineet Univ Calif San Diego Dept Comp Sci & Engn La Jolla CA 92093 USA Univ Calif San Diego Ludwig Inst Canc Res San Diego La Jolla CA USA Univ Calif San Diego Dept Pathol La Jolla CA USA Univ Calif San Diego Moores Canc Ctr La Jolla CA 92093 USA Illumina Inc 5200 Illumina Way San Diego CA USA
Oncogene amplification is one of the most common drivers of genetic events in cancer, potently promoting tumor development, growth, and progression. The recent discovery that oncogene amplification commonly occurs on ... 详细信息
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eDetect: A Fast Error Detection and Correction Tool for Live Cell Imaging Data Analysis
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ISCIENCE 2019年 第March 29, 2019期13卷 1-+页
作者: Han, Hongqing Wu, Guoyu Li, Yuchao Zi, Zhike Max Planck Inst Mol Genet Otto Warburg Lab D-14195 Berlin Germany
Live cell imaging has been widely used to generate data for quantitative understanding of cellular dynamics. Various applications have been developed to perform automated imaging data analysis, which often requires te... 详细信息
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Predicting Human Olfactory Perception from Activities of Odorant Receptors
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ISCIENCE 2020年 第8期23卷 101361页
作者: Kowalewski, Joel Ray, Anandasankar Univ Calif Riverside Interdept Neurosci Program Riverside CA 92521 USA Univ Calif Riverside Dept Mol Cell & Syst Biol 3401 Watkins Dr Riverside CA 92521 USA
Odor perception in humans is initiated by activation of odorant receptors (ORs) in the nose. However, the ORs linked to specific olfactory percepts are unknown, unlike in vision or taste where receptors are linked to ... 详细信息
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Generic medical concept embedding and time decay for diverse patient outcome prediction tasks
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ISCIENCE 2022年 第9期25卷 104880页
作者: Li, Yupeng Dong, Wei Ru, Boshu Black, Adam Zhang, Xinyuan Guan, Yuanfang Merck & Co Inc Rahway NJ 07065 USA Arbor Algorithms Inc Ann Arbor MI 48104 USA Odysseus Data Serv Cambridge MA 02142 USA Univ Michigan Dept Computat Med & Bioinformat Ann Arbor MI 48109 USA RVAC Med Inc Waltham MA 02451 USA
Many fields, including Natural Language Processing (NLP), have recently witnessed the benefit of pre-training with large generic datasets to improve the accuracy of prediltion tasks. However, there exist key differenc... 详细信息
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Deep learning predicts chromosomal instability from histopathology images
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ISCIENCE 2021年 第5期24卷 102394页
作者: Xu, Zhuoran Verma, Akanksha Naveed, Uska Bakhoum, Samuel F. Khosravi, Pegah Elemento, Olivier Weill Cornell Med Caryl & Israel Englander Inst Precis Med New York NY 10065 USA Weill Cornell Med Pathol & Lab Med New York NY 10065 USA Mem Sloan Kettering Canc Ctr Human Oncol & Pathogenesis Program New York NY 10021 USA Mem Sloan Kettering Canc Ctr Dept Radiat Oncol New York NY 10021 USA Mem Sloan Kettering Canc Ctr Dept Epidemiol & Biostat Computat Oncol New York NY 10021 USA
Chromosomal instability (CIN)is a hallmark of human cancer yet not readily testable for patients with cancer in routine clinical setting. In this study, we sought to explore whether CIN status can be predicted using u... 详细信息
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Generative pretraining from large-scale transcriptomes for single-cell deciphering
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ISCIENCE 2023年 第5期26卷 106536页
作者: Shen, Hongru Liu, Jilei Hu, Jiani Shen, Xilin Zhang, Chao Wu, Dan Feng, Mengyao Yang, Meng Li, Yang Yang, Yichen Wang, Wei Zhang, Qiang Yang, Jilong Chen, Kexin Li, Xiangchun Tianjin Med Univ Tianjin Med Univ Canc Inst & Hosp Tianjin Canc Inst Tianjins Clin Res Ctr CancNatl Clin Res Ctr Canc Tianjin Peoples R China Tianjin Med Univ Tianjin Med Univ Canc Inst & Hosp Dept Bone & Soft Tissue Tumor Tianjins Clin Res Ctr CancNatl Clin Res Ctr Canc Tianjin Peoples R China Tianjin Med Univ Tianjin Med Univ Canc Inst & Hosp Dept Epidemiol & Biostat Natl Clin Res Ctr CancKey Lab Mol Canc Epidemiol Tianjin Peoples R China Tianjin Med Univ Tianjin Med Univ Canc Inst & Hosp Tianjins Clin Res Ctr Canc Dept Maxillofacial & Otorhinolaryngol OncolNatl C Tianjin Peoples R China
Exponential accumulation of single-cell transcriptomes poses great challenge for efficient assimilation. Here, we present an approach entitled generative pretrain-ing from transcriptomes (tGPT) for learning feature re... 详细信息
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ADEPT: Autoencoder with differentially expressed genes and imputation for robust spatial transcriptomics clustering
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ISCIENCE 2023年 第6期26卷 106792页
作者: Hu, Yunfei Zhao, Yuying Schunk, Curtis T. Ma, Yingxiang Derr, Tyler Zhou, Xin Maizie Vanderbilt Univ Dept Comp Sci Nashville TN 37235 USA Vanderbilt Univ Dept Biomed Engn Nashville TN 37235 USA Vanderbilt Univ Data Sci Inst Nashville TN 37235 USA
Advancements in spatial transcriptomics (ST) have enabled an in-depth understanding of complex tissues by quantifying gene expression at spatially localized spots. Several notable clustering methods have been introduc... 详细信息
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New open-source software for subcellular segmentation and analysis of spatiotemporal fluorescence signals using deep learning
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ISCIENCE 2022年 第5期25卷 104277页
作者: Kamran, Sharif Amit Hossain, Khondker Fariha Moghnieh, Hussein Riar, Sarah Bartlett, Allison Tavakkoli, Alireza Sanders, Kenton M. Baker, Salah A. Univ Nevada Reno Sch Med Dept Physiol & Cell Biol Anderson Med Bldg MS352 Reno NV 89557 USA Univ Nevada Dept Comp Sci & Engn Reno NV 89557 USA McGill Univ Dept Elect & Comp Engn Montreal PQ H3A 0E9 Canada
Cellular imaging instrumentation advancements as well as readily available optogenetic and fluorescence sensors have yielded a profound need for fast, accurate, and standardized analysis. Deep-learning architectures h... 详细信息
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Dimensionality reduction by UMAP for visualizing and aiding in classification of imaging flow cytometry data
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ISCIENCE 2022年 第10期25卷 105142页
作者: Stolarek, Ireneusz Samelak-Czajka, Anna Figlerowicz, Marek Jackowiak, Paulina Polish Acad Sci Inst Bioorgan Chem Noskowskiego 12-14 PL-61704 Poznan Poland
Recent advances in imaging flow cytometry (IFC) have revolutionized high-throughput multiparameter analyses at single-cell resolution. Although enabling the discovery of population heterogeneities and the detection of... 详细信息
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