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science & technology (33) 33
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1. Full Text An accurate and robust imputation method scImpute for single-cell RNA-seq data
by Li, Wei Vivian and Li, Wei Vivian and Li, Jingyi Jessica and Li, Jingyi Jessica
Nature communications, ISSN 2041-1723, 03/2018, Volume 9, Issue 1, pp. 997 - 9
Science & Technology - Other Topics | Multidisciplinary Sciences | Science & Technology | Data Interpretation, Statistical | Algorithms | Animals | Sequence Analysis, RNA | Humans | Gene Expression Profiling | RNA - chemistry | Single-Cell Analysis | RNA - genetics | Subpopulations | Data analysis | Dynamic tests | Data processing | Dropouts | Gene expression | Clustering | Ribonucleic acid--RNA | Gene sequencing | Index Medicus
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2. Full Text Statistics requantitates the central dogma
by Li, Jingyi Jessica and Biggin, Mark D
Science (American Association for the Advancement of Science), ISSN 0036-8075, 03/2015, Volume 347, Issue 6226, pp. 1066 - 1067
Science & Technology - Other Topics | Multidisciplinary Sciences | Science & Technology | Proteins | Molecules | Mammals | MicroRNAs | Degradation | Ribonucleic acids | Abundance | Lithium | Translations | Statistics
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3. Full Text A new bioinformatics tool to recover missing gene expression in single-cell RNA sequencing data
by Li, Jingyi Jessica
Journal of molecular cell biology, ISSN 1674-2788, 02/2021
Index Medicus
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4. Full Text Correspondence of D. melanogaster and C. elegans developmental stages revealed by alternative splicing characteristics of conserved exons
by Gao, Ruiqi and Li, Jingyi Jessica
BMC genomics, ISSN 1471-2164, 03/2017, Volume 18, Issue 1, pp. 234 - 234
C. elegans | Developmental stages | Cassette exons | Comparative transcriptomics | ModENCODE | Conserved alternative splicing | D. melanogaster | Genetics & Heredity | Life Sciences & Biomedicine | Biotechnology & Applied Microbiology | Science & Technology | Computational Biology - methods | Alternative Splicing | Caenorhabditis elegans - growth & development | Caenorhabditis elegans - genetics | Exons | Molecular Sequence Annotation | Transcriptome | Gene Expression Profiling | Drosophila melanogaster - genetics | Life Cycle Stages - genetics | Organ Specificity - genetics | Animals | Gene Expression Regulation, Developmental | Drosophila melanogaster - growth & development | Genome | Genomics - methods | Gene Ontology | Cluster Analysis | Evolution, Molecular | Biological properties | Larvae | Alternative splicing | Similarity | Genomics | Mapping | Biology | Genomes | Organisms | Statistical methods | Tissues | Biological samples | Cell adhesion & migration | Gene sequencing | Annotations | Maps | Deoxyribonucleic acid--DNA | Splicing | Nucleotide sequence | Cell division | Ribonucleic acid--RNA | Gene expression | Embryos | Studies | Cell lines | Correspondence | Adults | Life cycles | Index Medicus
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5. Full Text Cellular Heterogeneity-Adjusted cLonal Methylation (CHALM) improves prediction of gene expression
by Xu, Jianfeng and Shi, Jiejun and Cui, Xiaodong and Cui, Ya and Li, Jingyi Jessica and Goel, Ajay and Chen, Xi and Issa, Jean-Pierre and Su, Jianzhong and Li, Wei
Nature communications, ISSN 2041-1723, 01/2021, Volume 12, Issue 1, pp. 400 - 400
Science & Technology - Other Topics | Multidisciplinary Sciences | Science & Technology | DNA Methylation | Datasets as Topic | Epigenomics - methods | RNA-Seq | Epigenesis, Genetic | Humans | CpG Islands - genetics | Histones | Promoter Regions, Genetic - genetics | Chromatin Immunoprecipitation Sequencing | Deep Learning | Gene silencing | Heterogeneity | Correlation | Genes | Data sets | DNA methylation | Gene expression | Methylation | Deoxyribonucleic acid--DNA | Index Medicus
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6. Full Text A statistical simulator scDesign for rational scRNA-seq experimental design
by Li, Wei Vivian and Li, Jingyi Jessica
Bioinformatics, ISSN 1367-4803, 07/2019, Volume 35, Issue 14, pp. i41 - i50
Index Medicus | Eccb 2019 Conference Proceedings | Ismb
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7. Full Text System wide analyses have underestimated protein abundances and the importance of transcription in mammals
by Li, Jingyi Jessica and Bickel, Peter J and Biggin, Mark D
PeerJ (San Francisco, CA), ISSN 2167-8359, 2014, Volume 2013, Issue 1, pp. 1 - 26
Protein abundance | Translation | Transcription | Gene expression | Mass spectrometry | Science & Technology - Other Topics | Multidisciplinary Sciences | Science & Technology | Surveys | Proteins | RNA | Proteolysis | Analysis | Genetic research | Genetic transcription | Genetic translation | Cell culture | Transcription factors | Genomics | Tissue culture | Biology | Estimates | Datasets | Protein synthesis | MicroRNAs | Stem cells | Protein expression | Scientific imaging | Proteomes | Deoxyribonucleic acid--DNA | Quantitative Biology - Genomics
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8. Full Text Comparison of D. melanogaster and C. elegans developmental stages, tissues, and cells by modENCODE RNA-seq data
by Li, Jingyi Jessica and Huang, Haiyan and Bickel, Peter J and Brenner, Steven E
Genome research, ISSN 1088-9051, 2014, Volume 24, Issue 7, pp. 1086 - 1101
Biochemistry & Molecular Biology | Genetics & Heredity | Life Sciences & Biomedicine | Biotechnology & Applied Microbiology | Science & Technology | Computational Biology - methods | Drosophila melanogaster - embryology | Caenorhabditis elegans - growth & development | Caenorhabditis elegans - genetics | Molecular Sequence Annotation | Embryonic Development - genetics | Transcriptome | Male | Gene Expression Profiling | Caenorhabditis elegans - embryology | Drosophila melanogaster - genetics | Life Cycle Stages - genetics | Organ Specificity - genetics | Animals | Gene Expression Regulation, Developmental | Drosophila melanogaster - growth & development | Female | High-Throughput Nucleotide Sequencing | Cluster Analysis | Cartography | Usage | RNA | Gene expression | Analysis | Index Medicus | Research
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9. Full Text NMFP: A non-negative matrix factorization based preselection method to increase accuracy of identifying mRNA isoforms from RNA-seq data
by Ye, Yuting and Li, Jingyi Jessica
BMC genomics, ISSN 1471-2164, 01/2016, Volume 17, Issue 1, pp. 11 - 11
mRNA isoform discovery | Cufflinks | SLIDE | Next-generation RNA sequencing (RNA-seq) | Non-negative matrix factorization (NMF) | Computational Biology - methods | RNA Splicing | Algorithms | Animals | RNA Isoforms - genetics | Sequence Analysis, RNA | RNA Isoforms - metabolism | RNA, Messenger - genetics | High-Throughput Nucleotide Sequencing | Mice | RNA, Messenger - metabolism | Drosophila melanogaster - genetics | RNA sequencing | Usage | Messenger RNA | Research | Genetic transcription | Analysis | Index Medicus
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10. Full Text Quantitative principles of cis-translational control by general mRNA sequence features in eukaryotes
by Li, Jingyi Jessica and Chew, Guo-Liang and Biggin, Mark Douglas and Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
Genome biology, ISSN 1474-760X, 08/2019, Volume 20, Issue 1, pp. 162 - 162
Genetics & Heredity | Life Sciences & Biomedicine | Biotechnology & Applied Microbiology | Science & Technology | Arabidopsis - genetics | Schizosaccharomyces - genetics | Protein Biosynthesis | Animals | Nucleotide Motifs | Saccharomyces cerevisiae - genetics | Humans | Gene Expression Regulation | RNA, Messenger - chemistry | Mice | Models, Genetic | Nucleic Acid Conformation | Index Medicus | Cis-control | Translation | RNA structure | Collinear regulation | Codon usage
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11. Full Text A bootstrap lasso + partial ridge method to construct confidence intervals for parameters in high-dimensional sparse linear models
by Liu, Hanzhong and Xu, Xin and Li, Jingyi Jessica
Statistica Sinica, ISSN 1017-0405, 07/2020, Volume 30, Issue 3, pp. 1333 - 1355
Model selection consistency | Bootstrap | High-dimensional inference | Lasso+partial ridge | Confidence interval
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12. Full Text Erratum to: 'NMFP: A non-negative matrix factorization based preselection method to increase accuracy of identifying mRNA isoforms from RNA-seq data' [BMC Genomics. 2016; 17 (Suppl 1) : 11]
by Ye, Yuting and Li, Jingyi Jessica
BMC genomics, ISSN 1471-2164, 04/2016, Volume 17, Issue 1, pp. 296 - 296
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13. Full Text Statistical Hypothesis Testing versus Machine Learning Binary Classification: Distinctions and Guidelines
by Li, Jingyi Jessica and Tong, Xin
Patterns, ISSN 2666-3899, 10/2020, Volume 1, Issue 7, pp. 100115 - 100115
DSML 1: Concept: Basic principles of a new data science output observed and reported
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14. Full Text AIDE: annotation-assisted isoform discovery with high precision
by Li, Wei Vivian and Li, Shan and Tong, Xin and Deng, Ling and Shi, Hubing and Li, Jingyi Jessica
Genome research, ISSN 1088-9051, 12/2019, Volume 29, Issue 12, pp. 2056 - 2072
Biochemistry & Molecular Biology | Genetics & Heredity | Life Sciences & Biomedicine | Biotechnology & Applied Microbiology | Science & Technology | RNA, Messenger - biosynthesis | RNA Isoforms - genetics | Sequence Analysis, RNA | Humans | Molecular Sequence Annotation | RNA, Messenger - genetics | Gene Expression Regulation | Gene Expression Profiling | High-Throughput Nucleotide Sequencing | RNA Isoforms - biosynthesis | Post-transcription | Nucleotide sequence | Computer applications | Isoforms | Genomes | Gene expression | Bioinformatics | Index Medicus | Method
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15. Full Text Erratum to: 'NMFP: a non-negative matrix factorization based preselection method to increase accuracy of identifying mRNA isoforms from RNA-seq data'
by Ye, Yuting and Li, Jingyi Jessica
BMC genomics, 04/2016, Volume 17, p. 296
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