All Stories

  1. Cophenetic Spatial Topology Embedding reveals multiscale tissue architecture in spatial omics

    Article • May 2026, openRxiv

    Dr. Taobo Hu, Professor Mats Nilsson

  2. Spatially resolved T cell receptor diversity mapping uncovers variability of the cancer immune microenvironment

    Article • EBioMedicine, May 2026, Elsevier

    Dr. Taobo Hu

  3. gSV: a general structural variant detector using the third-generation sequencing data

    Article • Briefings in Bioinformatics, May 2026, Oxford University Press (OUP)

    Dr. Taobo Hu

  4. Targeted sequencing of mutations via RNA-templated gap filling of oligonucleotides for single-cell RNA-seq

    Article • April 2026, openRxiv

    Dr. Taobo Hu, Professor Mats Nilsson

  5. gSV: a general structural variant detector using the third-generation sequencing data

    Article • March 2026, openRxiv

    Dr. Taobo Hu

  6. Direct Inference of Haplotypes from Sequencing Data

    Article • Bioinformatics Advances, August 2025, Oxford University Press (OUP)

    Dr. Taobo Hu

  7. Comparing Xenium 5K and Visium HD data from identical tissue slide at a pathological perspective

    Article • Journal of Experimental & Clinical Cancer Research, July 2025, Springer Science + Business Media

    Dr. Taobo Hu

  8. Optimizing Xenium In Situ data utility by quality assessment and best-practice analysis workflows

    Article • Nature Chemical Biology, March 2025, Springer Science + Business Media

    Dr. Taobo Hu

  9. Imaging flow cytometry with a real-time throughput beyond 1,000,000 events per second

    Article • Light Science & Applications, February 2025, Springer Science + Business Media

    Dr. Taobo Hu

  10. MRRM: Advanced Biomarker Alignment in Multi-Staining Pathology Images via Multi-Scale Ring Rotation-Invariant Matching

    Article • IEEE Journal of Biomedical and Health Informatics, February 2025, Institute of Electrical & Electronics Engineers (IEEE)

    Dr. Taobo Hu

  11. BVSim: A benchmarking variation simulator mimicking human variation spectrum

    Article • GigaScience, January 2025, Oxford University Press (OUP)

    Dr. Taobo Hu

  12. Parallel Analyses by Mass Spectrometry (MS) and Reverse Phase Protein Array (RPPA) Reveal Complementary Proteomic Profiles in Triple‐Negative Breast Cancer (TNBC) Patient Tissues and Cell Cultures

    Article • PROTEOMICS, November 2024, Wiley

    Dr. Taobo Hu

  13. cascAGS: Comparative Analysis of SNP Calling Methods for Human Genome Data in the Absence of Gold Standard

    Article • Interdisciplinary Sciences Computational Life Sciences, October 2024, Springer Science + Business Media

    Dr. Taobo Hu

  14. CellSAM: Advancing Pathologic Image Cell Segmentation via Asymmetric Large‐Scale Vision Model Feature Distillation Aggregation Network

    Article • Microscopy Research and Technique, October 2024, Wiley

    Dr. Taobo Hu

  15. Proteomics Landscape of Triple-Negative Apocrine Breast Carcinoma Reveals Molecular Mechanisms of Tumorigenesis and Characteristics of Chemo-insensitivity

    Article • July 2024, Cold Spring Harbor Laboratory Press

    Dr. Taobo Hu

  16. Bridging Discoveries and Treatments: The New Landscape of Breast Cancer Research

    Article • Life, June 2024, MDPI AG

    Dr. Taobo Hu

  17. Parallel Analyses by Mass Spectrometry (MS) and Reverse Phase Protein Array (RPPA) Reveal Complementary Proteomic Profiles in Triple-Negative Breast Cancer (TNBC) Patient Tissues and Cell Cultures

    Article • June 2024, Cold Spring Harbor Laboratory Press

    Dr. Taobo Hu

  18. MSGM: An Advanced Deep Multi-Size Guiding Matching Network for Whole Slide Histopathology Images Addressing Staining Variation and Low Visibility Challenges

    Article • IEEE Journal of Biomedical and Health Informatics, January 2024, Institute of Electrical & Electronics Engineers (IEEE)

    Dr. Taobo Hu

  19. Loss of Human Epidermal Receptor 2 Expression in Formalin-Fixed Paraffin-Embedded Breast Cancer Samples and the Rescuing Effect of Enhanced Antigen Retrieval and Signal Amplification

    Article • Life, December 2023, MDPI AG

    Dr. Taobo Hu

  20. An orientation-free ring feature descriptor with stain-variability normalization for pathology image matching

    Article • Computers in Biology and Medicine, December 2023, Elsevier

    Dr. Taobo Hu

  21. Author Correction: The landscape of viral associations in human cancers

    Article • Nature Genetics, March 2023, Springer Science + Business Media

    Professor Daniel S. Brewer, Dr. Taobo Hu, Dr Elizabeth L Christie

  22. Author Correction: Butler enables rapid cloud-based analysis of thousands of human genomes

    Article • Nature Biotechnology, March 2023, Springer Science + Business Media

    Dr. Taobo Hu

  23. Author Correction: Comprehensive analysis of chromothripsis in 2,658 human cancers using whole-genome sequencing

    Article • Nature Genetics, March 2023, Springer Science + Business Media

    Dr. Taobo Hu, Dr Elizabeth L Christie

  24. Author Correction: Comprehensive molecular characterization of mitochondrial genomes in human cancers

    Article • Nature Genetics, March 2023, Springer Science + Business Media

    Dr. Taobo Hu, Dr Elizabeth L Christie

  25. Author Correction: Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer

    Article • Nature Genetics, March 2023, Springer Science + Business Media

    Dr. Taobo Hu, Dr Elizabeth L Christie

  26. Author Correction: Pan-cancer analysis of whole genomes identifies driver rearrangements promoted by LINE-1 retrotransposition

    Article • Nature Genetics, March 2023, Springer Science + Business Media

    Dr. Taobo Hu, Dr Elizabeth L Christie

  27. Author Correction: Pan-cancer analysis of whole genomes

    Article • Nature, January 2023, Springer Science + Business Media

    Dr. Taobo Hu, Dr Elizabeth L Christie

  28. Author Correction: Analyses of non-coding somatic drivers in 2,658 cancer whole genomes

    Article • Nature, January 2023, Springer Science + Business Media

    Dr. Taobo Hu

  29. Author Correction: Genomic basis for RNA alterations in cancer

    Article • Nature, January 2023, Springer Science + Business Media

    Dr. Taobo Hu

  30. Author Correction: Patterns of somatic structural variation in human cancer genomes

    Article • Nature, January 2023, Springer Science + Business Media

    Dr. Taobo Hu

  31. Author Correction: The evolutionary history of 2,658 cancers

    Article • Nature, January 2023, Springer Science + Business Media

    Dr. Taobo Hu

  32. Author Correction: The repertoire of mutational signatures in human cancer

    Article • Nature, January 2023, Springer Science + Business Media

    Dr. Taobo Hu

  33. Biomarker Alteration after Neoadjuvant Endocrine Therapy or Chemotherapy in Estrogen Receptor-Positive Breast Cancer

    Article • Life, December 2022, MDPI AG

    Dr. Taobo Hu

  34. Author Correction: A deep learning system accurately classifies primary and metastatic cancers using passenger mutation patterns

    Article • Nature Communications, December 2022, Springer Science + Business Media

    Dr. Taobo Hu, Dr Elizabeth L Christie

  35. Author Correction: Combined burden and functional impact tests for cancer driver discovery using DriverPower

    Article • Nature Communications, December 2022, Springer Science + Business Media

    Dr. Taobo Hu, Dr Elizabeth L Christie

  36. Author Correction: Divergent mutational processes distinguish hypoxic and normoxic tumours

    Article • Nature Communications, December 2022, Springer Science + Business Media

    Dr. Taobo Hu, Dr Elizabeth L Christie

  37. Author Correction: Genomic footprints of activated telomere maintenance mechanisms in cancer

    Article • Nature Communications, December 2022, Springer Science + Business Media

    Dr. Taobo Hu, Dr Elizabeth L Christie

  38. Author Correction: Inferring structural variant cancer cell fraction

    Article • Nature Communications, December 2022, Springer Science + Business Media

    Dr. Taobo Hu, Dr Elizabeth L Christie

  39. Author Correction: Integrative pathway enrichment analysis of multivariate omics data

    Article • Nature Communications, December 2022, Springer Science + Business Media

    Dr. Taobo Hu, Dr Elizabeth L Christie

  40. Author Correction: Pathway and network analysis of more than 2500 whole cancer genomes

    Article • Nature Communications, December 2022, Springer Science + Business Media

    Dr. Taobo Hu, Dr Elizabeth L Christie

  41. Author Correction: Reconstructing evolutionary trajectories of mutation signature activities in cancer using TrackSig

    Article • Nature Communications, December 2022, Springer Science + Business Media

    Dr. Taobo Hu, Dr Elizabeth L Christie

  42. Author Correction: High-coverage whole-genome analysis of 1220 cancers reveals hundreds of genes deregulated by rearrangement-mediated cis-regulatory alterations

    Article • Nature Communications, December 2022, Springer Science + Business Media

    Dr. Taobo Hu, Dr Elizabeth L Christie

  43. Author Correction: Cancer LncRNA Census reveals evidence for deep functional conservation of long noncoding RNAs in tumorigenesis

    Article • Communications Biology, December 2022, Springer Science + Business Media

    Dr. Taobo Hu, Andrés Lanzós

  44. Adverse Events of PD-1 or PD-L1 Inhibitors in Triple-Negative Breast Cancer: A Systematic Review and Meta-Analysis

    Article • Life, November 2022, MDPI AG

    Dr. Taobo Hu

  45. Survival in Breast Cancer Patients with Bone Metastasis: A Multicenter Real-World Study on the Prognostic Impact of Intensive Postoperative Bone Scan after Initial Diagnosis of Breast Cancer (CSBrS-023)

    Article • Cancers, November 2022, MDPI AG

    Dr. Taobo Hu

  46. Assessment of accuracy in identifying structural variants using third-generation sequencing for breast cancer in the absence of gold standard

    Article • October 2022, Research Square

    Dr. Taobo Hu

  47. AR Expression Correlates with Distinctive Clinicopathological and Genomic Features in Breast Cancer Regardless of ESR1 Expression Status

    Article • International Journal of Molecular Sciences, September 2022, MDPI AG

    Dr. Taobo Hu

  48. Germline Variants in 32 Cancer-Related Genes among 700 Chinese Breast Cancer Patients by Next-Generation Sequencing: A Clinic-Based, Observational Study

    Article • International Journal of Molecular Sciences, September 2022, MDPI AG

    Dr. Taobo Hu

  49. Two-Dose Vaccination Significantly Prolongs the Duration from Symptom Onset to Death: A Retrospective Study Based on 173,894 SARS-CoV-2 Cases in Khyber Pakhtunkhwa, Pakistan

    Article • International Journal of Environmental Research and Public Health, September 2022, MDPI AG

    Dr. Taobo Hu

  50. Tunable mechanical and degradation properties of biodegradable Mg-Y-Zn alloys via Zn content regulation

    Article • Journal of Materials Research and Technology, August 2022, Elsevier

    Dr. Taobo Hu

  51. HER2-low-positive features a distinct subtype in estrogen receptor-positive breast cancer associated with endocrine therapy resistance

    Article • July 2022, Research Square

    Dr. Taobo Hu

  52. Expression of DNA Helicase Genes Was Correlated with Homologous Recombination Deficiency in Breast Cancer

    Article • Computational and Mathematical Methods in Medicine, July 2022, Hindawi Publishing Corporation

    Dr. Taobo Hu

  53. BM-Net: CNN-Based MobileNet-V3 and Bilinear Structure for Breast Cancer Detection in Whole Slide Images

    Article • Bioengineering, June 2022, MDPI AG

    Dr. Taobo Hu

  54. Androgen receptor expression associates with distinctive clinicopathological and molecular features in ER-positive and ER-negative breast cancer

    Article • June 2022, Research Square

    Dr. Taobo Hu

  55. Intraparenchymal breast leiomyoma and atypical leiomyoma

    Article • BMC Women s Health, April 2022, Springer Science + Business Media

    Dr. Taobo Hu

  56. Detection of Structural Variations and Fusion Genes in Breast Cancer Samples Using Third-Generation Sequencing

    Article • Frontiers in Cell and Developmental Biology, April 2022, Frontiers

    Dr. Taobo Hu

  57. Gene expression trend changes in breast cancer populations over two decades: insights from The Cancer Genome Atlas database

    Article • Hereditas, March 2022, Springer Science + Business Media

    Dr. Taobo Hu

  58. Triple-Negative Apocrine Breast Carcinoma Has Better Prognosis despite Poor Response to Neoadjuvant Chemotherapy

    Article • Journal of Clinical Medicine, March 2022, MDPI AG

    Dr. Taobo Hu

  59. The natural history of breast cancer: a chronological analysis of breast cancer progression using data from the SEER database

    Article • Annals of Translational Medicine, March 2022, AME Publishing Company

    Dr. Taobo Hu

  60. Triple negative apocrine breast carcinoma has better prognosis despite poor response to neoadjuvant chemotherapy

    Article • January 2022, Research Square

    Dr. Taobo Hu

  61. Modeling effective tumor burden of primary lesion and metastatic lymph node in breast cancer patients from the SEER database

    Article • Gland Surgery, January 2022, AME Publishing Company

    Dr. Taobo Hu

  62. Gene expression trend changes in breast cancer populations over two decades: insights from The Cancer Genome Atlas database

    Article • December 2021, Research Square

    Dr. Taobo Hu

  63. Detection of structural variations and fusion genes in breast cancer samples using third-generation sequencing

    Article • December 2021, Research Square

    Dr. Taobo Hu

  64. Identification and Functional Characterization of a Novel Nonsense Variant in ARR3 in a Southern Chinese Family With High Myopia

    Article • Frontiers in Genetics, December 2021, Frontiers

    Dr. Taobo Hu

  65. Androgen Receptor Expression Associates With Distinctive Clinicopathological and Molecular Features in ER-Positive and ER-Negative Breast Cancer

    Article • November 2021, Research Square

    Dr. Taobo Hu

  66. Gene expression trend changes in breast cancer populations over two decades: insights from The Cancer Genome Atlas database

    Article • October 2021, Research Square

    Dr. Taobo Hu

  67. Androgen Receptor Expression Associates With Distinctive Clinicopathological and Molecular Features in ER-Positive and ER-Negative Breast Cancer

    Article • October 2021, Research Square

    Dr. Taobo Hu

  68. Detection of structural variations and fusion genes in breast cancer samples using third-generation sequencing

    Article • October 2021, Research Square

    Dr. Taobo Hu

  69. Intraparenchymal Breast Leiomyoma and Atypical Leiomyoma

    Article • September 2021, Research Square

    Dr. Taobo Hu

  70. Classification of PR-positive and PR-negative subtypes in ER-positive and HER2-negative breast cancers based on pathway scores

    Article • BMC Medical Research Methodology, May 2021, Springer Science + Business Media

    Dr. Taobo Hu

  71. Prognosis classification of breast cancer with distant lymph node metastasis IIIc or M1 category

    Article • March 2021, Research Square

    Dr. Taobo Hu

  72. Evaluating and Balancing the Risk of Breast Cancer-Specific Death and Other Cause-Specific Death in Elderly Breast Cancer Patients

    Article • Frontiers in Oncology, March 2021, Frontiers

    Dr. Taobo Hu

  73. A Histone Acetylation Modulator Gene Signature for Classification and Prognosis of Breast Cancer

    Article • February 2021, MDPI AG

    Dr. Taobo Hu

  74. Mechanism and effect of stress granule formation in cancer and its potential roles in breast cancer therapy

    Article • Genes & Diseases, February 2021, Elsevier

    Dr. Taobo Hu

  75. Protective effect of goserelin on ovarian reserve during (neo)adjuvant chemotherapy in young breast cancer patients: a prospective cohort study in China

    Article • Human Reproduction, January 2021, Oxford University Press (OUP)

    Dr. Taobo Hu

  76. RECQL5 KIX domain splicing isoforms have distinct functions in transcription repression and DNA damage response

    Article • DNA Repair, January 2021, Elsevier

    Dr. Taobo Hu

  77. A Machine Learning Approach to Differentiate Two Specific Breast Cancer Subtypes Using Androgen Receptor Pathway Genes

    Article • Technology in Cancer Research & Treatment, January 2021, SAGE Publications

    Dr. Taobo Hu

  78. Author Correction: Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples

    Article • Nature Communications, November 2020, Springer Science + Business Media

    Dr. Taobo Hu, Dr Elizabeth L Christie

  79. Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples

    Article • Nature Communications, September 2020, Springer Science + Business Media

    Dr. Taobo Hu, Dr Elizabeth L Christie, Anna Ehinger

  80. Sex differences in oncogenic mutational processes

    Article • Nature Communications, August 2020, Springer Science + Business Media

    Dr. Taobo Hu, Dr Elizabeth L Christie, Anna Ehinger

  81. Highly Recurrent Copy Number Variations in GABRB2 Associated With Schizophrenia and Premenstrual Dysphoric Disorder

    Article • Frontiers in Psychiatry, June 2020, Frontiers

    Dr. Taobo Hu

  82. Author Correction: Comprehensive molecular characterization of mitochondrial genomes in human cancers

    Article • Nature Genetics, April 2020, Springer Science + Business Media

    Dr. Taobo Hu

  83. Publisher Correction: Comprehensive molecular characterization of mitochondrial genomes in human cancers

    Article • Nature Genetics, February 2020, Springer Science + Business Media

    Dr. Taobo Hu

  84. Detecting viruses in tumour tissue to discover links between cancer and infection

    Article • Nature Genetics, February 2020, Springer Science + Business Media

    Professor Daniel S. Brewer, Dr. Taobo Hu

  85. Inferring structural variant cancer cell fraction

    Article • Nature Communications, February 2020, Springer Science + Business Media

    Dr Elizabeth L Christie, Dr. Taobo Hu

  86. Reconstructing evolutionary trajectories of mutation signature activities in cancer using TrackSig

    Article • Nature Communications, February 2020, Springer Science + Business Media

    Dr Elizabeth L Christie, Dr. Taobo Hu

  87. Analyses of non-coding somatic drivers in 2,658 cancer whole genomes

    Article • Nature, February 2020, Springer Science + Business Media

    Andrés Lanzós, Dr. Taobo Hu

  88. Cancer LncRNA Census reveals evidence for deep functional conservation of long noncoding RNAs in tumorigenesis

    Article • Communications Biology, February 2020, Springer Science + Business Media

    Andrés Lanzós, Dr Elizabeth L Christie, Dr. Taobo Hu

  89. A deep learning system accurately classifies primary and metastatic cancers using passenger mutation patterns

    Article • Nature Communications, February 2020, Springer Science + Business Media

    Dr Elizabeth L Christie, Dr. Taobo Hu

  90. Combined burden and functional impact tests for cancer driver discovery using DriverPower

    Article • Nature Communications, February 2020, Springer Science + Business Media

    Dr Elizabeth L Christie, Dr. Taobo Hu

  91. Divergent mutational processes distinguish hypoxic and normoxic tumours

    Article • Nature Communications, February 2020, Springer Science + Business Media

    Dr Elizabeth L Christie, Dr. Taobo Hu

  92. Genomic footprints of activated telomere maintenance mechanisms in cancer

    Article • Nature Communications, February 2020, Springer Science + Business Media

    Dr Elizabeth L Christie, Dr. Taobo Hu

  93. High-coverage whole-genome analysis of 1220 cancers reveals hundreds of genes deregulated by rearrangement-mediated cis-regulatory alterations

    Article • Nature Communications, February 2020, Springer Science + Business Media

    Dr Elizabeth L Christie, Dr. Taobo Hu

  94. Integrative pathway enrichment analysis of multivariate omics data

    Article • Nature Communications, February 2020, Springer Science + Business Media

    Dr Elizabeth L Christie, Dr. Taobo Hu

  95. Pathway and network analysis of more than 2500 whole cancer genomes

    Article • Nature Communications, February 2020, Springer Science + Business Media

    Dr Elizabeth L Christie, Dr. Taobo Hu

  96. Comprehensive analysis of chromothripsis in 2,658 human cancers using whole-genome sequencing

    Article • Nature Genetics, February 2020, Springer Science + Business Media

    Dr. Taobo Hu

  97. Comprehensive molecular characterization of mitochondrial genomes in human cancers

    Article • Nature Genetics, February 2020, Springer Science + Business Media

    Dr. Taobo Hu

  98. Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer

    Article • Nature Genetics, February 2020, Springer Science + Business Media

    Dr. Taobo Hu

  99. Pan-cancer analysis of whole genomes identifies driver rearrangements promoted by LINE-1 retrotransposition

    Article • Nature Genetics, February 2020, Springer Science + Business Media

    Dr. Taobo Hu

  100. Butler enables rapid cloud-based analysis of thousands of human genomes

    Article • Nature Biotechnology, February 2020, Springer Science + Business Media

    Dr. Taobo Hu

  101. Genomic basis for RNA alterations in cancer

    Article • Nature, February 2020, Springer Science + Business Media

    Dr. Taobo Hu

  102. Patterns of somatic structural variation in human cancer genomes

    Article • Nature, February 2020, Springer Science + Business Media

    Dr. Taobo Hu

  103. The repertoire of mutational signatures in human cancer

    Article • Nature, February 2020, Springer Science + Business Media

    Dr. Taobo Hu

  104. Pan-cancer analysis of whole genomes

    Article • Nature, February 2020, Springer Science + Business Media

    Dr. Taobo Hu, Anna Ehinger, Professor Daniel S. Brewer, Dr Elizabeth L Christie

  105. The evolutionary history of 2,658 cancers

    Article • Nature, February 2020, Springer Science + Business Media

    Dr Elizabeth L Christie, Dr. Taobo Hu

  106. Genomic subtyping of liver cancers with prognostic application

    Article • BMC Cancer, January 2020, Springer Science + Business Media

    Dr. Taobo Hu

  107. Natural History of Breast Cancer: Reanalyze Nodal Stage and Oestrogen Receptor Status Affecting the Progression of Breast Cancer from SEER Database

    Article • SSRN Electronic Journal, January 2020, Elsevier

    Dr. Taobo Hu

  108. Transcriptional regulation of Bcl-2 gene by the PR/SET domain family member PRDM10

    Article • PeerJ, May 2019, PeerJ

    Dr. Taobo Hu

  109. Characteristics and Prognostic Factors of Patients With Osteosarcoma Older Than 60 Years From the SEER Database

    Article • Cancer Control, January 2019, SAGE Publications

    Dr. Taobo Hu

  110. AluScanCNV2: An R package for copy number variation calling and cancer risk prediction with next-generation sequencing data

    Article • Genes & Diseases, September 2018, Elsevier

    Dr. Taobo Hu

  111. Forward and reverse mutations in stages of cancer development

    Article • Human Genomics, August 2018, Springer Science + Business Media

    Dr. Taobo Hu

  112. Forward-reverse mutation cycles between stages of cancer development

    Article • October 2017, Cold Spring Harbor Laboratory Press

    Dr. Taobo Hu

  113. Coevolution Theory of the Genetic Code at Age Forty: Pathway to Translation and Synthetic Life

    Article • Life, March 2016, MDPI AG

    Dr. Taobo Hu

  114. Tripartite genome of all species

    Article • F1000Research, February 2016, Faculty of 1000, Ltd.

    Dr. Taobo Hu

  115. Feature co-localization landscape of the human genome

    Article • Scientific Reports, February 2016, Nature

    Dr. Taobo Hu

  116. GABRB2 Haplotype Association with Heroin Dependence in Chinese Population

    Article • PLOS One, November 2015, PLOS

    Dr. Taobo Hu

  117. Massive interstitial copy-neutral loss-of-heterozygosity as evidence for cancer being a disease of the DNA-damage response

    Article • BMC Medical Genomics, July 2015, Springer Science + Business Media

    Dr. Taobo Hu

  118. The genetic equidistance result: misreading by the molecular clock and neutral theory and reinterpretation nearly half of a century later

    Article • Science in China Series C Life Sciences, March 2013, Springer Science + Business Media

    Dr. Taobo Hu