Research map: Comparative evaluation of probe-capture and conventional metagenomic sequencing across multiple clinical sample types, with analysis of paired bronchoalveolar lavage fluid and blood samples

Back to the article

Papers in this map

  1. Trimmomatic: a flexible trimmer for Illumina sequence data · Anthony Bolger · 2014 · 71940 citations · Cited by this paper
  2. An integrated proteomics and transcriptomics analysis highlights concordance between protein turnover and carbohydrate transport and metabolism as key functional categories during the growth of Trichophyton rubrum · 2026 · Related
  3. Fast and accurate short read alignment with Burrows–Wheeler transform · Heng Li · 2009 · 64044 citations · Cited by this paper
  4. A rapid molecular assay for the detection of hypervirulent Klebsiella pneumoniae in the context of antimicrobial resistance surveillance · 2026 · Related
  5. fastp: an ultra-fast all-in-one FASTQ preprocessor · Shifu Chen · 2018 · 31731 citations · Cited by this paper
  6. Differential virulence potential of different clades of multidrug-resistant Klebsiella pneumoniae ST258 · 2026 · Related
  7. Detection of SARS-CoV-2 in Different Types of Clinical Specimens · Wenling Wang · 2020 · 5352 citations · Cited by this paper
  8. Markerless gene deletion in Porphyromonas gingivalis using a pheS* -based counterselection system · 2026 · Related
  9. Sepsis in European intensive care units: Results of the SOAP study* · Jean‐Louis Vincent · 2006 · 2894 citations · Cited by this paper
  10. Short linear motifs—underexplored players driving Toxoplasma gondii infection · 2026 · Related
  11. Clinical Metagenomic Next-Generation Sequencing for Pathogen Detection · Wei Jie Gu · 2018 · 1527 citations · Cited by this paper
  12. A rapid approach to detect methicillin-resistant and susceptible Staphylococcus aureus directly from clinical specimens · 2026 · Related
  13. Heightened Innate Immune Responses in the Respiratory Tract of COVID-19 Patients · Zhuo Long Zhou · 2020 · 1045 citations · Cited by this paper
  14. Melting temperature signatures reveal occasional misclassification of low-level isoniazid resistance by Xpert MTB/XDR · 2026 · Related
  15. Laboratory validation of a clinical metagenomic sequencing assay for pathogen detection in cerebrospinal fluid · Steve A. Miller · 2019 · 602 citations · Cited by this paper
  16. Phosphonium-based disinfectants are as effective as best-in-class quaternary ammonium compounds in the eradication of established biofilms in antibiotic-resistant bacteria · 2026 · Related
  17. Validation of Metagenomic Next-Generation Sequencing Tests for Universal Pathogen Detection · Robert Schlaberg · 2017 · 578 citations · Cited by this paper
  18. Global Shigella epidemiology and vaccine coverage stratified by socioeconomic development levels, 1934–2025 · 2026 · Related
  19. Herpes Simplex Virus Lung Infection in Patients Undergoing Prolonged Mechanical Ventilation · Charles‐Édouard Luyt · 2007 · 379 citations · Cited by this paper
  20. Epidemiology and outcomes of hospital-acquired bloodstream infections in intensive care unit patients: the EUROBACT-2 international cohort study · Alexis Tabah · 2023 · 262 citations · Cited by this paper
  21. Outcomes in severe sepsis and patients with septic shock: Pathogen species and infection sites are not associated with mortality* · Jean‐Ralph Zahar · 2011 · 259 citations · Cited by this paper
  22. Bloodstream infections – Standard and progress in pathogen diagnostics · Brigitte Lamy · 2019 · 254 citations · Cited by this paper
  23. Evaluation of Metagenomic and Targeted Next-Generation Sequencing Workflows for Detection of Respiratory Pathogens from Bronchoalveolar Lavage Fluid Specimens · David C. Gaston · 2022 · 213 citations · Cited by this paper
  24. Human and Extracellular DNA Depletion for Metagenomic Analysis of Complex Clinical Infection Samples Yields Optimized Viable Microbiome Profiles · Maria T. Nelson · 2019 · 187 citations · Cited by this paper
  25. Clinical Evaluation of an Improved Metagenomic Next-Generation Sequencing Test for the Diagnosis of Bloodstream Infections · Chendi Jing · 2021 · 134 citations · Cited by this paper
  26. Enhancing lower respiratory tract infection diagnosis: implementation and clinical assessment of multiplex PCR-based and hybrid capture-based targeted next-generation sequencing · Yuyao Yin · 2024 · 132 citations · Cited by this paper
  27. Sequence capture by hybridization to explore modern and ancient genomic diversity in model and nonmodel organisms · Cyrielle Gasc · 2016 · 117 citations · Cited by this paper
  28. Therapeutics for Vancomycin-Resistant Enterococcal Bloodstream Infections · Kelly A. Cairns · 2023 · 104 citations · Cited by this paper
  29. Pre-digest of unprotected DNA by Benzonase improves the representation of living skin bacteria and efficiently depletes host DNA · Yacine Amar · 2021 · 92 citations · Cited by this paper
  30. Clinical validation of a multiplex droplet digital PCR for diagnosing suspected bloodstream infections in ICU practice: a promising diagnostic tool · Jing Wu · 2022 · 86 citations · Cited by this paper
  31. BacCapSeq: a Platform for Diagnosis and Characterization of Bacterial Infections · Orchid M. Allicock · 2018 · 81 citations · Cited by this paper
  32. SARS-CoV-2 RNAemia Predicts Clinical Deterioration and Extrapulmonary Complications from COVID-19 · Nikhil Ram-Mohan · 2021 · 75 citations · Cited by this paper
  33. The diagnostic value of metagenomic next-generation sequencing for identifying Streptococcus pneumoniae in paediatric bacterial meningitis · Xi-xi Zhang · 2019 · 73 citations · Cited by this paper
  34. Awakening the sleeping giant: Epstein–Barr virus reactivation by biological agents · Omkar Indari · 2024 · 57 citations · Cited by this paper
  35. Dynamic and direct pathogen load surveillance to monitor disease progression and therapeutic efficacy in central nervous system infection using a novel semi-quantitive sequencing platform · Jingwen Ai · 2017 · 45 citations · Cited by this paper
  36. Clinical Diagnostic Performance of Droplet Digital PCR for Suspected Bloodstream Infections · Ke Lin · 2023 · 44 citations · Cited by this paper
  37. Validation of a Metagenomic Next-Generation Sequencing Assay for Lower Respiratory Pathogen Detection · Zhenli Diao · 2022 · 40 citations · Cited by this paper
  38. Molecular rapid diagnostic testing for bloodstream infections: Nanopore targeted sequencing with pathogen-specific primers · Dongsheng Han · 2024 · 37 citations · Cited by this paper
  39. A theoretical and generalized approach for the assessment of the sample-specific limit of detection for clinical metagenomics · Arnt Ebinger · 2020 · 33 citations · Cited by this paper

Source: OpenAlex (CC0)