scholarly journals Comparison of sequence‐specific oligonucleotide probe vs next generation sequencing for HLA‐A, B, C, DRB1, DRB3/B4/B5, DQA1, DQB1, DPA1, and DPB1 typing: Toward single‐pass high‐resolution HLA typing in support of solid organ and hematopoietic cell transplant programs

HLA ◽  
2019 ◽  
Vol 94 (3) ◽  
pp. 296-306 ◽  
Author(s):  
Anajane G. Smith ◽  
Shalini Pereira ◽  
Andrés Jaramillo ◽  
Scott T. Stoll ◽  
Faisal M. Khan ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
High Resolution ◽  
Oligonucleotide Probe ◽  
Hla Typing ◽  
Solid Organ ◽  
Cell Transplant ◽  
Hematopoietic Cell Transplant ◽  
Specific Oligonucleotide Probe ◽  
Sequence Specific Oligonucleotide Probe ◽  
Generation Sequencing

scholarly journals High-Resolution HLA Typing of HLA-A, -B, -C, -DRB1, and -DQB1 in Kinh Vietnamese by Using Next-Generation Sequencing

2020 ◽  
Vol 11 ◽  
Author(s):  
Minh Duc Do ◽  
Linh Gia Hoang Le ◽  
Vinh The Nguyen ◽  
Tran Ngoc Dang ◽  
Nghia Hoai Nguyen ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
High Resolution ◽  
Hla Typing ◽  
Next Generation ◽  
Generation Sequencing

Abstract 2764: High-resolution HLA typing by next-generation sequencing and risk of follicular lymphoma

2011 ◽  
Author(s):  
Nicholas K. Akers ◽  
Lucia Conde ◽  
Martyn T. Smith ◽  
Paige M. Bracci ◽  
Christine F. Skibola
Keyword(s):  
Next Generation Sequencing ◽  
High Resolution ◽  
Follicular Lymphoma ◽  
Hla Typing ◽  
Next Generation ◽  
Generation Sequencing

P105 An accelerated method for reverse sequence-specific oligonucleotide probe-based HLA typing

2018 ◽  
Vol 79 ◽  
pp. 140
Author(s):  
Rebecca L. Upchurch ◽  
John J. Xin ◽  
Melissa Minarik ◽  
Tenisha West ◽  
Jerome G. Weidner ◽  
...  
Keyword(s):  
Oligonucleotide Probe ◽  
Hla Typing ◽  
Specific Oligonucleotide Probe ◽  
Reverse Sequence ◽  
Sequence Specific Oligonucleotide Probe

scholarly journals Liquid Biopsy for Invasive Mold Infections in Hematopoietic Cell Transplant Recipients With Pneumonia Through Next-Generation Sequencing of Microbial Cell-Free DNA in Plasma

2020 ◽  
Author(s):  
Joshua A Hill ◽  
Sudeb C Dalai ◽  
David K Hong ◽  
Asim A Ahmed ◽  
Carine Ho ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
High Specificity ◽  
Hematopoietic Cell ◽  
Cell Transplant ◽  
Next Generation ◽  
Hematopoietic Cell Transplant ◽  
Cell Free Dna ◽  
Free Dna ◽  
Invasive Mold Infections ◽  
Generation Sequencing

Abstract Background Noninvasive diagnostic options are limited for invasive mold infections (IMIs). We evaluated the performance of a plasma microbial cell-free DNA sequencing (mcfDNA-Seq) test for diagnosing pulmonary IMI after hematopoietic cell transplant (HCT). Methods We retrospectively assessed the diagnostic performance of plasma mcfDNA-Seq next-generation sequencing in 114 HCT recipients with pneumonia after HCT who had stored plasma obtained within 14 days of diagnosis of proven/probable Aspergillus IMI (n = 51), proven/probable non-Aspergillus IMI (n = 24), possible IMI (n = 20), and non-IMI controls (n = 19). Sequences were aligned to a database including >400 fungi. Organisms above a fixed significance threshold were reported. Results Among 75 patients with proven/probable pulmonary IMI, mcfDNA-Seq detected ≥1 pathogenic mold in 38 patients (sensitivity, 51% [95% confidence interval {CI}, 39%–62%]). When restricted to samples obtained within 3 days of diagnosis, sensitivity increased to 61%. McfDNA-Seq had higher sensitivity for proven/probable non-Aspergillus IMI (sensitivity, 79% [95% CI, 56%–93%]) compared with Aspergillus IMI (sensitivity, 31% [95% CI, 19%–46%]). McfDNA-Seq also identified non-Aspergillus molds in an additional 7 patients in the Aspergillus subgroup and Aspergillus in 1 patient with possible IMI. Among 19 non-IMI pneumonia controls, mcfDNA-Seq was negative in all samples, suggesting a high specificity (95% CI, 82%–100%) and up to 100% positive predictive value (PPV) with estimated negative predictive values (NPVs) of 81%–99%. The mcfDNA-Seq assay was complementary to serum galactomannan index testing; in combination, they were positive in 84% of individuals with proven/probable pulmonary IMI. Conclusions Noninvasive mcfDNA-Seq had moderate sensitivity and high specificity, NPV, and PPV for pulmonary IMI after HCT, particularly for non-Aspergillus species.

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