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Accurate diagnosis is crucial for appropriate management. This study assessed the clinical usefulness of next-generation sequencing (NGS)-based target gene sequencing in pediatric and AYA (adolescent and young adult) patients with hematologic abnormalities. From December 2019 to June 2023, 93 patients with suspected congenital hematologic diseases at a single institution underwent NGS-based testing. Medical records were retrospectively reviewed. The median age at diagnosis was 9.3\u00a0years (range 0.2\u201331.4), with 59.1% males. Indications for testing included specific medical histories (28 patients), persistent cytopenia or recurrent neutropenic fever (22 patients), changes in cytopenia patterns (11 patients), and other reasons (32 patients). Pathogenic variants were identified in 9\/28 (32.1%), 3\/22 (13.6%), 4\/11 (36.4%), and 0\/32 (0%). Overall, 16 patients (17.2%) had pathogenic variants, including <jats:italic>FANCA<\/jats:italic>, <jats:italic>BRCA2<\/jats:italic>, <jats:italic>PMS2<\/jats:italic>, <jats:italic>ELANE<\/jats:italic>, <jats:italic>G6PC3<\/jats:italic> and <jats:italic>VPS13B<\/jats:italic> in patients with idiopathic neutropenia, and <jats:italic>GATA2<\/jats:italic> in patients with suspected myelodysplastic syndrome. Genetic findings led to diagnostic revisions in 12 patients (12.9%), including reclassification of aplastic anemia (AA) as Fanconi anemia, Diamond-Blackfan anemia, or Shwachman-Diamond syndrome, prompting hematopoietic stem cell transplantation and altering cancer surveillance. Pathogenic variants were more frequently observed in patients with a specific medical history or changes in cytopenia, and in those with additional clinical features (cytogenetic abnormalities or non-severe AA). This study demonstrated the diagnostic usefulness of NGS-based target gene sequencing for pediatric and AYA patients with suspected genetic hematologic disorders, supporting the need for multicenter studies and standardized guideline development.<\/jats:p>","DOI":"10.1007\/s00277-025-06392-0","type":"journal-article","created":{"date-parts":[[2025,5,13]],"date-time":"2025-05-13T04:31:14Z","timestamp":1747110674000},"page":"2693-2706","update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":2,"title":["Clinical usefulness of next-generation sequencing-based target gene sequencing in diagnosis of inherited bone marrow failure syndrome"],"prefix":"10.1007","volume":"104","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-9051-5937","authenticated-orcid":false,"given":"Young Dai","family":"Kwon","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8822-1988","authenticated-orcid":false,"given":"Kyung Taek","family":"Hong","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7900-5936","authenticated-orcid":false,"given":"Juyeon","family":"Lee","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7444-7823","authenticated-orcid":false,"given":"Yoon","family":"Sunwoo","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6870-9214","authenticated-orcid":false,"given":"Yeseul","family":"Kim","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3819-8046","authenticated-orcid":false,"given":"Sung Im","family":"Cho","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7062-0414","authenticated-orcid":false,"given":"Hyun Jin","family":"Park","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4671-0449","authenticated-orcid":false,"given":"Bo Kyung","family":"Kim","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6633-4631","authenticated-orcid":false,"given":"Jee-Soo","family":"Lee","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8758-3074","authenticated-orcid":false,"given":"Jung Yoon","family":"Choi","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2954-3677","authenticated-orcid":false,"given":"Moon-Woo","family":"Seong","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1009-6002","authenticated-orcid":false,"given":"Hyoung Jin","family":"Kang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2025,5,13]]},"reference":[{"key":"6392_CR1","doi-asserted-by":"publisher","first-page":"64","DOI":"10.3389\/fped.2015.00064","volume":"3","author":"M Erlacher","year":"2015","unstructured":"Erlacher M, Strahm B (2015) Missing Cells: Pathophysiology, Diagnosis, and Management of (Pan)Cytopenia in Childhood. 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