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The clinical data were assessed through reviewing medical records and standardized medical history questionnaires. We analyzed\n                      <jats:italic>EHMT1<\/jats:italic>\n                      variants and 9q34.3 microdeletion and performed genotype\u2013phenotype correlation in two groups.\n                    <\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Results<\/jats:title>\n                    <jats:p>\n                      17 novel variants of\n                      <jats:italic>EHMT1<\/jats:italic>\n                      were identified, adding to the genetic landscape of the disorder. For the first time, we retrospectively describe the prenatal presentations and assess facial dysmorphisms in our cohort. There was no significant difference between the two groups in prevalence of clinical manifestations such as DD\/ID, neurological symptoms, behavioral issues, obesity, congenital cardiac anomalies, male genital anomalies, or most other related clinical features, including developmental quotients (DQ). However, the frequencies of everted lower lip, small and spaced teeth, short neck, and renal anomalies were significantly higher among patients with deletions encompassing more than\n                      <jats:italic>EHMT1<\/jats:italic>\n                      compared to those with\n                      <jats:italic>EHMT1<\/jats:italic>\n                      variants (or deletions only disrupting\n                      <jats:italic>EHMT1<\/jats:italic>\n                      ), with rates of 20% vs. 83.3% (\n                      <jats:italic>P<\/jats:italic>\n                      \u2009=\u20090.014), 14.3% vs. 80%(\n                      <jats:italic>P<\/jats:italic>\n                      \u2009=\u20090.017)13.3% vs. 66.7% (\n                      <jats:italic>P<\/jats:italic>\n                      \u2009=\u20090.031) and 5.3% vs. 42.9% (\n                      <jats:italic>P<\/jats:italic>\n                      \u2009=\u20090.047) respectively.\n                    <\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Conclusions<\/jats:title>\n                    <jats:p>\n                      This is the largest series of patients with KLEFS1 published to date in Mainland China.\n                      <jats:italic>EHMT1<\/jats:italic>\n                      haploinsufficiency contributes to the majority of important phenotypes of KLEFS1. Our findings enrich our knowledge of 9q34.3 microdeletion and enhance our comprehension of the pathogenic molecular mechanisms of\n                      <jats:italic>EHMT1<\/jats:italic>\n                      .\n                    <\/jats:p>\n                  <\/jats:sec>","DOI":"10.1186\/s13023-025-04076-6","type":"journal-article","created":{"date-parts":[[2025,11,22]],"date-time":"2025-11-22T10:34:10Z","timestamp":1763807650000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["Genotype\u2013phenotype correlations in 9q34.3 microdeletion syndrome: a study of 35 Mainland Chinese patients"],"prefix":"10.1186","volume":"21","author":[{"given":"Tingting","family":"Yang","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Danfeng","family":"Fang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Wenqi","family":"Zhu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lili","family":"Wang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Weiqian","family":"Dai","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Bing","family":"Xiao","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lixiao","family":"Shen","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yongkun","family":"Zhan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yongguo","family":"Yu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3301-2943","authenticated-orcid":false,"given":"Na","family":"Xu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2025,11,22]]},"reference":[{"key":"4076_CR1","doi-asserted-by":"crossref","unstructured":"Willemsen MH, Vulto-van Silfhout AT, Nillesen WM, Wissink-Lindhout WM, van Bokhoven H, Philip N, et al. 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