| Literature DB >> 34815527 |
Shiqiang Luo1,2, Xingyuan Chen3,4, Dingyuan Zeng5, Ning Tang5, Dejian Yuan1,2, Qingyan Zhong1,2, Aiping Mao6, Ruofan Xu6, Tizhen Yan7,8.
Abstract
Entities:
Year: 2022 PMID: 34815527 PMCID: PMC9119259 DOI: 10.1038/s10038-021-00992-0
Source DB: PubMed Journal: J Hum Genet ISSN: 1434-5161 Impact factor: 3.172
Thalassemia variants identified by SMRT and conventional technology
| Common name | HGVS name | Clinical significance | Allele frequencya | Occurrencea | Detection range of conventional technology | Detection range of SMRT | Verification method | Reference | |
|---|---|---|---|---|---|---|---|---|---|
| -α4.2 | N/A1 | Pathogenic | None | Chinese East Asian Indian | 130 (26.80) | YES | YES | Gap-PCR/MLPA | [2] |
| -α3.7 | NG_000006.1:g.34164_37967del3804 | Pathogenic | None | African, Far East, Indian, Mediterranean | 95 (19.59) | YES | YES | Gap-PCR/MLPA | [2] |
| --SEA | NG_000006.1:g.26264_45564del19301 | Pathogenic | None | East Asian | 94 (19.38) | YES | YES | Gap-PCR/MLPA | [2] |
| --THAI | NC_000016.10:g.149863_183312del | Pathogenic | None | Thai | 2 (0.41) | YES | YES | Gap-PCR/MLPA | [2] |
| -α2.4 | N/A1 | Pathogenic | None | Chinese | 1 (0.21) | NO | YES | Gap-PCR/MLPA | [8] |
| NC_000016.10:g.(47217_113592)_(113687_143639)del | Pathogenic | None | Chinese | 2 (0.41) | YES | NO | MLPA | [9] | |
| N/A1 | Uncertain-Significance | None | Chinese | 1 (0.21) | YES | NO | MLPA | This study | |
| Hkαα | N/A1 | Uncertain-Significance | None | Chinese | 6 (1.24) | NO | YES | Gap-PCR | [12] |
| αααanti-4.2 | N/A1 | Uncertain-Significance | None | Chinese | 2 (0.41) | NO | YES | Gap-PCR | [10, 11] |
| αααanti-3.7 | N/A1 | Uncertain-Significance | None | Chinese | 2 (0.41) | NO | YES | Gap-PCR | [10, 11] |
| CD142(TAA>CAA) | Pathogenic | 14/248854, GnomAD_exome | Arabian Cambodian Chinese Greek Indian Indonesian Laotian Malasian Sicilian Vietnamese | 18 (3.71) | YES | YES | RDB/Sanger | [2] | |
| CD125(CTG>CCG) | Pathogenic | 1/136864, GnomAD | Chinese | 3 (0.62) | YES | YES | RDB/Sanger | [2] | |
| CD122(CAC>CAG) | Uncertain-Significance | 19/116218, ExAC | Chinese Laotian | 2 (0.41) | YES | YES | RDB/Sanger | [2] | |
| CD11(AAG>CAG) | HBA1:c.34A>C | Uncertain-Significance | 19/116218, ExAC | Chinese | 1 (0.21) | NO | YES | Sanger | [13] |
| CD16(AAG>AAC) | Uncertain-Significance | None | Chinese Pakistani | 1 (0.21) | NO | YES | Sanger | [14] | |
| CD27(AAG>AAT) | Uncertain-Significance | None | Chinese | 2 (0.41) | NO | YES | Sanger | [15] | |
| CD6(GAC>TAC) | Uncertain-Significance | None | Vietnamese | 1 (0.21) | NO | YES | Sanger | [16] | |
| CD18(GGC>CGC) | Uncertain-Significance | 2/138328, GnomAD | Chinese Indian Saudi Arabian | 4 (0.82) | NO | YES | Sanger | [17] | |
| Init CD(ATG>A-G) | Pathogenic | None | Vietnamese | 1 (0.21) | NO | YES | Sanger | [18] | |
| Init CD(ATG>ACG) | Pathogenic | 0/654, ALFA | Italian | 1 (0.21) | NO | YES | Sanger | [19] | |
| CD17(GTC>TTC) | Uncertain-Significance | None | Chinese | 1 (0.21) | NO | YES | Sanger | [20] | |
| CD30(GAG>CAG) | Uncertain-Significance | 1/264690, TOPMED | Chinese | 3 (0.62) | NO | YES | Sanger | [21] | |
| -22 C>T | Pathogenic-Likely-Pathogenic | None | Nedlands | 1 (0.21) | NO | YES | Sanger | [22] | |
| CD85(GAC>AAC) | Uncertain-Significance | None | English | 1 (0.21) | NO | YES | Sanger | [23] | |
| CD41/42(-TTCT) | Pathogenic | 7/140174, GnomAD | Chinese 41.84% English 4.35% Indonesian 1.69% Japanese 5.99% Korean 4.17% Malaysian 26.32% Pakistani 6.7% Punjabi 13.22% Singapore 37.59% Taiwanese 30.63% Thai 37.24% | 22 (4.54) | YES | YES | RDB/Sanger | [2] | |
| CD17(AAG>TAG) | Pathogenic | 3/140268, GnomAD | Chinese 14.1% Indonesian 1.69% Japanese 0.32% Korean 16.67% Malaysian 5.26% Singapore 9.02% Taiwanese 8.13% Thai 18.56% | 15 (3.09) | YES | YES | RDB/Sanger | [2] | |
| -28(A>G) | Pathogenic-Likely-Pathogenic | 1/140226, GnomAD | Chinese 12.31% Japanese 0.32% Malaysian 6.43% Taiwanese 9.38% Thai 6.83% | 10 (2.06) | YES | YES | RDB/Sanger | [2] | |
| CD26(GAG>AAG) | Pathogenic | 9/140272, GnomAD | Thai 0.12% | 5 (1.03) | YES | YES | RDB/Sanger | [2] | |
| CD71/72(+A) | Pathogenic | 2/251430, GnomAD_exome | Chinese East Asian | 3 (0.62) | YES | YES | RDB/Sanger | [2] | |
| IVS-II-654(C>T) | Pathogenic | 7/140170, GnomAD | Chinese 21.37% Indonesian 11.86% Japanese 11.99% Malaysian 10.53% Russian 1.52% Singapore 25.56% Taiwanese 46.25% Thai 5.13% | 2 (0.41) | YES | YES | RDB/Sanger | [2] | |
| CD14/15(+G) | HBB:c.45dupG | Pathogenic | 1/251224, GnomAD_exome | Chinese Thai 0.12% | 1 (0.21) | YES | YES | RDB/Sanger | [2] |
| -29(A>G) | Pathogenic | 127/140260, GnomAD | Algerian 3.8% Black 59.38% Chinese 2.37% Malaysian 0.58% Taiwanese 0.63% | 1 (0.21) | YES | YES | RDB/Sanger | [2] | |
| CD27/28(+C) | Pathogenic | 1/264690, TOPMED | Chinese 0.59% Singapore 0.75% Taiwanese 2.5% Thai 0.24% | 1 (0.21) | YES | YES | RDB/Sanger | [2] | |
| IVS-I-5(G>C) | Pathogenic | 1/140258, GnomAD | Frequent in Asian Indian, UAE, and East Asian populations | 1 (0.21) | YES | YES | RDB/Sanger | [2] | |
| -50(G>A) | Uncertain-Significance | 2/140260, GnomAD | Chinese | 1 (0.21) | NO | YES | Sanger | [24] | |
| -86 (C>G) | Pathogenic | 0/78698, GnomAD | Lebanese, Thai 0.24% | 1 (0.21) | NO | YES | Sanger | [25] | |
| IVS-II-5(G>C) | Pathogenic | 1/140204, GnomAD | Chinese 0.15% | 10 (2.06) | NO | YES | Sanger | [26] | |
| CD126 (GTG>GGG) | Pathogenic | 1/140228, GnomAD | German Italian Thai | 1 (0.21) | NO | YES | Sanger | [27] | |
| -31(A>C) | Pathogenic | 1/264690, TOPMED | Italian Chinese | 1 (0.21) | NO | YES | Sanger | [22] | |
| CD30 (A>G) | Likely-Pathogenic | None | Sephardic Jewish | 5 (1.03) | NO | YES | Sanger | [28] | |
| CD56 (GGC>GAC) | Likely-Benign | 5/251448, GnomAD_exome | Found in Thai, Indonesian, Black, and Chinese families | 5 (1.03) | NO | YES | Sanger | [29] | |
| CD 64 (GGC>AGC) | Likely-Benign | None | Chinese | 1 (0.21) | NO | YES | Sanger | [30] | |
| CD77 (CAC>TAC) | Likely-Benign | 1/251428, GnomAD_exom | Caucasian Indonesian Japanese Swedish | 1 (0.21) | NO | YES | Sanger | [31] | |
| -198A>G | Uncertain-Significance | None | This study | 3 (0.62) | NO | YES | Sanger | This study | |
| CD113(GTG>GAG) | Pathogenic | 2/140270, GnomAD | American Chinese | 14 (2.89) | NO | YES | Sanger | [32] | |
| CD143(CAC>CGC) | Likely-Pathogenic | 1/251362, GnomAD_exome | American Italian | 1 (0.21) | NO | YES | Sanger | [33] | |
| IVS- II-806 (G>C) | Benign-Likely-Benign | 34/140174, GnomAD | Chinese | 3 (0.62) | NO | YES | Sanger | This study | |
| IVS- II-672 (A>C) | Benign-Likely-Benign | None | Chinese | 1 (0.21) | NO | YES | Sanger | This study | |
| IVS -II-308 (-A) | Benign-Likely-Benign | None | Chinese | 1 (0.21) | NO | YES | Sanger | This study | |
| Total | 485 (100) |
Gap-PCR Gap- polymerase chain reaction, MLPA multiple ligation probe amplification technology, RDB reverse dot blot.
aData come from HbVar (https://globin.bx.psu.edu/hbvar/hbvar.html), genomAD (https://gnomad.broadinstitute.org/) and dbSNP (https://www.ncbi.nlm.nih.gov/snp/).