| Literature DB >> 35119474 |
Mariana Flores Pimentel1,2, Anna Heath3, Michael J Wan1,2, Rowaida Hussein4, Kate E Leahy1,2, Heather MacDonald1,5,6, Erika Tavares4, Cynthia VandenHoven1, Katelyn MacNeill1, Peter Kannu7, Patricia C Parkin8, Elise Heon1,2,4, Arun Reginald1,2, Ajoy Vincent1,2,4.
Abstract
PURPOSE: To determine the prevalence of choroidal abnormalities (CAs) and Lisch nodules (LNs) in children who met the clinical diagnostic criteria (CDC) alone and those with a molecularly confirmed diagnosis (MCD) of neurofibromatosis type 1 (NF1), and to ascertain any differences between the groups.Entities:
Mesh:
Year: 2022 PMID: 35119474 PMCID: PMC8819284 DOI: 10.1167/tvst.11.2.10
Source DB: PubMed Journal: Transl Vis Sci Technol ISSN: 2164-2591 Impact factor: 3.283
Figure 1.Probability of CAs and LNs observed across age groups. The pink line represents LNs, and the green line represents CAs. The confidence intervals are shown in interrupted dashed black lines.
Figure 2.Three representative cases. (A, B) Case 92, a 9-year-old child with MCD who had CAs but no LNs. (C, D) Case 26, a 15-year-old with CDC who had LNs only. (E, F) Case 49, a 16-year-old with MCD who had both LNs and CAs.
General Characteristics and Prevalence of Ocular Findings Among the Study Population
| Entire Cohort ( | Group A. CDC ( | Group B. MCD ( | |
|---|---|---|---|
| Age (y), mean ± SD | 10.25 ± 4.15 | 10.17 ± 4.08 | 10.24 ± 4.14 |
| Male/female, | 38 (40)/56 (60) | 18 (44)/23 (56) | 20 (38)/33 (62) |
| Choroidal abnormalities, | 60 (64) | 28 (68) | 32 (60) |
| Lisch nodules, | 39 (41) | 21 (51) | 18 (34) |
| Choroidal abnormalities + Lisch nodules, | 25 (27) | 14 (34) | 11 (21) |
| Choroidal abnormalities or Lisch nodules or both, | 75 (80) | 35 (85) | 40 (75) |
| Optic pathway glioma, | 25 (27) | 11 (27) | 14 (26) |
| BCVA (logMAR ± SD), mean ± SD | 0.21 ± 0.36 | 0.20 ± 0.36 | 0.22 ± 0.35 |
Figure 3.Scatterplot showing age distribution in the two subgroups. Group A patients satisfied the CDC, and group B patients additionally had a MCD. The age distribution was similar in the two groups.
Genetic Variants and ACMG Classification Guidelines
| ID | Variant Position (hg19) GRCh37 | Coding Position NF1 | Protein Effect | Type of Variant | Supporting Evidence | ACMG Classification |
|---|---|---|---|---|---|---|
| 1 | Chr17: g.29683544C>A | NM_001042492.2:c.7682C>A | p.(Ser2540*) | Stop mutation | PVS1, PM2, PP5 | Pathogenic |
| 4 | Chr17:g.29496901C>G | NM_001042492.2:c.480-8C>G | p.(?) | Splice-site mutation | PM2, PP3, PP5, PM6 | Likely pathogenic |
| 8 | Chr17:g.29490327G>C | NM_001042492.2:c.412G>C | p.(Ala138Pro) | Missense | PM2, PM1, PP2, PP3, PP5 | Likely pathogenic |
| 9 | Chr17:g.29585447del | NM_001042492.2:c.4259del | p.(Leu1420Tyrfs*8) | Frameshift | PVS1, PM2 | Likely pathogenic |
| 10 | Chr17:g.29490327G>C | NM_001042492.2:c.412G>C | p.(Ala138Pro) | Missense | PM2, PM1, PP2, PP3, PP5 | Likely Pathogenic |
| 13 | Chr17:g.29422055_29701173del | p.(?) | Whole gene deletion | 1A, 2A–2E, 2H, 3A, 4L | Pathogenic | |
| 15 | Chr17:g.29670123_29670128del | NM_000267.3:c.7096_7101del | p.(Asn2366_Phe2367del) | Deletion, in frame | PP1, PM2, PM4, PM1, PP5 | Pathogenic |
| 21 | Chr17g:25248166-30645676 | p.(?) | Whole gene deletion | 1A, 2A–2E, 2H, 3C, 4L | Pathogenic | |
| 22 | Chr17:g.29533378C>T | NM_001042492.2:c.1381C>T | p.(Arg461*) | Stop mutation | PVS1, PM2, PP5, PM6 | Pathogenic |
| 23 | Chr17:g.29556079C>T | NM_001042492.2:c.2446C>T | p.(Arg816*) | Stop mutation | PVS1, PM2, PP5, PS2, PP1 | Pathogenic |
| 25 | Chr17:g.29585518A>C | NM_000267.3:c.4267A>C | p.(Lys1423Gln) | Missense | PM1, PP2, PM2, PM5, PP3, PP5, PM6 | Pathogenic |
| 27 | Chr17:g.29557401G>A | NM_001042492.2:c.3113+1G>A | p.(?) | Splice-site mutation | PVS1, PM2, PP5, PM6 | Pathogenic |
| 28 | Chr17:g.29422388G>C | NM_001042492.2:c.60+1G>C | p.(?) | Splice-site mutation | PVS1, PM2, PP5, PM6 | Pathogenic |
| 29 | Chr17:g.29509582A>G | NM_001042492.2:c.787A>G | p.(Lys263Glu) | Missense | PM2, PP3, PP2, PP1, PS2 | Likely pathogenic |
| 30 | Chr17:g.29527538A>G | NM_001042492.2:c.987A>G | p.(Lys329=) | Splice-site mutation | PM2, BP7 | VUS |
| 35 | Chr17:g.29665756dup | NM_000267.3:c.6791dup | p.(Tyr2264*) | Frameshift | PVS1, PM2, PP5, PS2, PP1 | Pathogenic |
| 36 | Chr17:g.29422055_29701173del | p.(?) | Whole gene deletion | 1A, 2A–2E, 2H, 3A, 4L | Pathogenic | |
| 38 | Chr17:g.29553638dup | NM_001042492.2:c.2187dup | p.(Asn730*) | Stop mutation | PVS1, PM2, PP5, PM6 | Pathogenic |
| 39 | Chr17:g.29585422A>G | NM_000267.3:c.4171A>G | p.(Arg1391Gly) | Missense | PM1, PP2, PM2, PM5, PP3, PP5, PS2, PP1 | Pathogenic |
| 40 | Chr17:g.29585518A>G | NM_001042492.2:c.4330A>G | p.(Lys1444Glu) | Missense, splicing | PM1, PP2, PM2, PM5, PP3, PP5 | Pathogenic |
| 44 | Chr17:g.29684004C>T | NM_000267.3:c.7702C>T | p.(Gln2568*) | Stop mutation | PVS1, PM2, PP5, PM6 | Pathogenic |
| 45 | Chr17:g.29560048_29560049del | NM_001042492.2:c.3525_3526del | p.(Arg1176Serfs*18) | Frameshift | PVS1, PM2, PP5, PS2, PP1 | Pathogenic |
| 46 | Chr17:g.29670123_29670128del | NM_000267.3:c.7096_7101del | p.(Asn2366_Phe2367del) | Deletion, in frame | PM2, PM4, PM1, PP5 | Pathogenic |
| 48 | Chr17:g.29653042_29653043del | NM_000267.3:c.4977_4978del | p.(Tyr1659*) | Stop mutation | PVS1, PM2, PP1 | Pathogenic |
| 49 | Chr17:g.29685586_29685587dup | NM_000267.3:c.7996_7997dup | p.(Ser2666Argfs*53) | Frameshift | PVS1, PM2, PM6 | Pathogenic |
| 51 | Chr17:g.29541542A>G | NM_001042492.2:c.1466A>G | p.(Tyr489Cys) | Missense | PM2, PM1, PP2, PP5, PS2, PP1 | Pathogenic |
| 52 | Chr17:g.29554291del | NM_001042492.2:c.2307del | p.(Thr770Leufs*21) | Frameshift | PVS1, PM2, PP1 | Pathogenic |
| 53 | Chr17:g.29576004del | NM_001042492.2:c.3977del | p.(Leu1326*) | Stop mutation | PVS1, PM2, PM6 | Pathogenic |
| 55 | Chr17:g.29527570_29527571del | NM_001042492.2:c.1019_1020del | p.(Ser340Cysfs*12) | Frameshift | PVS1, PM2, PP5, PM6 | Pathogenic |
| 59 | Chr17:g.29528489C>T | NM_001042492.2:c.1246C>T | p.(Arg416*) | Stop mutation | PVS1, PM2, PP5, PM6 | Pathogenic |
| 61 | Chr17:g.29653271G>T | NM_000267.3:c.5205+1G>T | p.(?) | Splice-site mutation | PVS1, PM2, PP5, PM6 | Pathogenic |
| 62 | Chr17:g.29548947G>A | NM_001042492.2:c.1721G>A | p.(Ser574Asn) | Missense, splicing | PM2, PM5, PP2, PP5, PM6 | Likely pathogenic |
| 67 | Chr17:g.29585383C>T | NM_000267.3:c.4132C>T | p.(Gln1378*) | Stop mutation | PVS1, PM2, PP5, PM6 | Pathogenic |
| 68 | Chr17:g.29665757C>A | NM_000267.3:c.6792C>A | p.(Tyr2264*) | Stop mutation | PVS1, PM2, PP5 | Pathogenic |
| 69 | Chr17:g.29586049G>C | NM_000267.3:c.4270-1G>C | p.(?) | Splice-site mutation | PVS1, PM2, PP5, PM6 | Pathogenic |
| 72 | Chr17:g.29422055_29701173del | p.(?) | Whole gene deletion | 1A, 2A–2E, 2H, 3A, 4L | Pathogenic | |
| 73 | Chr17:g.29533378C>T | NM_001042492.2:c.1381C>T | p.(Arg461*) | Stop mutation | PVS1, PM2, PP5 | Pathogenic |
| 74 | Chr17:g.29533378C>T | NM_001042492.2:c.1381C>T | p.(Arg461*) | Stop mutation | PVS1, PM2, PP5 | Pathogenic |
| 75 | Chr17:g.29585403_29701083del | NM_000267.3:c.4152_8367del | p.(Gly1385Aspfs*41) | Multiple exon deletion | 2A–2E, 4L | Pathogenic |
| 76 | Chr17:g.29556250C>G | NM_001042492.2:c.2617C>G | p.(Arg873Gly) | Missense | PM2, PP2, PM6, PS3 | Likely pathogenic |
| 78 | Chr17:g.29508766_29508767del | NM_001042492.2:c.693_694del | p.(Thr232Lysfs*9) | Frameshift | PVS1, PM2, PS2, PP1 | Pathogenic |
| 79 | Chr17:g.29559190dup | NM_001042492.2:c.3297dup | p.(Ser1100Ilefs*6) | Frameshift | PVS1, PM2, PP1 | Pathogenic |
| 80 | Chr17:g.29497017T>C; | NM_001042492.2:c.586+2T>C | p.(?) | Splice-site mutation | PVS1, PM2, PP5 | Pathogenic |
| 82 | Chr17:g.? | NM_001042492.2:? | p.(Gln97Valfs*13) | Exon 4 deletion | PVS1, PS1, PS2, PM2 | Pathogenic |
| 83 | Chr17:g.29560162_29560164del | NM_001042492.2:c.3639_3641del | p.(Met1215del) | Deletion, in frame | PM2, PM4, PM1, PP5, PS2, PP1 | Pathogenic |
| 84 | Chr17:g.29557331T>G | NM_001042492.2:c.3044T>G | p.(Leu1015Arg) | Missense | PM2, PM1, PP2, PP1 | Likely pathogenic |
| 85 | Chr17:g.29541542A>G | NM_001042492.2:c.1466A>G | p.(Tyr489Cys) | Missense, splicing | PM2, PM1, PP2, PP5, PM6 | Pathogenic |
| 86 | Chr17:g.29654862G>T | NM_000267.3:c.5546+5G>T | p.(?) | Splice-site mutation | PM2, PP3, PP5 | Likely pathogenic |
| 88 | Chr17:g.29654736C>A | NM_000267.3:c.5425C>A | p.(Arg1809Ser) | Missense | PM2, PM1, PP2, PP3, PP5 | Likely pathogenic |
| 89 | Chr17:g.29556173T>C | NM_001042492.2:c.2540T>C | p.(Leu847Pro) | Missense | PM1, PP2, PM2, PP5, PS2, PP1 | Pathogenic |
| 91 | Chr17:g.29563030del | NM_001042492.2:c.3965del | p.(Asp1322Valfs*5) | Frameshift | PSV1, PM2, PP5, PM6 | Pathogenic |
| 92 | Chr17:g.29676190_29676193del | NM_000267.3:c.7179_7182del | p.(Thr2394Tyrfs*2) | Frameshift | PVS1, PM2, PP5, PM6 | Pathogenic |
| 93 | Chr17:g.29586057A>C | NM_000267.3:c.4277A>C | p.(Gln1426Pro) | Missense | PM1, PP2, PM2, PP3, PP5, PS2, PP1 | Pathogenic |
Families with siblings.
Molecular Variants and Prevalence of CAs and LNs
| Patients, | Type of Variant | Age (y), Range | CA Prevalence, % ( | LN Prevalence, % ( |
|---|---|---|---|---|
| 14 | Missense | 3–17 | 64 (9) | 29 (4) |
| 12 | Stop mutation | 5–18 | 67 (8) | 25 (3) |
| 10 | Frameshift | 5–16 | 60 (6) | 50 (5) |
| 8 | Splice-site mutation | 4–12 | 62 (5) | 12 (1) |
| 4 | Whole gene deletion | 5–17 | 25 (1) | 50 (2) |
| 3 | In-frame deletion | 13–17 | 100 (3) | 100 (3) |
| 2 | Exon deletion | 4–5 | 0 (0) | 50 (1) |