| | Disease name | Disease category |
| GM1G | H00281 | GM1 gangliosidosis | Inherited metabolic disorder, Lysosomal disease |
| TSD | H02016 | Tay-Sachs disease | Inherited metabolic disorder, Lysosomal disease |
| SD | H02017 | Sandhoff disease | Inherited metabolic disorder, Lysosomal disease |
| Sialidosis | H00142 | Sialidosis | Inherited metabolic disorder, Lysosomal disease |
| GM2AB | H00124 | GM2 gangliosidoses | Inherited metabolic disorder, Lysosomal disease |
| GSL/BSVD6 | H00276 | Galactosialidosis | Inherited metabolic disorder, Lysosomal disease |
| H00877 | Brain small vessel disease | Cardiovascular disease |
| Fabry disease | H00125 | Fabry disease | Inherited metabolic disorder, Lysosomal disease |
| PARK24/PSAPD | H00057 | Parkinson disease | Neurodegenerative disease |
| H01239 | Combined SAP deficiency | Inherited metabolic disorder, Lysosomal disease |
| CLN10 | H02279 | Neuronal ceroid lipofuscinosis due to Cathepsin D deficiency | Inherited metabolic disorder, Lysosomal disease |
| Pycnodysostosis | H00273 | Pycnodysostosis | Inherited metabolic disorder, Lysosomal disease |
| FTD2/CLN11 | H00078 | Frontotemporal lobar degeneration | Neurodegenerative disease |
| H00149 | Neuronal ceroid lipofuscinosis | Inherited metabolic disorder, Lysosomal disease |
| GD | H00126 | Gaucher disease | Inherited metabolic disorder, Lysosomal disease |
| GDSAPC | H00126 | Gaucher disease | Inherited metabolic disorder, Lysosomal disease |
| KRB | H00135 | Krabbe disease | Inherited metabolic disorder, Lysosomal disease |
| KRBSAPA | H00135 | Krabbe disease | Inherited metabolic disorder, Lysosomal disease |
| MLD | H00127 | Metachromatic leukodystrophy | Inherited metabolic disorder, Lysosomal disease |
| MLDSAPB | H00127 | Metachromatic leukodystrophy | Inherited metabolic disorder, Lysosomal disease |
| NPD | H00137 | Niemann-Pick disease type A/B | Inherited metabolic disorder, Lysosomal disease |
| FRBRL | H00138 | Farber lipogranulomatosis | Inherited metabolic disorder, Lysosomal disease |
| GSDII | H01940 | Glycogen storage disease type II | Inherited metabolic disorder, Lysosomal disease |
| MPS2 | H00129 | Mucopolysaccharidosis type II | Inherited metabolic disorder, Lysosomal disease |
| MPS1 | H00128 | Mucopolysaccharidosis type I | Inherited metabolic disorder, Lysosomal disease |
| MPS6 | H00131 | Mucopolysaccharidosis type VI | Inherited metabolic disorder, Lysosomal disease |
| MPS9 | H00133 | Mucopolysaccharidosis type IX | Inherited metabolic disorder, Lysosomal disease |
| MPS3A | H00130 | Mucopolysaccharidosis type III | Inherited metabolic disorder, Lysosomal disease |
| MPS3C/RP73 | H00130 | Mucopolysaccharidosis type III | Inherited metabolic disorder, Lysosomal disease |
| H00527 | Retinitis pigmentosa | Nervous system disease |
| MPS3B/CMT2V | H00130 | Mucopolysaccharidosis type III | Inherited metabolic disorder, Lysosomal disease |
| H00264 | Charcot-Marie-Tooth disease | Neurodegenerative disease |
| MPS7 | H00132 | Mucopolysaccharidosis type VII | Inherited metabolic disorder, Lysosomal disease |
| MPS3D | H00130 | Mucopolysaccharidosis type III | Inherited metabolic disorder, Lysosomal disease |
| MPS4A | H00123 | Mucopolysaccharidosis type IV | Inherited metabolic disorder, Lysosomal disease |
| MPS4B | H00123 | Mucopolysaccharidosis type IV | Inherited metabolic disorder, Lysosomal disease |
| MSD | H00272 | Multiple sulfatase deficiency | Inherited metabolic disorder, Lysosomal disease |
| Fucosidosis | H00141 | Fucosidosis | Inherited metabolic disorder, Lysosomal disease |
| AGU | H00145 | Aspartylglucosaminuria | Inherited metabolic disorder, Lysosomal disease |
| MANSA | H00139 | alpha-Mannosidosis | Inherited metabolic disorder, Lysosomal disease |
| MANSB | H00140 | beta-Mannosidosis | Inherited metabolic disorder, Lysosomal disease |
| DFNA71/DEE81 | H00604 | Deafness, autosomal dominant | Nervous system disease |
| H00606 | Early infantile epileptic encephalopathy | Nervous system disease |
| KTZS | H02058 | Kohlschutter-Tonz syndrome | Nervous system disease |
| ARCL2D/DEE93 | H00557 | Cutis laxa | Congenital malformation |
| H00606 | Early infantile epileptic encephalopathy | Nervous system disease |
| DRTA2 | H00428 | Distal renal tubular acidosis | Urinary system disease |
| ZLS2/DOOD | H01573 | Zimmermann-Laband syndrome | Congenital malformation |
| H02219 | DDOD syndrome | Congenital malformation |
| ARCL2C | H00557 | Cutis laxa | Congenital malformation |
| DEE104/NEDEBA | H00606 | Early infantile epileptic encephalopathy | Nervous system disease |
| H03040 | Neurodevelopmental disorder with epilepsy and brain atrophy | Congenital malformation |
| ARCL2A/WSS | H00557 | Cutis laxa | Congenital malformation |
| OPTB1 | H00436 | Osteopetrosis | Congenital malformation |
| DRTA3 | H00428 | Distal renal tubular acidosis | Urinary system disease |
| EPEO3 | H02696 | Early-onset epilepsy | Nervous system disease |
| IMD47/CDG2S | H00119 | Congenital disorders of glycosylation type II | Inherited metabolic disorder |
| CLN1 | H02277 | Santavuori-Haltia disease | Inherited metabolic disorder, Lysosomal disease |
| CESD/WOLD | H00148 | Lysosomal acid lipase deficiency | Inherited metabolic disorder, Lysosomal disease |
| NPC2 | H00136 | Niemann-Pick disease type C | Inherited metabolic disorder, Lysosomal disease |
| NPC1 | H00136 | Niemann-Pick disease type C | Inherited metabolic disorder, Lysosomal disease |
| IDPOGSA | H03046 | Intellectual developmental disorder with poor growth and with or without seizures or ataxia | Congenital malformation |
| HTC3 | H02417 | Gingival fibromatosis with hypertrichosis | Congenital malformation |
| CFD | H00957 | Corneal fleck dystrophy | Nervous system disease |
| ALS11/CMT4J/BTOP/YVS | H00058 | Amyotrophic lateral sclerosis (ALS) | Neurodegenerative disease |
| H00264 | Charcot-Marie-Tooth disease | Neurodegenerative disease |
| H00271 | Polymicrogyria | Congenital malformation |
| H02127 | Yunis-Varon syndrome | Congenital malformation |
| SNDC | H02802 | Childhood-onset striatonigral degeneration | Nervous system disease |
| MLIV/LECD | H00144 | Mucolipidosis IV | Inherited metabolic disorder, Lysosomal disease |
| H02822 | Lisch epithelial corneal dystrophy | Nervous system disease |
| OPTA2/B4 | H00436 | Osteopetrosis | Congenital malformation |
| HOD | H03034 | Hypopigmentation, organomegaly, and delayed myelination and development | Congenital malformation |
| OPTB5 | H00436 | Osteopetrosis | Congenital malformation |
| CLN7/CCMD | H00149 | Neuronal ceroid lipofuscinosis | Inherited metabolic disorder, Lysosomal disease |
| H01770 | Macular dystrophy | Nervous system disease |
| TB | H00342 | Tuberculosis | Bacterial infectious disease |
| AHMIO1 | H01196 | Hypochromic microcytic anemia | Hematologic disease |
| H syndrome | H00815 | H syndrome | Congenital malformation |
| SD/ISSD | H00147 | Sialuria | Inherited metabolic disorder, Lysosomal disease |
| Cystinosis | H00275 | Cystinosis | Inherited metabolic disorder, Lysosomal disease |