ClinVar Miner

Variants studied for autosomal recessive osteopetrosis

Included ClinVar conditions (16):
Minimum submission review status: Collection method:
Minimum conflict level:
Gene type:
ClinVar version:

If a variant has more than one submission, it may be counted in more than one significance column. If this is the case, the total number of variants will be less than the sum of the other cells.

pathogenic likely pathogenic uncertain significance likely benign benign not provided total
117 186 659 326 127 7 1362

Gene and significance breakdown #

Total genes and gene combinations: 23
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Gene or gene combination pathogenic likely pathogenic uncertain significance likely benign benign not provided total
FERMT3 16 7 197 264 36 1 512
TCIRG1 58 137 211 27 16 1 406
TNFRSF11A 8 4 63 8 14 0 97
OSTM1 5 0 51 8 28 0 91
CA2 8 10 55 9 5 0 83
CLCN7 10 17 14 0 10 3 54
TNFSF11 3 1 22 2 7 0 35
LOC130009662, TNFSF11 0 0 14 3 4 2 22
CA2, CA3 1 0 8 0 1 0 10
SNX10 2 4 2 1 1 0 10
LOC126861753, TNFSF11 1 0 6 0 1 0 8
LOC129996933, OSTM1 1 1 4 2 0 0 8
LOC130062628, TNFRSF11A 0 0 4 0 1 0 5
LOC126861752, TNFSF11 0 0 1 1 2 0 3
PLEKHM1 1 0 2 0 0 0 3
SLC4A2 2 0 1 0 0 0 3
​intergenic 1 1 0 0 0 0 2
CLCN7, LOC130058166 0 0 0 1 1 0 2
FERMT3, LOC130005912 0 0 2 0 0 0 2
ITGB2 0 2 0 0 0 0 2
MIR6753, TCIRG1 0 2 0 0 0 0 2
AHNAK, ARL2, ASRGL1, ATG2A, ATL3, B3GAT3, BAD, BATF2, BEST1, BSCL2, CAPN1, CATSPERZ, CBLIF, CCDC86, CCDC88B, CD5, CD6, CDC42BPG, CDCA5, CHRM1, COX8A, CPSF7, CSKMT, CYB561A3, DAGLA, DDB1, DNAJC4, DTX4, EEF1G, EHD1, EML3, ESRRA, FADS1, FADS2, FADS3, FAM111A, FAU, FEN1, FERMT3, FKBP2, FLRT1, FTH1, GANAB, GNG3, GPHA2, GPR137, HNRNPUL2, INCENP, INTS5, KCNK4, LBHD1, LGALS12, LRRC10B, LRRN4CL, MACROD1, MAJIN, MAP4K2, MARK2, MEN1, MIR192, MIR194-2, MPEG1, MRPL16, MRPL49, MS4A1, MS4A10, MS4A12, MS4A13, MS4A14, MS4A15, MS4A18, MS4A2, MS4A3, MS4A4A, MS4A4E, MS4A5, MS4A6A, MS4A6E, MS4A7, MS4A8, MTA2, MYRF, NAA40, NAALADL1, NRXN2, NUDT22, NXF1, OOSP2, OR10V1, OR4D10, OR4D11, OR4D6, OR4D9, OR5A1, OR5A2, OR5AN1, OSBP, OTUB1, PATL1, PGA3, PGA4, PGA5, PLAAT2, PLAAT3, PLAAT4, PLAAT5, PLCB3, POLR2G, PPP1R14B, PPP2R5B, PRDX5, PRPF19, PTGDR2, PYGM, RAB3IL1, RASGRP2, RCOR2, ROM1, RPS6KA4, RTN3, SAC3D1, SAXO4, SCGB1A1, SCGB1D1, SCGB1D2, SCGB1D4, SCGB2A1, SCGB2A2, SDHAF2, SF1, SLC15A3, SLC22A10, SLC22A11, SLC22A12, SLC22A24, SLC22A25, SLC22A6, SLC22A8, SLC22A9, SLC3A2, SNHG1, SNORD22, SNORD25, SNORD26, SNORD27, SNORD28, SNORD29, SNORD30, SNORD31, SNX15, SPDYC, SPINDOC, STIP1, STX3, STX5, SYT7, SYVN1, TAF6L, TCN1, TKFC, TM7SF2, TMEM109, TMEM132A, TMEM138, TMEM179B, TMEM216, TMEM223, TMEM258, TRMT112, TRPT1, TTC9C, TUT1, UBXN1, UQCC3, VEGFB, VPS37C, VPS51, VWCE, WDR74, ZBTB3, ZFPL1, ZFTA, ZNHIT2, ZP1 0 0 1 0 0 0 1
LOC129998145, LOC129998146, LOC129998147, SNX10 0 0 1 0 0 0 1

Submitter and significance breakdown #

Total submitters: 62
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Submitter pathogenic likely pathogenic uncertain significance likely benign benign not provided total
Labcorp Genetics (formerly Invitae), Labcorp 7 6 195 260 36 0 504
Illumina Laboratory Services, Illumina 1 1 254 31 69 0 356
Fulgent Genetics, Fulgent Genetics 17 38 82 17 1 0 155
Natera, Inc. 9 3 96 17 13 0 138
Baylor Genetics 39 75 7 0 0 0 121
Counsyl 8 32 27 1 0 0 68
OMIM 40 0 0 0 0 0 40
Genome-Nilou Lab 0 0 2 1 21 0 24
Molecular Lab, Department of Haematology, Christian Medical College 16 4 1 0 0 0 21
Neuberg Centre For Genomic Medicine, NCGM 1 7 7 0 0 0 15
Revvity Omics, Revvity 5 3 6 0 0 0 14
Myriad Genetics, Inc. 1 11 1 0 0 0 13
3billion, Medical Genetics 5 4 3 1 0 0 13
Genomic Medicine Center of Excellence, King Faisal Specialist Hospital and Research Centre 4 5 3 0 0 0 12
Hadassah Hebrew University Medical Center 0 6 0 0 0 0 6
Kasturba Medical College, Manipal, Kasturba Medical College, Manipal, Manipal Academy of Higher Education, Manipal, India 4 1 1 0 0 0 6
Center for Genomics, Ann and Robert H. Lurie Children's Hospital of Chicago 0 0 6 0 0 0 6
Victorian Clinical Genetics Services, Murdoch Childrens Research Institute 4 1 0 0 0 0 5
Hereditary Research Laboratory, Bethlehem University 4 0 1 0 0 0 5
Molecular Diagnostics Laboratory, M Health Fairview: University of Minnesota 1 3 1 0 0 0 5
Genomic Research Center, Shahid Beheshti University of Medical Sciences 2 0 2 0 0 0 4
Greenwood Genetic Center Diagnostic Laboratories, Greenwood Genetic Center 1 2 0 0 0 0 3
Mendelics 2 0 0 0 1 0 3
GeneReviews 0 0 0 0 0 3 3
Foundation for Research in Genetics and Endocrinology, FRIGE's Institute of Human Genetics 0 1 2 0 0 0 3
Centre for Mendelian Genomics, University Medical Centre Ljubljana 0 3 0 0 0 0 3
Juno Genomics, Hangzhou Juno Genomics, Inc 2 1 0 0 0 0 3
Clinical Genetics DNA and cytogenetics Diagnostics Lab, Erasmus MC, Erasmus Medical Center 0 0 0 3 0 0 3
Diagnostics Services (NGS), CSIR - Centre For Cellular And Molecular Biology 1 2 0 0 0 0 3
GenomeConnect - Invitae Patient Insights Network 0 0 0 0 0 3 3
Laboratory for Molecular Medicine, Mass General Brigham Personalized Medicine 1 1 0 0 0 0 2
ARUP Laboratories, Molecular Genetics and Genomics, ARUP Laboratories 0 0 2 0 0 0 2
Genome Diagnostics Laboratory, University Medical Center Utrecht 0 0 0 2 0 0 2
Institute of Human Genetics Munich, Klinikum Rechts Der Isar, TU München 1 1 0 0 0 0 2
Center for Molecular Medicine, Children’s Hospital of Fudan University 2 0 0 0 0 0 2
Biochemical Molecular Genetic Laboratory, King Abdulaziz Medical City 1 0 1 0 0 0 2
St. Jude Molecular Pathology, St. Jude Children's Research Hospital 0 0 2 0 0 0 2
Lifecell International Pvt. Ltd 0 2 0 0 0 0 2
Intergen, Intergen Genetics and Rare Diseases Diagnosis Center 0 1 0 0 0 0 1
Women's Health and Genetics/Laboratory Corporation of America, LabCorp 1 0 0 0 0 0 1
Division of Human Genetics, Children's Hospital of Philadelphia 0 0 1 0 0 0 1
Institute for Medical Genetics and Human Genetics, Charité - Universitätsmedizin Berlin 0 1 0 0 0 0 1
Bioscientia Institut fuer Medizinische Diagnostik GmbH, Sonic Healthcare 1 0 0 0 0 0 1
Daryl Scott Lab, Baylor College of Medicine 1 0 0 0 0 0 1
Undiagnosed Diseases Network, NIH 0 0 1 0 0 0 1
Rady Children's Institute for Genomic Medicine, Rady Children's Hospital San Diego 1 0 0 0 0 0 1
Institute of Human Genetics, University of Leipzig Medical Center 1 0 0 0 0 0 1
GenomeConnect, ClinGen 0 0 0 0 0 1 1
Diagnostic Laboratory, Department of Genetics, University Medical Center Groningen 0 0 0 1 0 0 1
Broad Center for Mendelian Genomics, Broad Institute of MIT and Harvard 0 1 0 0 0 0 1
Laboratory of Medical Genetics, National & Kapodistrian University of Athens 0 1 0 0 0 0 1
Genomics Facility, Ludwig-Maximilians-Universität München 1 0 0 0 0 0 1
NYU Undiagnosed Diseases Program, NYU School of Medicine 1 0 0 0 0 0 1
Koker Lab, University of Erciyes Medical School 1 0 0 0 0 0 1
Pars Genome Lab 0 0 0 0 1 0 1
ISTH-SSC Genomics in Thrombosis and Hemostasis, KU Leuven, Center for Molecular and Vascular Biology 0 0 1 0 0 0 1
DASA 1 0 0 0 0 0 1
Clinical Genetics Laboratory, University Hospital Schleswig-Holstein 0 1 0 0 0 0 1
Laboratorio de Genetica e Diagnostico Molecular, Hospital Israelita Albert Einstein 0 0 1 0 0 0 1
Clinic of Clinical Immunology with Stem Cell Bank, Expert Centre for Rare Diseases - PID, University Hospital "Alexandrovska" 1 0 0 0 0 0 1
Payam Genetics Center, General Welfare Department of North Khorasan Province 0 0 1 0 0 0 1
MVZ Medizinische Genetik Mainz 0 0 1 0 0 0 1

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