Gene Score gda Association Type Type Original DB Sentence supporting the association PMID PMID Year
Entrez Id: 10735
Gene Symbol: STAG2
STAG2
0.010 AlteredExpression disease BEFREE Using whole mount in situ hybridization, we show that STAG2 and SMC1A are expressed in the prosencephalic neural folds during primary neurulation in the mouse, consistent with forebrain morphogenesis and holoprosencephaly pathogenesis. 31334757 2019
Entrez Id: 5881
Gene Symbol: RAC3
RAC3
0.010 GeneticVariation disease BEFREE A de novo variant in RAC3 causes severe global developmental delay and a middle interhemispheric variant of holoprosencephaly. 31420595 2019
Entrez Id: 7291
Gene Symbol: TWIST1
TWIST1
0.010 GeneticVariation disease BEFREE SRS overlaps with a mild form of holoprosencephaly (HPE), but array-CGH analysis and sequencing of some HPE-related genes (SEPT9, SHH and TWIST) did not reveal any variants in at least one family. 30936464 2019
Entrez Id: 10801
Gene Symbol: SEPTIN9
SEPTIN9
0.010 Biomarker disease BEFREE SRS overlaps with a mild form of holoprosencephaly (HPE), but array-CGH analysis and sequencing of some HPE-related genes (SEPT9, SHH and TWIST) did not reveal any variants in at least one family. 30936464 2019
Entrez Id: 8085
Gene Symbol: KMT2D
KMT2D
0.010 Biomarker disease BEFREE These two cases represent the first report on association between KMT2D and holoprosencephaly. 31282990 2019
Entrez Id: 8243
Gene Symbol: SMC1A
SMC1A
0.010 AlteredExpression disease BEFREE Using whole mount in situ hybridization, we show that STAG2 and SMC1A are expressed in the prosencephalic neural folds during primary neurulation in the mouse, consistent with forebrain morphogenesis and holoprosencephaly pathogenesis. 31334757 2019
Entrez Id: 5992
Gene Symbol: RFX4
RFX4
0.010 Biomarker disease BEFREE Homozygous deletion of Rfx4 resulted in formation of a single ventricle in the forebrain, and severe dorsoventral patterning defects in the telencephalon and midbrain at embryonic day 12.5, a collection of phenotypes that resembled human holoprosencephaly. 29298325 2018
Entrez Id: 847
Gene Symbol: CAT
CAT
0.010 AlteredExpression disease BEFREE As for the antioxidant status, HPE significantly (p < 0.05) increased glutathione level, as well as catalase and superoxide dismutase 1 and 2 activities. 29726706 2018
Entrez Id: 65250
Gene Symbol: CPLANE1
CPLANE1
0.010 GeneticVariation disease BEFREE Three of the remaining families had (likely) pathogenic variants in the JBTS gene C5orf42, and one patient had a novel de novo frameshift variant in SHH known to cause autosomal dominant holoprosencephaly. 29321670 2018
Entrez Id: 79600
Gene Symbol: TCTN1
TCTN1
0.010 GeneticVariation disease BEFREE Consistent with this, Tctn3 mutant mice exhibit holoprosencephaly and randomized heart looping and lack the floor plate in the neural tube, the phenotypes similar to those of Tctn1 and Tctn2 mutants. 28800946 2017
Entrez Id: 91653
Gene Symbol: BOC
BOC
0.010 GeneticVariation disease BEFREE Here, we report the identification of missense BOC variants in HPE patients. 28677295 2017
Entrez Id: 1571
Gene Symbol: CYP2E1
CYP2E1
0.010 Biomarker disease BEFREE We report here that t-butyl alcohol, which is neither a substrate nor an inhibitor of alcohol dehydrogenases or Cyp2E1, is a potent inducer of holoprosencephaly in Cdon mutant mice. 28441416 2017
Entrez Id: 26123
Gene Symbol: TCTN3
TCTN3
0.010 GeneticVariation disease BEFREE Consistent with this, Tctn3 mutant mice exhibit holoprosencephaly and randomized heart looping and lack the floor plate in the neural tube, the phenotypes similar to those of Tctn1 and Tctn2 mutants. 28800946 2017
Entrez Id: 5443
Gene Symbol: POMC
POMC
0.010 GeneticVariation disease BEFREE We identified a novel heterozygous nonsense mutation (c.2764T>C, Glu922Ter) in a case of PSIS without HPE who presented with neonatal hypoglycemia and cholestasis associated with GH, TSH, and ACTH deficiencies. 26529631 2016
Entrez Id: 10300
Gene Symbol: KATNB1
KATNB1
0.010 GeneticVariation disease BEFREE Surprisingly, Katnb1 null mutant mouse embryos display hallmarks of aberrant Sonic hedgehog signaling, including holoprosencephaly. 25521379 2014
Entrez Id: 90226
Gene Symbol: UCN2
UCN2
0.010 GeneticVariation disease BEFREE The main difference between the mutation positive SRP type II group and the mutation negative SRP type II group was the presence of holoprosencephaly and polymycrogyria in the mutation negative group. 22499340 2012
Entrez Id: 2290
Gene Symbol: FOXG1
FOXG1
0.010 GeneticVariation disease BEFREE Further delineation of the phenotype of chromosome 14q13 deletions: (positional) involvement of FOXG1 appears the main determinant of phenotype severity, with no evidence for a holoprosencephaly locus. 22636604 2012
Entrez Id: 5360
Gene Symbol: PLTP
PLTP
0.010 AlteredExpression disease BEFREE Insulin treatment of HPEC significantly increased secreted PLTP levels and activity. 22090281 2012
Entrez Id: 253959
Gene Symbol: RALGAPA1
RALGAPA1
0.010 Biomarker disease BEFREE The deletion of the potential HPE candidate genes NPAS3, EAPP, SNX6, and TULIP1, raises doubts about their pathologic role in determining HPE. 22581785 2012
Entrez Id: 2932
Gene Symbol: GSK3B
GSK3B
0.010 GeneticVariation disease BEFREE A search for significant aCGH findings in individuals referred for testing for HPE revealed a novel association of a duplication involving GSK3B at 3q13.33 with HPE or a microform, seen in two unrelated individuals. 20066439 2010
Entrez Id: 3170
Gene Symbol: FOXA2
FOXA2
0.010 AlteredExpression disease BEFREE Frank holoprosencephaly was present in 11 individuals with deletions of one of the common HPE genes SHH, ZIC2, SIX3, and TGIF1, in one individual with a deletion of the HPE8 locus at 14q13, and in one individual with a deletion of FGF8, whereas deletions of other HPE loci and candidate genes (FOXA2 and LRP2) expressed microforms of HPE. 20066439 2010
Entrez Id: 8646
Gene Symbol: CHRD
CHRD
0.010 GeneticVariation disease BEFREE Study of Chordin;Noggin mutant mice is helping us to understand the molecular, cellular, and genetic pathogenesis of HPE and associated malformations. 20104603 2010
Entrez Id: 11197
Gene Symbol: WIF1
WIF1
0.010 Biomarker disease BEFREE Although individuals with deletions of other HPE candidates (DISP1, LSS, HHIP, SMO, BMP4, CDON, CDC42, ACVR2A, OTX2, and WIF1) had clinically significant features, none had frank HPE or a microform. 20066439 2010
Entrez Id: 2070
Gene Symbol: EYA4
EYA4
0.010 Biomarker disease BEFREE These results demonstrate physical and functional association between EYA4 and SIX3, suggesting that EYA4 is a novel candidate gene of HPE, whose haploinsufficiency leads to HPE through the compromised function of SIX3. 19606496 2009
Entrez Id: 106049960
Gene Symbol: SBE2
SBE2
0.010 GeneticVariation disease BEFREE Moreover, Six3 with HPE-causing alterations failed to bind and activate SBE2. 18836447 2008