DeCure's autonomous Rare AI scientist is researching a drug-repurposing hypothesis for Treacher Collins syndrome 3 — screening already-approved drugs against its 1-gene Open Targets disease module to publish open-access research. Research is fast; the path to publication is funded in milestone stages.
Disease moduleTreacher Collins syndrome 3 maps to a 1-gene Open Targets module — the target space DeCure's AI scientist screens approved drugs against.
DeCure.ai methodSignature reversal (LINCS) plus network proximity (STRING) rank already-approved drugs likely to perturb this module — the same engine that produces DeCure.ai's repurposing hypotheses.
Repurposing thesisScreening approved medicines against this disease module, then publishing the evidence for the strongest candidate. Known pharmacology and human exposure data make the first question sharper — they do not establish safety or efficacy in a new indication.
Research record
01
ResearchComing soon
Candidate research + dossier — target rationale, drug-repurposing thesis and evidence pack.proof: Published dossier + on-chain hash
02
ValidationComing soon
In-vitro biological validation at a contract research org (CRO).proof: CRO contract + in-vitro report
03
Peer review & paperComing soon
Peer-reviewed paper published open-access (preprint + journal).proof: DOI + open-access link + on-chain hash
Current lead
No approved-drug candidate for treacher collins syndrome 3 is corroborated in the literature DeepSearch retrieved. Some conditions are managed with non-pharmacological care — a device, surgery or physical therapy — rather than a medicine; that may be the case here, or the literature we found may simply be too sparse yet to support a drug-repurposing angle.
Molecular view
RNA polymerase I and III subunit C (POLR1C) — POLR1C is one of the genes genetically linked to this disease in Open Targets — shown as context, not as a drug target we're pursuing: no approved-drug candidate for this disease is yet corroborated in the literature we found.
Loading structure…
helix sheet sf4drag to rotate · scroll to zoom
RCSB Protein Data Bank · entry 7AE1 · 2.8 Å · ligand IRON/SULFUR CLUSTER (SF4). Experimental structure, not a prediction.
What the evidence adds up to
A 2009 review of 50 patients treated over 30 years at the Australian Craniofacial Unit describes a three-epoch management protocol. From birth to age 2, airway and feeding were the main focus: four patients required tracheostomy, one of whom died, and the others received mandibular distraction. Eleven patients (23%) required cleft palate repair. From age 2 to 12, speech therapy and educational integration were critical, and upper face reconstruction was performed with bone grafts or vascularised bone flaps, both of which required repeat grafting later. From age 13 to 18, orthognathic surgery was performed, with further revision and bone grafting around age 18. Patients generally reported being happy with their appearance, and with few exceptions completed education, gained employment, and felt socially accepted.
A 2013 cephalometric study of 20 unoperated patients with Treacher Collins syndrome aged 5 to 17 years (mean 8.8 years) quantified the skeletal dysmorphology. Compared to age-matched and sex-matched controls, the patients had decreased anterior, posterior, and total cranial base lengths, a reduced cranial base angle, a deficient maxilla in anteroposterior dimension that was positioned posteriorly, and decreased anterior and posterior facial heights. Lower face height was increased while total face height was decreased. The mandible was characteristically small in body length and total mandibular length, with deficient maximum ramus width, increased mandibular plane angle and gonial angle, and retropositioning. The maxillary and functional occlusal planes were tipped upwards posteriorly.
The genetic basis is mutations in TCOF1, which encodes the protein treacle. A 2002 screening study confirmed that the majority of pathogenic mutations are small deletions and insertions causing frameshifts predicted to truncate the protein. More than 50% of described mutations cluster in five exons (10, 15, 16, 23, and 24), which are considered mutational hot spots. A commonly occurring 5 bp deletion in exon 24 is found in approximately 16% of families. No correlation exists between mutation type or localisation and phenotypic expression. A 2009 report identified a de novo synonymous mutation, c.3612A > C, that caused mis-splicing of a constitutive exon and haploinsufficiency, highlighting the need for clinical and pedigree evaluation to interpret sequence alterations. A 2004 case documented a novel de novo nonsense mutation 2731C --> T (Arg911Stop) in a patient with classic TCS plus craniosynostosis, choanal atresia, and esophageal regurgitation. A 2016 report described a heterozygous insertion c.2013_2014insG causing premature termination at 680aa.
What is still missing is a drug that targets the underlying haploinsufficiency of TCOF1 or the downstream effects on neural crest cell development. No pharmacological intervention is described in any of these abstracts. The management remains entirely surgical and supportive. A therapy would require a clear molecular target, a delivery method that reaches developing craniofacial structures in utero or early postnatally, and a trial design that can measure meaningful functional and aesthetic outcomes in a rare, phenotypically variable condition. Patient stratification by mutation type and severity of skeletal dysplasia would be necessary, and funding for such a trial would be difficult given the small patient population.
Evidence
Retrieved by DeepSearch across 234,678,978 indexed works and resolved on OpenAlex — ranked by citations, including the results that did not work.
Journal of Craniofacial Surgery · 2009 · 72 citations
Treacher Collins Syndrome
AbstractBACKGROUND: : Management of patients with Treacher Collins syndrome is complicated and involves multiple disciplines working in concert to achieve a common outcome. This article reviews the experience at the Australian Craniofacial Unit and describes the protocol for management. METHODS: : Fifty patients were treated during the last 30 years. The records of these patients were reviewed to establish what interventions they required and how these fit into a protocol for management. RESULTS: : The protocol for management of Treacher Collins syndrome can be divided into 3 epochs. In the first epoch from birth to age 2, airway and feeding problems were the main focus. Four patients required tracheostomy. Of these, 1 died and the others received mandibular distraction. Hearing is evaluated and addressed early. Eleven patients (23%) required repair of a cleft palate. In the second epoch (aged 2-12 y), speech therapy is critical as is a focus on integrating into the education system. During this epoch, reconstruction of the upper face was performed either with bone grafts or with vascularized bone flaps. Both required repeat bone grafts later. In the third epoch (aged 13-18 y), orthognathic surgery was performed. Revision surgery and further bone grafting were performed again at around age 18. Patients reported being generally happy with their appearance and with few exceptions were able to complete education, gain employment, and feel socially accepted. CONCLUSIONS: : Management of patients with Treacher Collins syndrome should be through a multidisciplinary protocol to achieve good results while minimizing confusion and unnecessary surgery.
Journal of Medical Genetics · 2002 · 65 citations · open access
Screening of <i>TCOF1</i> in patients from different populations: confirmation of mutational hot spots and identification of a novel missense mutation that suggests an important functional domain in the protein treacle
AbstractTreacher Collins syndrome (TCS, MIM *154500) is an autosomal dominant craniofacial disorder characterised by malar hypoplasia, micrognathia, downward slanting palpebral fissures, lower eyelid coloboma, malformed auricles, conductive deafness, and cleft palate. The estimated incidence is 1/50 000, with 60% of the cases resulting from sporadic mutations.1 There is marked phenotypic variability among patients, ranging from perinatal death because of a compromised airway to those that go undetected by medical examination. The gene underlying this condition, TCOF1 , was mapped in 19962 and since then mutation detection studies have concluded that: (1) the majority of pathogenic mutations are small deletions and insertions causing frameshifts that are predicted to result in a truncated protein; (2) mutations (both polymorphic and pathogenic) can be found throughout the 25 coding exons of the gene; (3) most mutations are family specific with the exception of a commonly occurring 5 bp deletion in exon 24 (found in approximately 16% of families); and (4) there is no correlation between type and/or localisation of the mutation and phenotypic expression.3–6 Furthermore, the observation that more than 50% of all described pathogenic mutations known to date are clustered in five exons (10, 15, 16, 23, and 24) has led to the hypothesis that these five exons are mutational hot spots, suggesting that any effort to identify mutations in TCOF1 would benefit from testing these five exons before extending the analysis to the rest of the gene.6
The protein encoded by the TCOF1 gene, treacle, has repetitive motifs encoded by exons 7-16, which are subject to phosphorylation by casein kinase II7 and a nucleolar localisation signal on its C-terminus.8 It bears weak similarity to a family of nucleolar phosphoproteins and its precise function remains unknown.9,10 In the present work, screening for TCOF1 mutations …
American Journal of Medical Genetics Part A · 2009 · 37 citations
A synonymous mutation in <i>TCOF1</i> causes Treacher Collins syndrome due to mis‐splicing of a constitutive exon
AbstractInterpretation of the pathogenicity of sequence alterations in disease-associated genes is challenging. This is especially true for novel alterations that lack obvious functional consequences. We report here on a patient with Treacher Collins syndrome (TCS) found to carry a previously reported mutation, c.122C > T, which predicts p.A41V, and a novel synonymous mutation, c.3612A > C. Pedigree analysis showed that the c.122C > T mutation segregated with normal phenotypes in multiple family members while the c.3612A > C was de novo in the patient. Analysis of TCOF1 RNA in lymphocytes showed a transcript missing exon 22. These results show that TCS in the patient is due to haploinsufficiency of TCOF1 caused by the synonymous de novo c.3612A > C mutation. This study highlights the importance of clinical and pedigree evaluation in the interpretation of known and novel sequence alterations.
Journal of Craniofacial Surgery · 2013 · 36 citations
Cephalometric Assessment of Craniofacial Morphology in Patients With Treacher Collins Syndrome
AbstractBACKGROUND AND PURPOSE: Treacher Collins syndrome is an autosomal dominant craniofacial disorder affecting derivatives of the first and second branchial arches. Given the conflicting reports in the literature regarding the extent of anterior-posterior and vertical (superior-inferior) dysplasia of the cranial base, maxilla, and mandible, this study was designed to provide a comprehensive lateral cephalometric assessment of the craniofacial morphology of unoperated patients with Treacher Collins syndrome. METHODS: The records of 45 patients with Treacher Collins syndrome registered at the Institute of Reconstructive Plastic Surgery of the NYU Langone Medical Center from the period of 1975 to 2008 were reviewed. Inclusion criteria included (1) patients between with the ages of 5 and 17 years, (2) no history of prior surgical intervention to correct skeletal deformity, and (3) diagnostic quality lateral cephalograms. Twenty patients satisfied the inclusion criteria with 12 male and 8 female patients in the sample and a mean age at the time of the lateral cephalogram of 8.8 years (range 5.2 to 16.7 years). Thirty angular and linear variables were measured to assess anterior-posterior and vertical (superior-inferior) position of the cranial base, maxilla, and mandible. Each patient's measurements were compared to age-matched and sex-matched control samples derived from the Moyers growth studies. The mean and standard deviation for each variable was then determined. RESULTS: Lateral cephalometric analysis showed decreased anterior, posterior, and total cranial base lengths and a reduced cranial base angle. The anteroposterior dimension or length of the maxilla is deficient and the maxilla is positioned posteriorly with respect to the cranial base. Both anterior and posterior facial heights (superior-inferior dimension) are decreased. Lower face height is increased, whereas total face is decreased. The maxillary and functional occlusal planes are tipped upwards posteriorly. The mandibular morphology is characteristically small in both body length and total mandibular length, and the maximum ramus width is also deficient. The mandibular plane angle and gonial angle are increased. The mandible is retropositioned. CONCLUSIONS: A lateral cephalometric analysis is described that provides a skeletal basis for the hallmark clinical findings associated with Treacher Collins syndrome. This is of importance because an understanding of the underlying skeletal dysmorphology may shed light on the etiology and growth pattern, and impacts the overall treatment planning for skeletal correction.
American Journal of Medical Genetics Part A · 2004 · 14 citations
Treacher Collins syndrome with craniosynostosis, choanal atresia, and esophageal regurgitation caused by a novel nonsense mutation in <i>TCOF1</i>
AbstractTreacher Collins syndrome (TCS) is caused by mutations in TCOF1 of the nonsense, small deletion, and small insertion types, which most likely result in haploinsufficiency. We report a novel de novo nonsense mutation 2731C --> T, resulting in Arg911Stop, which truncates the protein. Our patient had the classic findings of TCS, but with documented craniosynostosis, choanal atresia, and esophageal regurgitation.
Acta fytotechnica et zootechnica/Acta fytotechnica et zootechnica · 2016 · 0 citations · open access
Mutation in exon 13 of the TCOF1 gene in patient with Treacher Collins syndrome
AbstractTreacher Collins Syndrome (TCS) is associated with an abnormal differentiation of the first and the second pharyngeal arch during fetal development. This causes mostly craniofacial deformities, which require numerous corrective surgeries. TCS is an autosomal dominant disorder and it occurs in general population with the frequency of in 1 in 50,000 live births. TCS is caused by mutations in the TCOF1 gene. This gene encodes the serine/alanine-rich protein named Treacle. TCS can also be caused by mutations in the POLR1C and POLR1D genes. About 70% of recognized mutations of the TCOF1 gene are deletions, which lead to a frame shift, formation of termination codon and shortening of the protein product of the gene. A heterozygous insertion c.2013_2014insG was described in one patient with TCS. The insertion causes premature termination of translation at 680aa.
Disease module: DeepOracle (Open Targets). Structures: RDKit from PubChem SMILES. Literature: retrieved by DeepSearch across 234,678,978 indexed works (targeted per-candidate search), resolved on OpenAlex.
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