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SETBP1 gene

SET binding protein 1

Normal Function

The SETBP1 gene provides instructions for making a protein called SET binding protein 1 (SETBP1), which is found in cells throughout the body. The SETBP1 protein is part of a group of proteins that attaches (binds) to certain regions of DNA to increase gene activity (expression). The protein primarily binds to sections called promoter regions, which control (regulate) the production of proteins.

SETBP1 protein levels are highest during brain development before birth. During this time, nerve cells grow and divide (proliferate) and move (migrate) to their proper location in the brain. The SETBP1 protein is thought to control genes that are involved in these developmental processes.

Health Conditions Related to Genetic Changes

Schinzel-Giedion syndrome

At least 16 mutations in the SETBP1 gene have been identified in children with Schinzel-Giedion syndrome, a severe condition apparent at birth that is characterized by distinctive facial features and abnormalities in many body systems. The gene mutations in affected individuals typically occur in a region of the gene known as exon 4. All of these mutations result in the change of single protein building blocks (amino acids) in the SETBP1 protein. These mutations are described as "gain-of-function" mutations because they increase the activity of the SETBP1 protein. Increased SETBP1 protein activity probably alters the expression of other genes, particularly genes involved in development before birth, and likely contributes to the many features of Schinzel-Giedion syndrome. However, the exact mechanism that causes this condition is still unclear.

More About This Health Condition

SETBP1 haploinsufficiency disorder

SETBP1 gene mutations have been found to cause a condition called SETBP1 disorder. This condition is not as severe as Schinzel-Giedion syndrome (described above) and is characterized by speech and language problems, intellectual disability, and distinct facial features.

SETBP1 disorder can be caused by insertions or deletions of small amounts of DNA within the SETBP1 gene. In some cases, SETBP1 disorder results from the loss of a small piece of chromosome 18 that contains the SETBP1 gene. It is unclear whether the type of mutation influences the severity of the condition as the signs and symptoms of SETBP1 disorder vary among affected individuals, even among those with similar mutations.

In contrast to the SETBP1 gene mutations that cause Schinzel-Giedion syndrome, the mutations that cause SETBP1 disorder are known as "loss-of-function" because they prevent the production of any functional SETBP1 protein. It is unclear how the loss of SETBP1 protein leads to the specific features of SETBP1 disorder. A shortage of this protein probably impairs the expression of certain genes in the brain, disrupting development. Abnormalities in certain brain regions likely underlie the speech, intellectual, and behavioral problems that can occur in SETBP1 disorder.

More About This Health Condition


Mutations in the SETBP1 gene have been associated with cancers of blood-forming cells, including juvenile myelomonocytic leukemia, acute myeloid leukemia, chronic myeloid leukemia, and myelodysplastic syndrome. These mutations are somatic, which means they are acquired during a person's lifetime and are present only in cells that give rise to cancer.

The mutations associated with these conditions are likely "gain-of-function," which means that they lead to production of an overactive SETBP1 protein. Researchers believe that the overactive SETBP1 protein increases the activity of certain genes. The increase in gene activity likely promotes the growth of cancers by allowing abnormal blood cells to grow and divide uncontrollably, although the exact mechanism is unknown.

Other Names for This Gene

  • KIAA0437
  • SEB
  • SET-binding protein
  • SET-binding protein isoform a
  • SET-binding protein isoform b

Additional Information & Resources

Tests Listed in the Genetic Testing Registry

Scientific Articles on PubMed

Catalog of Genes and Diseases from OMIM

Gene and Variant Databases


  • Acuna-Hidalgo R, Deriziotis P, Steehouwer M, Gilissen C, Graham SA, van Dam S, Hoover-Fong J, Telegrafi AB, Destree A, Smigiel R, Lambie LA, Kayserili H, Altunoglu U, Lapi E, Uzielli ML, Aracena M, Nur BG, Mihci E, Moreira LM, Borges Ferreira V, Horovitz DD, da Rocha KM, Jezela-Stanek A, Brooks AS, Reutter H, Cohen JS, Fatemi A, Smitka M, Grebe TA, Di Donato N, Deshpande C, Vandersteen A, Marques Lourenco C, Dufke A, Rossier E, Andre G, Baumer A, Spencer C, McGaughran J, Franke L, Veltman JA, De Vries BB, Schinzel A, Fisher SE, Hoischen A, van Bon BW. Overlapping SETBP1 gain-of-function mutations in Schinzel-Giedion syndrome and hematologic malignancies. PLoS Genet. 2017 Mar 27;13(3):e1006683. doi: 10.1371/journal.pgen.1006683. eCollection 2017 Mar. Citation on PubMed or Free article on PubMed Central
  • Hoischen A, van Bon BW, Gilissen C, Arts P, van Lier B, Steehouwer M, de Vries P, de Reuver R, Wieskamp N, Mortier G, Devriendt K, Amorim MZ, Revencu N, Kidd A, Barbosa M, Turner A, Smith J, Oley C, Henderson A, Hayes IM, Thompson EM, Brunner HG, de Vries BB, Veltman JA. De novo mutations of SETBP1 cause Schinzel-Giedion syndrome. Nat Genet. 2010 Jun;42(6):483-5. doi: 10.1038/ng.581. Epub 2010 May 2. Citation on PubMed
  • Perdue MV, Mascheretti S, Kornilov SA, Jasinska KK, Ryherd K, Einar Mencl W, Frost SJ, Grigorenko EL, Pugh KR, Landi N. Common variation within the SETBP1 gene is associated with reading-related skills and patterns of functional neural activation. Neuropsychologia. 2019 Jul;130:44-51. doi: 10.1016/j.neuropsychologia.2018.07.015. Epub 2018 Aug 23. Citation on PubMed or Free article on PubMed Central
  • Piazza R, Magistroni V, Redaelli S, Mauri M, Massimino L, Sessa A, Peronaci M, Lalowski M, Soliymani R, Mezzatesta C, Pirola A, Banfi F, Rubio A, Rea D, Stagno F, Usala E, Martino B, Campiotti L, Merli M, Passamonti F, Onida F, Morotti A, Pavesi F, Bregni M, Broccoli V, Baumann M, Gambacorti-Passerini C. SETBP1 induces transcription of a network of development genes by acting as an epigenetic hub. Nat Commun. 2018 Jun 6;9(1):2192. doi: 10.1038/s41467-018-04462-8. Citation on PubMed or Free article on PubMed Central
  • Suphapeetiporn K, Srichomthong C, Shotelersuk V. SETBP1 mutations in two Thai patients with Schinzel-Giedion syndrome. Clin Genet. 2011 Apr;79(4):391-3. doi: 10.1111/j.1399-0004.2010.01552.x. No abstract available. Citation on PubMed

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