Evidence map›Paper›PMID 27259050›Full record

ArticleAmerican journal of human genetics2016

Ataxia-Pancytopenia Syndrome Is Caused by Missense Mutations in SAMD9L.

Dong-Hui Chen, Jennifer E Below, Akiko Shimamura, Sioban B Keel, Mark Matsushita, John Wolff, Youngmee Sul, Emily Bonkowski, Maria Castella, Toshiyasu Taniguchi and 4 more

Open access · bronzeAbstract read
In one paragraph

Article in American journal of human genetics, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 105 papers.

0numbers the graph read from it
0cells of the map it votes in
105citing papers in PubMed
8.9field-weighted citation impact, top 2% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

105 citing papers in PubMed, 176 citations in OpenAlex.

  1. Trial
  2. ConstitutionalHaematologica · 2018
    Trial
  3. Article
  4. Article
  5. Article
  6. Review
  7. Review
  8. A De Novo Mutation (c.2423A>G) inHuman mutation · 2026
    Article
  9. Review
  10. Review
  11. Article
  12. Article
  13. Article
  14. Review
  15. Review
  16. Review
  17. Update on Recommendations for Surveillance for Children with Predisposition to Hematopoietic Malignancy.Clinical cancer research : an official journal of the American Association for Cancer Research · 2024
    Review
  18. Review
  19. Review
  20. Article

45 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

14 authors at 4 institutions in 1 country.

Dong-Hui ChenDepartment of Neurology, University of Washington School of Medicine, Seattle, WA 98195, USA.
Jennifer E BelowDepartment of Genome Sciences, University of Washington School of Medicine, Seattle, WA 98195, USA.
Akiko ShimamuraDepartment of Pediatrics, University of Washington School of Medicine, Seattle, WA 98195, USA; Division of Hematology, University of Washington School of Medicine, Seattle, WA 98195, USA; Seattle Children's Hospital, Seattle, WA 98105, USA; Fred Hutchinson Cancer Research Center, Seattle, WA 98109, USA.
Sioban B KeelDivision of Hematology, University of Washington School of Medicine, Seattle, WA 98195, USA.
Mark MatsushitaDivision of Medical Genetics, University of Washington School of Medicine, Seattle, WA 98195, USA.
John WolffDivision of Medical Genetics, University of Washington School of Medicine, Seattle, WA 98195, USA.
Youngmee SulDivision of Medical Genetics, University of Washington School of Medicine, Seattle, WA 98195, USA.
Emily BonkowskiDepartment of Neurology, University of Washington School of Medicine, Seattle, WA 98195, USA.
Maria CastellaFred Hutchinson Cancer Research Center, Seattle, WA 98109, USA.
Toshiyasu TaniguchiFred Hutchinson Cancer Research Center, Seattle, WA 98109, USA.
Deborah NickersonDepartment of Genome Sciences, University of Washington School of Medicine, Seattle, WA 98195, USA.
Thalia PapayannopoulouDivision of Hematology, University of Washington School of Medicine, Seattle, WA 98195, USA.
Thomas D BirdDepartment of Neurology, University of Washington School of Medicine, Seattle, WA 98195, USA; Division of Medical Genetics, University of Washington School of Medicine, Seattle, WA 98195, USA; Geriatric Research, Education, and Clinical Center, Veterans Administration Puget Sound Veterans Health Care Center, Seattle, WA 98108, USA. Electronic address: tomnroz@uw.edu.
Wendy H RaskindDivision of Medical Genetics, University of Washington School of Medicine, Seattle, WA 98195, USA; Geriatric Research, Education, and Clinical Center, Veterans Administration Puget Sound Veterans Health Care Center, Seattle, WA 98108, USA; Division of Psychiatry and Behavioral Sciences, University of Washington School of Medicine, Seattle, WA 98195, USA. Electronic address: wendyrun@uw.edu.
University of Washington · USFred Hutch Cancer Center · USUniversity of Washington Medical Center · USGeriatric Research Education and Clinical Center · US

Funding

UW Center for Mendelian GenomicsU54HG006493 · NHGRI · UNIVERSITY OF WASHINGTON · PI BAMSHAD, MICHAEL JOSEPH, NICKERSON, DEBORAH A · 2012 to 2015
$20.0M
UW Center for Mendelian GenomicsUM1HG006493 · NHGRI · UNIVERSITY OF WASHINGTON · PI BAMSHAD, MICHAEL JOSEPH, LEAL, SUZANNE M · 2016 to 2020
$15.3M
Comprehensive Sequencing and Analysis of Variation in NHLBI CohortsUC2HL102925 · NHLBI · BROAD INSTITUTE, INC. · PI ALTSHULER, DAVID, GABRIEL, STACEY · 2010 to 2010
$14.7M
Northwest Genomics CenterUC2HL102926 · NHLBI · UNIVERSITY OF WASHINGTON · PI GREEN, PHILIP P, NICKERSON, DEBORAH A · 2010 to 2010
$14.0M
Northwest Genomics CenterRC2HL102926 · NHLBI · UNIVERSITY OF WASHINGTON · PI GREEN, PHILIP P, NICKERSON, DEBORAH A · 2009 to 2009
$11.0M
Comprehensive Sequencing and Analysis of Variation in NHLBI CohortsRC2HL102925 · NHLBI · BROAD INSTITUTE, INC. · PI ALTSHULER, DAVID, GABRIEL, STACEY · 2009 to 2009
$10.2M
Translational Studies of Inherited Marrow Failure and Myelodysplastic SyndromesR24DK099808 · NIDDK · FRED HUTCHINSON CANCER RESEARCH CENTER · PI ABKOWITZ, JANIS L, EBERT, BENJAMIN LEVINE · 2013 to 2017
$8.2M
Next Generation gene discovery in neurogeneticsR01NS069719 · NINDS · UNIVERSITY OF WASHINGTON · PI RASKIND, WENDY H · 2010 to 2019
$5.0M
Next Generation Mendelian GeneticsRC2HG005608 · NHGRI · UNIVERSITY OF WASHINGTON · PI BAMSHAD, MICHAEL JOSEPH, NICKERSON, DEBORAH A · 2009 to 2010
$3.9M
WHI Sequencing Project (WHISP)UC2HL102924 · NHLBI · OHIO STATE UNIVERSITY · PI CARLSON, CHRISTOPHER S, JACKSON, REBECCA D · 2010 to 2010
$2.4M
WHI Sequencing Project (WHISP)RC2HL102924 · NHLBI · OHIO STATE UNIVERSITY · PI CARLSON, CHRISTOPHER S, JACKSON, REBECCA D · 2009 to 2009
$2.1M
Human Exome Sequencing in Six Well-Phenotyped NHLBI CohortsUC2HL103010 · NHLBI · UNIVERSITY OF VIRGINIA · PI RICH, STEPHEN S. · 2010 to 2010
$1.5M
ARRA NIH HHSCSRD VA I01 CX001006NHGRI NIH HHS RC2 HG005608NHGRI NIH HHS U54 HG006493NHGRI NIH HHS UM1 HG006493NHLBI NIH HHS RC2 HL102924NHLBI NIH HHS RC2 HL102925NHLBI NIH HHS RC2 HL102926NHLBI NIH HHS RC2 HL103010NHLBI NIH HHS UC2 HL102924NHLBI NIH HHS UC2 HL102925NHLBI NIH HHS UC2 HL102926NHLBI NIH HHS UC2 HL103010NIDDK NIH HHS R24 DK099808NINDS NIH HHS R01 NS069719
6 · The paper itself

Abstract

Ataxia-pancytopenia (AP) syndrome is characterized by cerebellar ataxia, variable hematologic cytopenias, and predisposition to marrow failure and myeloid leukemia, sometimes associated with monosomy 7. Here, in the four-generation family UW-AP, linkage analysis revealed four regions that provided the maximal LOD scores possible, one of which was in a commonly microdeleted chromosome 7q region. Exome sequencing identified a missense mutation (c.2640C>A, p.His880Gln) in the sterile alpha motif domain containing 9-like gene (SAMD9L) that completely cosegregated with disease. By targeted sequencing of SAMD9L, we subsequently identified a different missense mutation (c.3587G>C, p.Cys1196Ser) in affected members of the first described family with AP syndrome, Li-AP. Neither variant is reported in the public databases, both affect highly conserved amino acid residues, and both are predicted to be damaging. With time in culture, lymphoblastic cell lines (LCLs) from two affected individuals in family UW-AP exhibited copy-neutral loss of heterozygosity for large portions of the long arm of chromosome 7, resulting in retention of only the wild-type SAMD9L allele. Newly established LCLs from both individuals demonstrated the same phenomenon. In addition, targeted capture and sequencing of SAMD9L in uncultured blood DNA from both individuals showed bias toward the wild-type allele. These observations indicate in vivo hematopoietic mosaicism. The hematopoietic cytopenias that characterize AP syndrome and the selective advantage for clones that have lost the mutant allele support the postulated role of SAMD9L in the regulation of cell proliferation. Furthermore, we show that AP syndrome is distinct from the dyskeratoses congenita telomeropathies, with which it shares some clinical characteristics.

Indexed as

Chromosome AberrationsAdolescentAdultCerebellar AtaxiaChildChromosomes, Human, Pair 7ExomeFemaleGenetic LinkageGenotypeHigh-Throughput Nucleotide SequencingHumansIntracellular Signaling Peptides and ProteinsLoss of HeterozygosityMaleMiddle AgedIntracellular Signaling Peptides and ProteinsProteinsSAMD9 protein, humanTumor Suppressor Proteins

Identifiers

PMID27259050
PMCPMC4908176
OpenAlexW2410168491

What OpenQuestion holds

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.