Evidence map›Paper›PMID 26377837›Full record

ArticleGenome research2015

Exome sequencing of lymphomas from three dog breeds reveals somatic mutation patterns reflecting genetic background.

Ingegerd Elvers, Jason Turner-Maier, Ross Swofford, Michele Koltookian, Jeremy Johnson, Chip Stewart, Cheng-Zhong Zhang, Steven E Schumacher, Rameen Beroukhim, Mara Rosenberg and 8 more

Open access · bronzeAbstract read
In one paragraph

Article in Genome research, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 66 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
66citing papers in PubMed, 1 pooled it
–field-weighted citation impact
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

66 citing papers in PubMed, 1 synthesis or guideline pooled it, 124 citations in OpenAlex.

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6 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

18 authors at 4 institutions in 2 countries.

Ingegerd ElversBroad Institute, Cambridge, Massachusetts 02142, USA; Science for Life Laboratory, Department of Medical Biochemistry and Microbiology, Uppsala University, Uppsala SE 751 23, Sweden;
Jason Turner-MaierBroad Institute, Cambridge, Massachusetts 02142, USA;
Ross SwoffordBroad Institute, Cambridge, Massachusetts 02142, USA;
Michele KoltookianBroad Institute, Cambridge, Massachusetts 02142, USA;
Jeremy JohnsonBroad Institute, Cambridge, Massachusetts 02142, USA;
Chip StewartBroad Institute, Cambridge, Massachusetts 02142, USA;
Cheng-Zhong ZhangBroad Institute, Cambridge, Massachusetts 02142, USA; Dana-Farber Cancer Institute, Boston, Massachusetts 02215, USA;
Steven E SchumacherBroad Institute, Cambridge, Massachusetts 02142, USA; Dana-Farber Cancer Institute, Boston, Massachusetts 02215, USA;
Rameen BeroukhimBroad Institute, Cambridge, Massachusetts 02142, USA; Dana-Farber Cancer Institute, Boston, Massachusetts 02215, USA;
Mara RosenbergBroad Institute, Cambridge, Massachusetts 02142, USA;
Rachael ThomasNorth Carolina State University, Raleigh, North Carolina 27695, USA;
Evan MauceliBroad Institute, Cambridge, Massachusetts 02142, USA;
Gad GetzBroad Institute, Cambridge, Massachusetts 02142, USA; Harvard Medical School, Boston, Massachusetts 02115, USA; Massachusetts General Hospital, Boston, Massachusetts 02114, USA;
Federica Di PalmaBroad Institute, Cambridge, Massachusetts 02142, USA;
Jaime F ModianoAnimal Cancer Care and Research Program, College of Veterinary Medicine, and Masonic Cancer Center, University of Minnesota, Minneapolis, Minnesota 55455, USA;
Matthew BreenNorth Carolina State University, Raleigh, North Carolina 27695, USA; University of North Carolina Lineberger Comprehensive Cancer Center, Chapel Hill, North Carolina 27514, USA.
Kerstin Lindblad-TohBroad Institute, Cambridge, Massachusetts 02142, USA; Science for Life Laboratory, Department of Medical Biochemistry and Microbiology, Uppsala University, Uppsala SE 751 23, Sweden;
Jessica AlföldiBroad Institute, Cambridge, Massachusetts 02142, USA;
Broad Institute · USNorth Carolina State University · USUniversity of Minnesota · USUniversity of North Carolina at Chapel Hill · US

Funding

Large Scale Sequencing and Analysis of GenomesU54HG003067 · NHGRI · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI GABRIEL, STACEY, LANDER, ERIC S · 2004 to 2015
$568.6M
NHGRI NIH HHS U54 HG003067NHGRI NIH HHS U54HG003067-08
6 · The paper itself

Abstract

Lymphoma is the most common hematological malignancy in developed countries. Outcome is strongly determined by molecular subtype, reflecting a need for new and improved treatment options. Dogs spontaneously develop lymphoma, and the predisposition of certain breeds indicates genetic risk factors. Using the dog breed structure, we selected three lymphoma predisposed breeds developing primarily T-cell (boxer), primarily B-cell (cocker spaniel), and with equal distribution of B- and T-cell lymphoma (golden retriever), respectively. We investigated the somatic mutations in B- and T-cell lymphomas from these breeds by exome sequencing of tumor and normal pairs. Strong similarities were evident between B-cell lymphomas from golden retrievers and cocker spaniels, with recurrent mutations in TRAF3-MAP3K14 (28% of all cases), FBXW7 (25%), and POT1 (17%). The FBXW7 mutations recurrently occur in a specific codon; the corresponding codon is recurrently mutated in human cancer. In contrast, T-cell lymphomas from the predisposed breeds, boxers and golden retrievers, show little overlap in their mutation pattern, sharing only one of their 15 most recurrently mutated genes. Boxers, which develop aggressive T-cell lymphomas, are typically mutated in the PTEN-mTOR pathway. T-cell lymphomas in golden retrievers are often less aggressive, and their tumors typically showed mutations in genes involved in cellular metabolism. We identify genes with known involvement in human lymphoma and leukemia, genes implicated in other human cancers, as well as novel genes that could allow new therapeutic options.

Indexed as

ExomeGenetic BackgroundAnimalsB-LymphocytesCell Cycle ProteinsDisease Models, AnimalDNA Copy Number VariationsDogsF-Box ProteinsF-Box-WD Repeat-Containing Protein 7HumansLymphoma, B-CellMutationNF-kappaB-Inducing KinaseProtein Serine-Threonine KinasesSequence AlignmentCell Cycle ProteinsF-Box ProteinsF-Box-WD Repeat-Containing Protein 7FBXW7 protein, humanNF-kappaB-Inducing KinasePOT1 protein, humanProtein Serine-Threonine KinasesShelterin ComplexTelomere-Binding ProteinsTNF Receptor-Associated Factor 3Ubiquitin-Protein Ligases

Identifiers

PMID26377837
PMCPMC4617960
OpenAlexW2179186936

What OpenQuestion holds

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LicenceCC BY
Read underepoch 390

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.