Literature DB >> 26258847

Genomic analysis of mycosis fungoides and Sézary syndrome identifies recurrent alterations in TNFR2.

Alexander Ungewickell1,2, Aparna Bhaduri1, Eon Rios1, Jason Reuter3, Carolyn S Lee1, Angela Mah1, Ashley Zehnder1, Robert Ohgami4, Shashikant Kulkarni5,6,7, Randall Armstrong8, Wen-Kai Weng8, Dita Gratzinger4, Mahkam Tavallaee9, Alain Rook10, Michael Snyder3, Youn Kim9, Paul A Khavari1,11.   

Abstract

Mycosis fungoides and Sézary syndrome comprise the majority of cutaneous T cell lymphomas (CTCLs), disorders notable for their clinical heterogeneity that can present in skin or peripheral blood. Effective treatment options for CTCL are limited, and the genetic basis of these T cell lymphomas remains incompletely characterized. Here we report recurrent point mutations and genomic gains of TNFRSF1B, encoding the tumor necrosis factor receptor TNFR2, in 18% of patients with mycosis fungoides and Sézary syndrome. Expression of the recurrent TNFR2 Thr377Ile mutant in T cells leads to enhanced non-canonical NF-κB signaling that is sensitive to the proteasome inhibitor bortezomib. Using an integrative genomic approach, we additionally discovered a recurrent CTLA4-CD28 fusion, as well as mutations in downstream signaling mediators of these receptors.

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Year:  2015        PMID: 26258847      PMCID: PMC6091217          DOI: 10.1038/ng.3370

Source DB:  PubMed          Journal:  Nat Genet        ISSN: 1061-4036            Impact factor:   38.330


  29 in total

Review 1.  CD28-mediated co-stimulation: a quantitative support for TCR signalling.

Authors:  Oreste Acuto; Frédérique Michel
Journal:  Nat Rev Immunol       Date:  2003-12       Impact factor: 53.106

2.  VarScan: variant detection in massively parallel sequencing of individual and pooled samples.

Authors:  Daniel C Koboldt; Ken Chen; Todd Wylie; David E Larson; Michael D McLellan; Elaine R Mardis; George M Weinstock; Richard K Wilson; Li Ding
Journal:  Bioinformatics       Date:  2009-06-19       Impact factor: 6.937

3.  Characterization of the DNA copy-number genome in the blood of cutaneous T-cell lymphoma patients.

Authors:  William M Lin; Julia M Lewis; Renata B Filler; Badri G Modi; Kacie R Carlson; Swapna Reddy; Adam Thornberg; Gordon Saksena; Sheila Umlauf; Patrick A Oberholzer; Maria Karpova; Gad Getz; Shrikant Mane; Levi A Garraway; Reinhard Dummer; Carole L Berger; Richard L Edelson; Michael Girardi
Journal:  J Invest Dermatol       Date:  2011-09-01       Impact factor: 8.551

4.  FACTERA: a practical method for the discovery of genomic rearrangements at breakpoint resolution.

Authors:  Aaron M Newman; Scott V Bratman; Henning Stehr; Luke J Lee; Chih Long Liu; Maximilian Diehn; Ash A Alizadeh
Journal:  Bioinformatics       Date:  2014-08-20       Impact factor: 6.937

Review 5.  Clinical blockade of PD1 and LAG3--potential mechanisms of action.

Authors:  Linh T Nguyen; Pamela S Ohashi
Journal:  Nat Rev Immunol       Date:  2015-01       Impact factor: 53.106

6.  Rearranged NFKB2 gene in the HUT78 T-lymphoma cell line codes for a constitutively nuclear factor lacking transcriptional repressor functions.

Authors:  J Zhang; C C Chang; L Lombardi; R Dalla-Favera
Journal:  Oncogene       Date:  1994-07       Impact factor: 9.867

7.  dbNSFP v2.0: a database of human non-synonymous SNVs and their functional predictions and annotations.

Authors:  Xiaoming Liu; Xueqiu Jian; Eric Boerwinkle
Journal:  Hum Mutat       Date:  2013-07-10       Impact factor: 4.878

8.  Personalized treatment of Sézary syndrome by targeting a novel CTLA4:CD28 fusion.

Authors:  Aleksandar Sekulic; Winnie S Liang; Waibhav Tembe; Tyler Izatt; Semyon Kruglyak; Jeffrey A Kiefer; Lori Cuyugan; Victoria Zismann; Christophe Legendre; Mark R Pittelkow; John J Gohmann; Fernando R De Castro; Jeffrey Trent; John Carpten; David W Craig; Timothy K McDaniel
Journal:  Mol Genet Genomic Med       Date:  2014-11-27       Impact factor: 2.183

9.  Targeted capture and massively parallel sequencing of 12 human exomes.

Authors:  Sarah B Ng; Emily H Turner; Peggy D Robertson; Steven D Flygare; Abigail W Bigham; Choli Lee; Tristan Shaffer; Michelle Wong; Arindam Bhattacharjee; Evan E Eichler; Michael Bamshad; Deborah A Nickerson; Jay Shendure
Journal:  Nature       Date:  2009-08-16       Impact factor: 49.962

10.  TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions.

Authors:  Daehwan Kim; Geo Pertea; Cole Trapnell; Harold Pimentel; Ryan Kelley; Steven L Salzberg
Journal:  Genome Biol       Date:  2013-04-25       Impact factor: 13.583

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  99 in total

1.  Gene expression analysis in Cutaneous T-Cell Lymphomas (CTCL) highlights disease heterogeneity and potential diagnostic and prognostic indicators.

Authors:  Ivan V Litvinov; Michael T Tetzlaff; Philippe Thibault; Pamela Gangar; Linda Moreau; Andrew K Watters; Elena Netchiporouk; Kevin Pehr; Victor G Prieto; Elham Rahme; Nathalie Provost; Martin Gilbert; Denis Sasseville; Madeleine Duvic
Journal:  Oncoimmunology       Date:  2017-03-17       Impact factor: 8.110

Review 2.  Ontogeny, Genetics, Molecular Biology, and Classification of B- and T-Cell Non-Hodgkin Lymphoma.

Authors:  Russell James Hubbard Ryan; Ryan Alan Wilcox
Journal:  Hematol Oncol Clin North Am       Date:  2019-05-18       Impact factor: 3.722

Review 3.  Update on the classification of T-cell lymphomas, Hodgkin lymphomas, and histiocytic/dendritic cell neoplasms.

Authors:  Akira Satou; N Nora Bennani; Andrew L Feldman
Journal:  Expert Rev Hematol       Date:  2019-07-31       Impact factor: 2.929

4.  Diminished microRNA-29b level is associated with BRD4-mediated activation of oncogenes in cutaneous T-cell lymphoma.

Authors:  Rebecca Kohnken; Jing Wen; Bethany Mundy-Bosse; Kathleen McConnell; Ashleigh Keiter; Leah Grinshpun; Alex Hartlage; Max Yano; Betina McNeil; Nitin Chakravarti; Basem William; James E Bradner; Michael A Caligiuri; Pierluigi Porcu; Anjali Mishra
Journal:  Blood       Date:  2017-11-27       Impact factor: 22.113

Review 5.  Sézary Syndrome: Clinical and Biological Aspects.

Authors:  Rebecca Kohnken; Stephanie Fabbro; Justin Hastings; Pierluigi Porcu; Anjali Mishra
Journal:  Curr Hematol Malig Rep       Date:  2016-12       Impact factor: 3.952

Review 6.  Molecular Insights Into Pathogenesis of Peripheral T Cell Lymphoma: a Review.

Authors:  Waseem Lone; Aisha Alkhiniji; Jayadev Manikkam Umakanthan; Javeed Iqbal
Journal:  Curr Hematol Malig Rep       Date:  2018-08       Impact factor: 3.952

7.  Exogenous expression of SAMHD1 inhibits proliferation and induces apoptosis in cutaneous T-cell lymphoma-derived HuT78 cells.

Authors:  Karthik M Kodigepalli; Minghua Li; Shan-Lu Liu; Li Wu
Journal:  Cell Cycle       Date:  2016-12-08       Impact factor: 4.534

8.  Single-cell heterogeneity in Sézary syndrome.

Authors:  Terkild Brink Buus; Andreas Willerslev-Olsen; Simon Fredholm; Edda Blümel; Claudia Nastasi; Maria Gluud; Tengpeng Hu; Lise M Lindahl; Lars Iversen; Hanne Fogh; Robert Gniadecki; Ivan V Litvinov; Jenny L Persson; Charlotte Menné Bonefeld; Carsten Geisler; Jan Pravsgaard Christensen; Thorbjørn Krejsgaard; Thomas Litman; Anders Woetmann; Niels Ødum
Journal:  Blood Adv       Date:  2018-08-28

Review 9.  The TNF Receptor Superfamily in Co-stimulating and Co-inhibitory Responses.

Authors:  Lindsay K Ward-Kavanagh; Wai Wai Lin; John R Šedý; Carl F Ware
Journal:  Immunity       Date:  2016-05-17       Impact factor: 31.745

Review 10.  Coinhibitory Pathways in the B7-CD28 Ligand-Receptor Family.

Authors:  Frank A Schildberg; Sarah R Klein; Gordon J Freeman; Arlene H Sharpe
Journal:  Immunity       Date:  2016-05-17       Impact factor: 31.745

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