, Ian T. Lagerstrom1
, Max Rogers1
, Kyle Simon1
, Nadine S. Aguilera2
, Aaron Auerbach3
1Walter Reed National Military Medical Center, Bethesda, MD, USA
2University of Virginia Health System, Charlottesville, VA, USA
3Joint Pathology Center, Silver Spring, MD, USA
© The Korean Society of Pathologists/The Korean Society for Cytopathology
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (https://creativecommons.org/licenses/by-nc/4.0) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
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Not applicable.
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Data sharing not applicable to this article as no datasets were generated or analyzed during the study.
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Not applicable.
Author Contributions
Conceptualization: DD, ITL, AA. Supervision: AA. Writing—original draft: DD, ITL, MR, KS. Writing—review & editing: all authors. Approval of final manuscript: all authors.
Conflicts of Interest
The authors declare that they have no potential conflicts of interest.
Funding Statement
No funding to declare.
Disclaimer
The views expressed in this manuscript are those of the authors and do not necessarily reflect the official policy or position of Walter Reed National Military Medical Center, the Joint Pathology Center, the Defense Health Agency, the Department of the Army, the Department of the Navy, the Department of War, or the U.S. Government. The identification of specific products, scientific instrumentation, or organizations is considered an integral part of the scientific endeavor and does not constitute endorsement or implied endorsement on the part of the authors, the Department of War, or any component agency. Several of the authors are military service members or employees of the U.S. Government. This work was prepared as part of their official duties.
| Subtype | Gene | Frequency (%) | Key genetic alterations | Prognosisa | Reference |
|---|---|---|---|---|---|
| NOTCH1 signaling pathway | NOTCH1, FBXW7 | Children: >50, adults: >50 | NOTCH1 activating mutations; FBXW7 inactivating mutations; noncanonical NOTCH1 dysregulation via intronic structural variants | Favorable with NOTCH1 mutation (NOTCH1 wild type is unfavorable); unfavorable with noncanonical NOTCH1 mutations | [14,15] |
| NOTCH1 fusions | Recurrent in T-LBL; absent in T-ALL | NOTCH1 gene fusions (mutually exclusive with NOTCH1 point mutations) | Unfavorable | [16] | |
| PI3K signaling pathway | PIK3CA, PTEN, KRAS, NRAS, MTOR | 5–20 | PIK3CA, KRAS, NRAS activating mutations; PTEN inactivating mutations/deletions | Unfavorable | [15,17] |
| JAK/STAT signaling pathway | JAK1, JAK3, STAT5B, IL7R | 5–10 | JAK1, JAK3, STAT5B, and IL7R activating mutations | Unclear | [14,15] |
| BHLH family transcription factor | TAL1 | 30–40 | STIL::TAL1, TRB::TAL1, TRD::TAL1 | Intermediate to unfavorable | [4,15,18,19] |
| Noncoding intronic insertions | |||||
| LYL1 | <2 | TCRB::LYL1 | Unclear | [4,18] | |
| LMO1 | 5 | LMO1::TRA, LMO1::TRD | Favorable | [4,18] | |
| LMO2 | 10–20 | TRA::LMO2, TRD::LMO2 | Favorable (with LMO2 expression) | [4,15,18,20] | |
| HOX family transcription factor | TLX1 | Children: 5–10, adults: 20–30 | TRA::TLX1, TRB::TLX1, TRD::TLX1 | Favorable | [4,15,18] |
| TLX3 | Children: 20–25, adults: <10 | TCR::TLX3, BCL11B::TLX3, CDK6::TLX3 | Unfavorable | [4,15,18] | |
| HOXA | 5–25 | HOXA9::TRB, HOXA10::TRB, SET::NUP214, PICALM::MLLT10, NUP214::ABL1, KMT2A::AFDN, NUP98 rearrangements | Intermediate | [14,18,21] | |
| NKX2-1, NKX2-2 | 10 | NKX2-1::TRA, NKX2-2::TRB | Favorable | [15,18] | |
| ETS family transcription factor | SPI1 | ~4 | STMN1::SPI1, TCF7::SPI1 | Unfavorable (very poor; enriched in children/young adults) | [4,14] |
| MYB family transcription factor | MYB | 7–17 | Chromosomal rearrangements and duplications | Unfavorable | [15,22] |
| Cell cycle regulation | CDKN2A, CDKN2B | 46–61 | Gene deletions or inactivating mutations | Unfavorable to intermediate | [15,23,24] |
| RB1 | 12 | Inactivating mutations or deletions | Unclear | [15] | |
| Epigenetic regulation | PHF6 | 20–40 | Inactivating mutations or deletions | Variable | [25] |
| DNMT3A | 10–15 | Inactivating mutations | Unfavorable | [15,26] | |
| EZH2, SUZ12, EED (PRC2) | T-ALL overall: ~14 | Inactivating mutations and deletions of PRC2 components (EZH2 ~7%, SUZ12 ~6%, EED ~4%) | Unfavorable | [27-29] |
Table summarizing the major categories of genetic alterations in T-ALL/LBL, including their approximate frequencies and prognostic significance. Numerous other genetic abnormalities have been reported that are not included in this table, and the prognostic significance of many alterations is still being investigated and will likely change over time.
T-ALL/LBL, T-lymphoblastic leukemia/lymphoma; T-LBL, T-cell lymphoblastic lymphoma; T-ALL, T-cell acute lymphoblastic leukemia.
aPrognosis is variable and dependent upon multiple additional factors including age, treatment regimen, measurable residual disease, and additional accompanying genetic alterations.
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| Subtype | Gene | Frequency (%) | Key genetic alterations | Prognosis |
Reference |
|---|---|---|---|---|---|
| NOTCH1 signaling pathway | NOTCH1, FBXW7 | Children: >50, adults: >50 | NOTCH1 activating mutations; FBXW7 inactivating mutations; noncanonical NOTCH1 dysregulation via intronic structural variants | Favorable with NOTCH1 mutation (NOTCH1 wild type is unfavorable); unfavorable with noncanonical NOTCH1 mutations | [14,15] |
| NOTCH1 fusions | Recurrent in T-LBL; absent in T-ALL | NOTCH1 gene fusions (mutually exclusive with NOTCH1 point mutations) | Unfavorable | [16] | |
| PI3K signaling pathway | PIK3CA, PTEN, KRAS, NRAS, MTOR | 5–20 | PIK3CA, KRAS, NRAS activating mutations; PTEN inactivating mutations/deletions | Unfavorable | [15,17] |
| JAK/STAT signaling pathway | JAK1, JAK3, STAT5B, IL7R | 5–10 | JAK1, JAK3, STAT5B, and IL7R activating mutations | Unclear | [14,15] |
| BHLH family transcription factor | TAL1 | 30–40 | STIL::TAL1, TRB::TAL1, TRD::TAL1 | Intermediate to unfavorable | [4,15,18,19] |
| Noncoding intronic insertions | |||||
| LYL1 | <2 | TCRB::LYL1 | Unclear | [4,18] | |
| LMO1 | 5 | LMO1::TRA, LMO1::TRD | Favorable | [4,18] | |
| LMO2 | 10–20 | TRA::LMO2, TRD::LMO2 | Favorable (with LMO2 expression) | [4,15,18,20] | |
| HOX family transcription factor | TLX1 | Children: 5–10, adults: 20–30 | TRA::TLX1, TRB::TLX1, TRD::TLX1 | Favorable | [4,15,18] |
| TLX3 | Children: 20–25, adults: <10 | TCR::TLX3, BCL11B::TLX3, CDK6::TLX3 | Unfavorable | [4,15,18] | |
| HOXA | 5–25 | HOXA9::TRB, HOXA10::TRB, SET::NUP214, PICALM::MLLT10, NUP214::ABL1, KMT2A::AFDN, NUP98 rearrangements | Intermediate | [14,18,21] | |
| NKX2-1, NKX2-2 | 10 | NKX2-1::TRA, NKX2-2::TRB | Favorable | [15,18] | |
| ETS family transcription factor | SPI1 | ~4 | STMN1::SPI1, TCF7::SPI1 | Unfavorable (very poor; enriched in children/young adults) | [4,14] |
| MYB family transcription factor | MYB | 7–17 | Chromosomal rearrangements and duplications | Unfavorable | [15,22] |
| Cell cycle regulation | CDKN2A, CDKN2B | 46–61 | Gene deletions or inactivating mutations | Unfavorable to intermediate | [15,23,24] |
| RB1 | 12 | Inactivating mutations or deletions | Unclear | [15] | |
| Epigenetic regulation | PHF6 | 20–40 | Inactivating mutations or deletions | Variable | [25] |
| DNMT3A | 10–15 | Inactivating mutations | Unfavorable | [15,26] | |
| EZH2, SUZ12, EED (PRC2) | T-ALL overall: ~14 | Inactivating mutations and deletions of PRC2 components (EZH2 ~7%, SUZ12 ~6%, EED ~4%) | Unfavorable | [27-29] |
Table summarizing the major categories of genetic alterations in T-ALL/LBL, including their approximate frequencies and prognostic significance. Numerous other genetic abnormalities have been reported that are not included in this table, and the prognostic significance of many alterations is still being investigated and will likely change over time. T-ALL/LBL, T-lymphoblastic leukemia/lymphoma; T-LBL, T-cell lymphoblastic lymphoma; T-ALL, T-cell acute lymphoblastic leukemia. Prognosis is variable and dependent upon multiple additional factors including age, treatment regimen, measurable residual disease, and additional accompanying genetic alterations.