RARA.md
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# RARA
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-
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+## History
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+```mermaid
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+%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%
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+timeline
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+ title Publication timing
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+ 2017-10-10 : Reddy : DLBCL
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+```
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## Relevance tier by entity
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|Entity|Tier|Description |
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|FL |No |No |0.000 |0 |
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-> [!NOTE]
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-> First described in DLBCL in 2017 by [Reddy A](https://pubmed.ncbi.nlm.nih.gov/28985567)
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-
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View coding variants in ProteinPaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/RARA_protein.html) or [hg38](https://morinlab.github.io/LLMPP/GAMBL/RARA_protein_hg38.html)
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![image](images/gene_expression/RARA_by_pathology.svg)
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<!-- ORIGIN: reddyGeneticFunctionalDrivers2017 -->
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<!-- DLBCL: reddyGeneticFunctionalDrivers2017 -->
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+## References
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+1. Reddy A, Zhang J, Davis NS, Moffitt AB, Love CL, Waldrop A, Leppa S, Pasanen A, Meriranta L, Karjalainen-Lindsberg ML, Nørgaard P, Pedersen M, Gang AO, Høgdall E, Heavican TB, Lone W, Iqbal J, Qin Q, Li G, Kim SY, Healy J, Richards KL, Fedoriw Y, Bernal-Mizrachi L, Koff JL, Staton AD, Flowers CR, Paltiel O, Goldschmidt N, Calaminici M, Clear A, Gribben J, Nguyen E, Czader MB, Ondrejka SL, Collie A, Hsi ED, Tse E, Au-Yeung RKH, Kwong YL, Srivastava G, Choi WWL, Evens AM, Pilichowska M, Sengar M, Reddy N, Li S, Chadburn A, Gordon LI, Jaffe ES, Levy S, Rempel R, Tzeng T, Happ LE, Dave T, Rajagopalan D, Datta J, Dunson DB, Dave SS. Genetic and Functional Drivers of Diffuse Large B Cell Lymphoma. Cell. 2017 Oct;171(2):481-494.e15.
tier1_bl.md
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-# BL genes, Tier 1
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+# BL genes
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+## Origins of BL genes
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+![sankey](BL_sankey-1.svg)
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+## Tier 1 BL genes
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|Category |Gene|BL mutation frequency|gene|protein|
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| :---: | :----: | :---: | :---: | :---: |
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|1|[ARID1A](ARID1A)|28.64|[view](images/proteinpaint/ARID1A.svg)|[view](images/proteinpaint/ARID1A_NM_006015.svg)|
tier1_dlbcl.md
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# DLBCL genes
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## Origins of DLBCL genes
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![sankey](DLBCL_sankey-1.svg)
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-## Tier 1 genes
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+## Tier 1 DLBCL genes
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|Category|Gene|Frequency(GAMBL)|gene|protein|
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| :---: | :----: | :---: | :---: | :---: |
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|1-a|[ACTB](ACTB)|9.18|[view](images/proteinpaint/ACTB.svg)|[view](images/proteinpaint/ACTB_NM_001101.svg)|
tier1_fl.md
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-# FL genes, Tier 1
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+# FL genes
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+## Origins of FL genes
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+![sankey](FL_sankey-1.svg)
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+## Tier 1 FL genes
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|Category|Gene|FL Mutation frequency|gene|protein|
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| :---: | :----: | :---: | :---: | :---: |
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|1-a|[ACTB](ACTB)|5.31|[view](images/proteinpaint/ACTB.svg)|[view](images/proteinpaint/ACTB_NM_001101.svg)|
tier2_bl.md
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-# BL genes, Tier 2
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+# BL genes
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+## Origins of BL genes
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+![sankey](BL_sankey-1.svg)
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+## Tier 2 BL genes
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|Category|Gene|BL mutation frequency|gene|protein|
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| :---: | :----: | :---: | :---: | :---: |
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|2|[ALPK2](ALPK2)|3.93|[view](images/proteinpaint/ALPK2.svg)|[view](images/proteinpaint/ALPK2_NM_052947.svg)|
tier2_dlbcl.md
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# DLBCL genes
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## Origins of DLBCL genes
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![sankey](DLBCL_sankey-1.svg)
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-## Tier 2 genes
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+## Tier 2 DLBCL genes
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|Category|Gene|DLBCL mutation frequency |gene|protein|
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| :---: | :----: | :---: | :---: | :--: |
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|2|[ABI3BP](ABI3BP)|3.44|[view](images/proteinpaint/ABI3BP.svg)|[view](images/proteinpaint/ABI3BP_NM_015429.svg)|
tier2_fl.md
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-# FL genes, Tier 2
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+# FL genes
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+## Origins of FL genes
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+![sankey](FL_sankey-1.svg)
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+## Tier 2 FL genes
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|Category|Gene|FL mutation frequency|gene|protein|
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| :---: | :----: | :---: | :---: | :---: |
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|2|[ABL2](ABL2)|0.69|[view](images/proteinpaint/ABL2.svg)|[view](images/proteinpaint/ABL2_NM_007314.svg)|