Changes in b244c25: updates for MCL

				CCND1.md
			
          @@ -4,7 +4,7 @@

           %%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%

           timeline

               title Publication timing

          -      2013-11-05 : Be : MCL

          +      2013-11-05 : Bea : MCL

           ```

           ## Relevance tier by entity

				HNRNPH1.md
			
          @@ -2,6 +2,13 @@

           ## Overview

           Non-coding mutations, including synonymous and intronic mutations,  are enriched at splicing signals in exon 4 of HNRNPH1. These result in deregulated splicing and increased expression of the hnRNP H1 protein. This overexpression is linked to enhanced cell proliferation and survival, contributing to the aggressive nature of MCL. <sup>1,2</sup> Although initially characterized in MCL, the same pattern of mutations appears in a small number of DLBCLs.

          +## History

          +```mermaid

          +%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%

          +timeline

          +    title Publication timing

          +      2020-07-30 : Pararajalingam : MCL

          +```

           ## Relevance tier by entity

           |Entity|Tier|Description               |

				KMT2D.md
			
          @@ -6,6 +6,16 @@ KMT2D (also known as MLL2) encodes a histone H3K4 methyltransferase, playing a c

           First identified as mutated in DLBCL and FL in 2011 by Morin et al.<sup>1</sup>

           Mutations were later described in MCL in 2013 by Bea et al.<sup>4</sup> KMT2D mutations were later reported in BL by Grande et al.<sup>5</sup>

          +```mermaid

          +%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%

          +timeline

          +    title Publication timing

          +      2011-07-27 : Morin : FL

          +      2012-08-27 : Rossi : MZL

          +      2013-11-05 : Bea : MCL

          +      2019-03-21 : Grande : BL

          +      2019-08-20 : Desch : PMBL

          +```

           ## Relevance tier by entity

           |Entity|Tier|Description               |

          @@ -50,12 +60,7 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/K

           ## KMT2D Expression

           ![image](images/gene_expression/KMT2D_by_pathology.svg)

          -## References

          -1. *Morin RD, Mendez-Lago M, Mungall AJ, Goya R, Mungall KL, Corbett RD, Johnson NA, Severson TM, Chiu R, Field M, Jackman S, Krzywinski M, Scott DW, Trinh DL, Tamura-Wells J, Li S, Firme MR, Rogic S, Griffith M, Chan S, Yakovenko O, Meyer IM, Zhao EY, Smailus D, Moksa M, Chittaranjan S, Rimsza L, Brooks-Wilson A, Spinelli JJ, Ben-Neriah S, Meissner B, Woolcock B, Boyle M, McDonald H, Tam A, Zhao Y, Delaney A, Zeng T, Tse K, Butterfield Y, Birol I, Holt R, Schein J, Horsman DE, Moore R, Jones SJ, Connors JM, Hirst M, Gascoyne RD, Marra MA. Frequent mutation of histone-modifying genes in non-Hodgkin lymphoma. Nature. 2011 Jul 27;476(7360):298-303. doi: 10.1038/nature10351. PMID: 21796119; PMCID: PMC3210554.*

          -2. *You, H., Xu-Monette, Z., Wei, L., Nunns, H., Nagy, M., Bhagat, G., Fang, X., Zhu, F., Visco, C., Tzankov, A., Dybkaer, K., Chiu, A., Tam, W., Zu, Y., Hsi, E., Hagemeister, F., Huh, J., Ponzoni, M., Ferreri, A., Møller, M., Parsons, B., Krieken, J., Piris, M., Winter, J., Li, Y., Au, Q., Xu, B., Albitar, M., & Young, K. (2021). Genomic complexity is associated with epigenetic regulator mutations and poor prognosis in diffuse large B-cell lymphoma. Oncoimmunology, 10. https://doi.org/10.1080/2162402X.2021.1928365.*

          -3. *Rushton CK, Arthur SE, Alcaide M, Cheung M, Jiang A, Coyle KM, Cleary KLS, Thomas N, Hilton LK, Michaud N, Daigle S, Davidson J, Bushell K, Yu S, Rys RN, Jain M, Shepherd L, Marra MA, Kuruvilla J, Crump M, Mann K, Assouline S, Connors JM, Steidl C, Cragg MS, Scott DW, Johnson NA, Morin RD. Genetic and evolutionary patterns of treatment resistance in relapsed B-cell lymphoma. Blood Adv. 2020 Jul 14;4(13):2886-2898. doi: 10.1182/bloodadvances.2020001696. PMID: 32589730; PMCID: PMC7362366.*

          -4. *Beà S, Valdés-Mas R, Navarro A, Salaverria I, Martín-Garcia D, Jares P, Giné E, Pinyol M, Royo C, Nadeu F, Conde L, Juan M, Clot G, Vizán P, Croce LD, Puente DA, López-Guerra M, Moros A, Roue G, Aymerich M, Villamor N, Colomo L, Martínez A, Valera A, Martín-Subero JI, Amador V, Hernández L, Rozman M, Enjuanes A, Forcada P, Muntañola A, Hartmann EM, Calasanz MJ, Rosenwald A, Ott G, Hernández-Rivas JM, Klapper W, Siebert R, Wiestner A, Wilson WH, Colomer D, López-Guillermo A, López-Otín C, Puente XS, Campo E. Landscape of somatic mutations and clonal evolution in mantle cell lymphoma. PNAS. 2013 Nov 5;110(45):18250–18255. PMID: 24145436*

          -5. *Grande BM, Gerhard DS, Jiang A, Griner NB, Abramson JS, Alexander TB, Allen H, Ayers LW, Bethony JM, Bhatia K, Bowen J, Casper C, Choi JK, Culibrk L, Davidsen TM, Dyer MA, Gastier-Foster JM, Gesuwan P, Greiner TC, Gross TG, Hanf B, Harris NL, He Y, Irvin JD, Jaffe ES, Jones SJM, Kerchan P, Knoetze N, Leal FE, Lichtenberg TM, Ma Y, Martin JP, Martin MR, Mbulaiteye SM, Mullighan CG, Mungall AJ, Namirembe C, Novik K, Noy A, Ogwang MD, Omoding A, Orem J, Reynolds SJ, Rushton CK, Sandlund JT, Schmitz R, Taylor C, Wilson WH, Wright GW, Zhao EY, Marra MA, Morin RD, Staudt LM. Genome-wide discovery of somatic coding and noncoding mutations in pediatric endemic and sporadic Burkitt lymphoma. Blood. 2019 Mar 21;133(12):1313–1324.* 

          +

           <!-- ORIGIN: morinFrequentMutationHistonemodifying2011 -->

          @@ -65,3 +70,12 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/K

           <!-- DLBCL: morinFrequentMutationHistonemodifying2011 -->

           <!-- MCL: beaLandscapeSomaticMutations2013 -->

           <!-- MZL: rossiCodingGenomeSplenic2012c -->

          +## References

          +1.  Morin RD, Mendez-Lago M, Mungall AJ, Goya R, Mungall KL, Corbett RD, Johnson NA, Severson TM, Chiu R, Field M, Jackman S, Krzywinski M, Scott DW, Trinh DL, Tamura-Wells J, Li S, Firme MR, Rogic S, Griffith M, Chan S, Yakovenko O, Meyer IM, Zhao EY, Smailus D, Moksa M, Chittaranjan S, Rimsza L, Brooks-Wilson A, Spinelli JJ, Ben-Neriah S, Meissner B, Woolcock B, Boyle M, McDonald H, Tam A, Zhao Y, Delaney A, Zeng T, Tse K, Butterfield Y, Birol I, Holt R, Schein J, Horsman DE, Moore R, Jones SJM, Connors JM, Hirst M, Gascoyne RD, Marra MA. Frequent mutation of histone-modifying genes in non-Hodgkin lymphoma. Nature. 2011 Jul 27;476(7360):298–303. PMCID: PMC3210554

          +2. *You, H., Xu-Monette, Z., Wei, L., Nunns, H., Nagy, M., Bhagat, G., Fang, X., Zhu, F., Visco, C., Tzankov, A., Dybkaer, K., Chiu, A., Tam, W., Zu, Y., Hsi, E., Hagemeister, F., Huh, J., Ponzoni, M., Ferreri, A., Møller, M., Parsons, B., Krieken, J., Piris, M., Winter, J., Li, Y., Au, Q., Xu, B., Albitar, M., & Young, K. (2021). Genomic complexity is associated with epigenetic regulator mutations and poor prognosis in diffuse large B-cell lymphoma. Oncoimmunology, 10. https://doi.org/10.1080/2162402X.2021.1928365.*

          +3. *Rushton CK, Arthur SE, Alcaide M, Cheung M, Jiang A, Coyle KM, Cleary KLS, Thomas N, Hilton LK, Michaud N, Daigle S, Davidson J, Bushell K, Yu S, Rys RN, Jain M, Shepherd L, Marra MA, Kuruvilla J, Crump M, Mann K, Assouline S, Connors JM, Steidl C, Cragg MS, Scott DW, Johnson NA, Morin RD. Genetic and evolutionary patterns of treatment resistance in relapsed B-cell lymphoma. Blood Adv. 2020 Jul 14;4(13):2886-2898. doi: 10.1182/bloodadvances.2020001696. PMID: 32589730; PMCID: PMC7362366.*

          +4.  Rossi D, Trifonov V, Fangazio M, Bruscaggin A, Rasi S, Spina V, Monti S, Vaisitti T, Arruga F, Famà R, Ciardullo C, Greco M, Cresta S, Piranda D, Holmes A, Fabbri G, Messina M, Rinaldi A, Wang J, Agostinelli C, Piccaluga PP, Lucioni M, Tabbò F, Serra R, Franceschetti S, Deambrogi C, Daniele G, Gattei V, Marasca R, Facchetti F, Arcaini L, Inghirami G, Bertoni F, Pileri SA, Deaglio S, Foà R, Dalla-Favera R, Pasqualucci L, Rabadan R, Gaidano G. The coding genome of splenic marginal zone lymphoma: activation of NOTCH2 and other pathways regulating marginal zone development. J Exp Med. 2012 Aug 27;209(9):1537–1551. PMCID: PMC3428941

          +5.  Beà S, Valdés-Mas R, Navarro A, Salaverria I, Martín-Garcia D, Jares P, Giné E, Pinyol M, Royo C, Nadeu F, Conde L, Juan M, Clot G, Vizán P, Croce LD, Puente DA, López-Guerra M, Moros A, Roue G, Aymerich M, Villamor N, Colomo L, Martínez A, Valera A, Martín-Subero JI, Amador V, Hernández L, Rozman M, Enjuanes A, Forcada P, Muntañola A, Hartmann EM, Calasanz MJ, Rosenwald A, Ott G, Hernández-Rivas JM, Klapper W, Siebert R, Wiestner A, Wilson WH, Colomer D, López-Guillermo A, López-Otín C, Puente XS, Campo E. Landscape of somatic mutations and clonal evolution in mantle cell lymphoma. PNAS. 2013 Nov 5;110(45):18250–18255. PMID: 24145436

          +6.  Grande BM, Gerhard DS, Jiang A, Griner NB, Abramson JS, Alexander TB, Allen H, Ayers LW, Bethony JM, Bhatia K, Bowen J, Casper C, Choi JK, Culibrk L, Davidsen TM, Dyer MA, Gastier-Foster JM, Gesuwan P, Greiner TC, Gross TG, Hanf B, Harris NL, He Y, Irvin JD, Jaffe ES, Jones SJM, Kerchan P, Knoetze N, Leal FE, Lichtenberg TM, Ma Y, Martin JP, Martin MR, Mbulaiteye SM, Mullighan CG, Mungall AJ, Namirembe C, Novik K, Noy A, Ogwang MD, Omoding A, Orem J, Reynolds SJ, Rushton CK, Sandlund JT, Schmitz R, Taylor C, Wilson WH, Wright GW, Zhao EY, Marra MA, Morin RD, Staudt LM. Genome-wide discovery of somatic coding and noncoding mutations in pediatric endemic and sporadic Burkitt lymphoma. Blood. 2019 Mar 21;133(12):1313–1324. 

          +7.  Desch AK, Hartung K, Botzen A, Brobeil A, Rummel M, Kurch L, Georgi T, Jox T, Bielack S, Burdach S, Classen CF, Claviez A, Debatin KM, Ebinger M, Eggert A, Faber J, Flotho C, Frühwald M, Graf N, Jorch N, Kontny U, Kramm C, Kulozik A, Kühr J, Sykora KW, Metzler M, Müller HL, Nathrath M, Nüßlein T, Paulussen M, Pekrun A, Reinhardt D, Reinhard H, Rössig C, Sauerbrey A, Schlegel PG, Schneider DT, Scheurlen W, Schweigerer L, Simon T, Suttorp M, Vorwerk P, Schmitz R, Kluge R, Mauz-Körholz C, Körholz D, Gattenlöhner S, Bräuninger A. Genotyping circulating tumor DNA of pediatric Hodgkin lymphoma. Leukemia. 2020 Jan;34(1):151–166. PMID: 31431735

          + 

          \ No newline at end of file

				MEF2B.md
			
          @@ -1,11 +1,19 @@

           # MEF2B

           ## Overview

           MEF2B is one of [a number of genes](https://github.com/morinlab/LLMPP/wiki/ashm) affected by aberrant somatic hypermutation in B-cell lymphomas, which complicates the interpretation of mutations at this locus. MEF2B mutations are observed in a significant subset of follicular lymphoma cases, as well as in other B-cell lymphomas, including diffuse large B-cell lymphoma (DLBCL) and MCL.<sup>1</sup> MEF2B has known hotspot mutations that affect multiple distinct domains of the protein. 

          -

          +## History

          +```mermaid

          +%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%

          +timeline

          +    title Publication timing

          +      2011-07-27 : Morin : DLBCL

          +      2013-11-05 : Bea : MCL

          +```

           ## Relevance tier by entity

           |Entity|Tier|Description                           |

           |:------:|:----:|--------------------------------------|

          +|![MCL](images/icons/MCL_tier2.png)|2|relevance in MCL not firmly established|

           |![BL](images/icons/BL_tier2.png)    |2-a | aSHM target; Although recurrent, the relevance of mutations in BL is tenuous |

           |![DLBCL](images/icons/DLBCL_tier1.png) |1-a | aSHM target and high-confidence DLBCL gene            |

           |![FL](images/icons/FL_tier1.png)    |1-a | aSHM target and high-confidence FL gene               |

          @@ -81,13 +89,12 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/M

           ## MEF2B Expression

           ![image](images/gene_expression/MEF2B_by_pathology.svg)

          -## References

          -

          -1. *Morin RD, Mendez-Lago M, Mungall AJ, Goya R, Mungall KL, Corbett RD, Johnson NA, Severson TM, Chiu R, Field M, Jackman S, Krzywinski M, Scott DW, Trinh DL, Tamura-Wells J, Li S, Firme MR, Rogic S, Griffith M, Chan S, Yakovenko O, Meyer IM, Zhao EY, Smailus D, Moksa M, Chittaranjan S, Rimsza L, Brooks-Wilson A, Spinelli JJ, Ben-Neriah S, Meissner B, Woolcock B, Boyle M, McDonald H, Tam A, Zhao Y, Delaney A, Zeng T, Tse K, Butterfield Y, Birol I, Holt R, Schein J, Horsman DE, Moore R, Jones SJ, Connors JM, Hirst M, Gascoyne RD, Marra MA. Frequent mutation of histone-modifying genes in non-Hodgkin lymphoma. Nature. 2011 Jul 27;476(7360):298-303. doi: 10.1038/nature10351. PMID: 21796119; PMCID: PMC3210554.*

          -

           <!-- ORIGIN: morinFrequentMutationHistonemodifying2011 -->

           <!-- DLBCL: morinFrequentMutationHistonemodifying2011 -->

           <!-- MCL: beaLandscapeSomaticMutations2013 -->

           <!-- FL: morinFrequentMutationHistonemodifying2011 -->

           <!-- BL: 2 -->

          +## References

          +1.  Morin RD, Mendez-Lago M, Mungall AJ, Goya R, Mungall KL, Corbett RD, Johnson NA, Severson TM, Chiu R, Field M, Jackman S, Krzywinski M, Scott DW, Trinh DL, Tamura-Wells J, Li S, Firme MR, Rogic S, Griffith M, Chan S, Yakovenko O, Meyer IM, Zhao EY, Smailus D, Moksa M, Chittaranjan S, Rimsza L, Brooks-Wilson A, Spinelli JJ, Ben-Neriah S, Meissner B, Woolcock B, Boyle M, McDonald H, Tam A, Zhao Y, Delaney A, Zeng T, Tse K, Butterfield Y, Birol I, Holt R, Schein J, Horsman DE, Moore R, Jones SJM, Connors JM, Hirst M, Gascoyne RD, Marra MA. Frequent mutation of histone-modifying genes in non-Hodgkin lymphoma. Nature. 2011 Jul 27;476(7360):298–303. PMCID: PMC3210554

          +2.  Beà S, Valdés-Mas R, Navarro A, Salaverria I, Martín-Garcia D, Jares P, Giné E, Pinyol M, Royo C, Nadeu F, Conde L, Juan M, Clot G, Vizán P, Croce LD, Puente DA, López-Guerra M, Moros A, Roue G, Aymerich M, Villamor N, Colomo L, Martínez A, Valera A, Martín-Subero JI, Amador V, Hernández L, Rozman M, Enjuanes A, Forcada P, Muntañola A, Hartmann EM, Calasanz MJ, Rosenwald A, Ott G, Hernández-Rivas JM, Klapper W, Siebert R, Wiestner A, Wilson WH, Colomer D, López-Guillermo A, López-Otín C, Puente XS, Campo E. Landscape of somatic mutations and clonal evolution in mantle cell lymphoma. PNAS. 2013 Nov 5;110(45):18250–18255. PMID: 24145436

				NFKBIE.md
			
          @@ -1,7 +1,16 @@

           # NFKBIE

           ## Overview

           NFKBIE encodes IκBε, a negative regulator of NF-κB. Mutations in NFKBIE can disrupt this regulatory function, leading to constitutive activation of NF-κB signaling.<sup>1</sup> Mutations are relatively common in DLBCL and MCL.<sup>2</sup> 

          -

          +## History

          +

          +```mermaid

          +%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%

          +timeline

          +    title Publication timing

          +      2016-05-01 : Morin : DLBCL

          +      2016-12-08 : Mansouri : PMBL

          +      2020-07-30 : Pararajalingam : MCL

          +```

           ## Relevance tier by entity

           |Entity|Tier|Description               |

				NOTCH1.md
			
          @@ -1,5 +1,15 @@

           # NOTCH1

          +## History

          +```mermaid

          +%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%

          +timeline

          +    title Publication timing

          +      2011-07-31 : Pasqualucci : DLBCL

          +      2012-08-27 : Rossi : MZL

          +      2012-12-01 : Love : BL

          +      2013-11-05 : Bea : MCL

          +```

           ## Relevance tier by entity

           |Entity|Tier|Description                           |

				NOTCH2.md
			
          @@ -1,5 +1,14 @@

           # NOTCH2

          -

          +## History

          +```mermaid

          +%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%

          +timeline

          +    title Publication timing

          +      2008-07-01 : Troen : DLBCL

          +      2012-08-27 : Rossi : MZL

          +      2013-11-05 : Bea : MCL

          +      2019-09-26 : Panea : BL

          +```

           ## Relevance tier by entity

           |Entity|Tier|Description                           |

				NSD2.md
			
          @@ -1,9 +1,16 @@

           # NSD2

          -

          +## History

          +```mermaid

          +%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%

          +timeline

          +    title Publication timing

          +      2013-11-05 : Bea : MCL

          +```

           ## Relevance tier by entity

           |Entity|Tier|Description             |

           |:------:|:----:|------------------------|

          +|![PMBL](images/icons/PMBL_tier2.png)|2|relevance in PMBL/cHL/GZL not firmly established|

           |![MCL](images/icons/MCL_tier1.png)   |1   |high-confidence MCL gene|

           ## Mutation incidence in large patient cohorts (GAMBL reanalysis)

          @@ -32,3 +39,5 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/N

           ![image](images/gene_expression/NSD2_by_pathology.svg)

           <!-- ORIGIN: beaLandscapeSomaticMutations2013 -->

           <!-- MCL: beaLandscapeSomaticMutations2013 -->

          +## References

          +1.  Beà S, Valdés-Mas R, Navarro A, Salaverria I, Martín-Garcia D, Jares P, Giné E, Pinyol M, Royo C, Nadeu F, Conde L, Juan M, Clot G, Vizán P, Croce LD, Puente DA, López-Guerra M, Moros A, Roue G, Aymerich M, Villamor N, Colomo L, Martínez A, Valera A, Martín-Subero JI, Amador V, Hernández L, Rozman M, Enjuanes A, Forcada P, Muntañola A, Hartmann EM, Calasanz MJ, Rosenwald A, Ott G, Hernández-Rivas JM, Klapper W, Siebert R, Wiestner A, Wilson WH, Colomer D, López-Guillermo A, López-Otín C, Puente XS, Campo E. Landscape of somatic mutations and clonal evolution in mantle cell lymphoma. PNAS. 2013 Nov 5;110(45):18250–18255. PMID: 24145436

				ODZ3.md
			
          @@ -1,5 +1,11 @@

           # ODZ3

          -

          +## History

          +```mermaid

          +%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%

          +timeline

          +    title Publication timing

          +      2013-08-15 : Morin : DLBCL

          +```

           ## Relevance tier by entity

           |Entity|Tier|Description                              |

          @@ -26,3 +32,5 @@

           ![image](images/gene_expression/ODZ3_by_pathology.svg)

           <!-- ORIGIN: morinMutationalStructuralAnalysis2013 -->

           <!-- DLBCL: morinMutationalStructuralAnalysis2013 -->

          +## References

          +1.  Morin RD, Mungall K, Pleasance E, Mungall AJ, Goya R, Huff RD, Scott DW, Ding J, Roth A, Chiu R, Corbett RD, Chan FC, Mendez-Lago M, Trinh DL, Bolger-Munro M, Taylor G, Hadj Khodabakhshi A, Ben-Neriah S, Pon J, Meissner B, Woolcock B, Farnoud N, Rogic S, Lim EL, Johnson NA, Shah S, Jones S, Steidl C, Holt R, Birol I, Moore R, Connors JM, Gascoyne RD, Marra MA. Mutational and structural analysis of diffuse large B-cell lymphoma using whole-genome sequencing. Blood. 2013 Aug 15;122(7):1256–1265. PMCID: PMC3744992

				POT1.md
			
          @@ -1,5 +1,12 @@

           # POT1

          -

          +## History

          +

          +```mermaid

          +%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%

          +timeline

          +    title Publication timing

          +      2014-05-08 : Zhang : MCL

          +```

           ## Relevance tier by entity

           |Entity|Tier|Description             |

          @@ -36,3 +43,5 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/P

           ![image](images/gene_expression/POT1_by_pathology.svg)

           <!-- ORIGIN: zhangGenomicLandscapeMantle2014 -->

           <!-- MCL: zhangGenomicLandscapeMantle2014 -->

          +## References

          +1.  Zhang J, Jima D, Moffitt AB, Liu Q, Czader M, Hsi ED, Fedoriw Y, Dunphy CH, Richards KL, Gill JI, Sun Z, Love C, Scotland P, Lock E, Levy S, Hsu DS, Dunson D, Dave SS. The genomic landscape of mantle cell lymphoma is related to the epigenetically determined chromatin state of normal B cells. Blood. 2014 May 8;123(19):2988–2996.

				RB1.md
			
          @@ -1,5 +1,13 @@

           # RB1

          -

          +## History

          +

          +```mermaid

          +%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%

          +timeline

          +    title Publication timing

          +      2013-08-15 : Morin : DLBCL

          +      2014-05-08 : Zhang : MCL

          +```

           ## Relevance tier by entity

           |Entity|Tier|Description               |

          @@ -42,3 +50,6 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/R

           <!-- ORIGIN: morinMutationalStructuralAnalysis2013 -->

           <!-- DLBCL: morinMutationalStructuralAnalysis2013 -->

           <!-- MCL: zhangGenomicLandscapeMantle2014 -->

          +## References

          +1.  Morin RD, Mungall K, Pleasance E, Mungall AJ, Goya R, Huff RD, Scott DW, Ding J, Roth A, Chiu R, Corbett RD, Chan FC, Mendez-Lago M, Trinh DL, Bolger-Munro M, Taylor G, Hadj Khodabakhshi A, Ben-Neriah S, Pon J, Meissner B, Woolcock B, Farnoud N, Rogic S, Lim EL, Johnson NA, Shah S, Jones S, Steidl C, Holt R, Birol I, Moore R, Connors JM, Gascoyne RD, Marra MA. Mutational and structural analysis of diffuse large B-cell lymphoma using whole-genome sequencing. Blood. 2013 Aug 15;122(7):1256–1265. PMCID: PMC3744992

          +2.  Zhang J, Jima D, Moffitt AB, Liu Q, Czader M, Hsi ED, Fedoriw Y, Dunphy CH, Richards KL, Gill JI, Sun Z, Love C, Scotland P, Lock E, Levy S, Hsu DS, Dunson D, Dave SS. The genomic landscape of mantle cell lymphoma is related to the epigenetically determined chromatin state of normal B cells. Blood. 2014 May 8;123(19):2988–2996.

				SMARCA4.md
			
          @@ -1,5 +1,15 @@

           # SMARCA4

          +## History

          +```mermaid

          +%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%

          +timeline

          +    title Publication timing

          +      2012-11-11 : Richter : BL

          +      2013-01-01 : Zhang : DLBCL

          +      2017-01-26 : Krysiak : FL

          +      2020-09-17 : Nadeu : MCL

          +```

           ## Relevance tier by entity

           |Entity|Tier|Description               |

          @@ -51,3 +61,8 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/S

           <!-- DLBCL: zhangGeneticHeterogeneityDiffuse2013 -->

           <!-- FL: krysiakRecurrentSomaticMutations2017b -->

           <!-- BL: richterRecurrentMutationID32012a -->

          +## References

          +1.  Richter J, Schlesner M, Hoffmann S, Kreuz M, Leich E, Burkhardt B, Rosolowski M, Ammerpohl O, Wagener R, Bernhart SH, Lenze D, Szczepanowski M, Paulsen M, Lipinski S, Russell RB, Adam-Klages S, Apic G, Claviez A, Hasenclever D, Hovestadt V, Hornig N, Korbel JO, Kube D, Langenberger D, Lawerenz C, Lisfeld J, Meyer K, Picelli S, Pischimarov J, Radlwimmer B, Rausch T, Rohde M, Schilhabel M, Scholtysik R, Spang R, Trautmann H, Zenz T, Borkhardt A, Drexler HG, Möller P, MacLeod RAF, Pott C, Schreiber S, Trümper L, Loeffler M, Stadler PF, Lichter P, Eils R, Küppers R, Hummel M, Klapper W, Rosenstiel P, Rosenwald A, Brors B, Siebert R, ICGC MMML-Seq Project. Recurrent mutation of the ID3 gene in Burkitt lymphoma identified by integrated genome, exome and transcriptome sequencing. Nat Genet. 2012 Dec;44(12):1316–1320. PMID: 23143595

          +2.  Zhang J, Grubor V, Love CL, Banerjee A, Richards KL, Mieczkowski PA, Dunphy C, Choi W, Au WY, Srivastava G, Lugar PL, Rizzieri DA, Lagoo AS, Bernal-Mizrachi L, Mann KP, Flowers C, Naresh K, Evens A, Gordon LI, Czader M, Gill JI, Hsi ED, Liu Q, Fan A, Walsh K, Jima D, Smith LL, Johnson AJ, Byrd JC, Luftig MA, Ni T, Zhu J, Chadburn A, Levy S, Dunson D, Dave SS. Genetic heterogeneity of diffuse large B-cell lymphoma. 2013 Jan; 

          +3.  Krysiak K, Gomez F, White BS, Matlock M, Miller CA, Trani L, Fronick CC, Fulton RS, Kreisel F, Cashen AF, Carson KR, Berrien-Elliott MM, Bartlett NL, Griffith M, Griffith OL, Fehniger TA. Recurrent somatic mutations affecting B-cell receptor signaling pathway genes in follicular lymphoma. Blood. 2017 Jan 26;129(4):473–483. PMCID: PMC5270390

          +4.  Nadeu F, Martín-García D, Clot G, Díaz-Navarro A, Duran-Ferrer M, Navarro A, Vilarrasa-Blasi R, Kulis M, Royo R, Gutiérrez-Abril J, Valdés-Mas R, López C, Chapaprieta V, Puiggrós M, Castellano G, Costa D, Aymerich M, Jares P, Espinet B, Muntañola A, Ribera‐Cortada I, Siebert R, Colomer D, Torrents D, Giné E, López-Guillermo A, Küppers R, Martín-Subero J, Puente X, Beà S, Campo E. Genomic and epigenomic insights into the origin, pathogenesis and clinical behavior of mantle cell lymphoma subtypes. Blood. 2020;

				SP140.md
			
          @@ -1,5 +1,11 @@

           # SP140

          -

          +## History

          +```mermaid

          +%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%

          +timeline

          +    title Publication timing

          +      2013-11-05 : Bea : MCL

          +```

           ## Relevance tier by entity

           |Entity|Tier|Description             |

          @@ -36,3 +42,5 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/S

           ![image](images/gene_expression/SP140_by_pathology.svg)

           <!-- ORIGIN: beaLandscapeSomaticMutations2013 -->

           <!-- MCL: beaLandscapeSomaticMutations2013 -->

          +## References

          +1.  Beà S, Valdés-Mas R, Navarro A, Salaverria I, Martín-Garcia D, Jares P, Giné E, Pinyol M, Royo C, Nadeu F, Conde L, Juan M, Clot G, Vizán P, Croce LD, Puente DA, López-Guerra M, Moros A, Roue G, Aymerich M, Villamor N, Colomo L, Martínez A, Valera A, Martín-Subero JI, Amador V, Hernández L, Rozman M, Enjuanes A, Forcada P, Muntañola A, Hartmann EM, Calasanz MJ, Rosenwald A, Ott G, Hernández-Rivas JM, Klapper W, Siebert R, Wiestner A, Wilson WH, Colomer D, López-Guillermo A, López-Otín C, Puente XS, Campo E. Landscape of somatic mutations and clonal evolution in mantle cell lymphoma. PNAS. 2013 Nov 5;110(45):18250–18255. PMID: 24145436

				SYNE1.md
			
          @@ -1,5 +1,11 @@

           # SYNE1

          -

          +## History

          +```mermaid

          +%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%

          +timeline

          +    title Publication timing

          +      2020-09-17 : Nadeu : MCL

          +```

           ## Relevance tier by entity

           |Entity|Tier|Description             |

          @@ -36,3 +42,5 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/S

           ![image](images/gene_expression/SYNE1_by_pathology.svg)

           <!-- ORIGIN: nadeuGenomicEpigenomicInsights2020a -->

           <!-- MCL: nadeuGenomicEpigenomicInsights2020a -->

          +## References

          +1.  Nadeu F, Martín-García D, Clot G, Díaz-Navarro A, Duran-Ferrer M, Navarro A, Vilarrasa-Blasi R, Kulis M, Royo R, Gutiérrez-Abril J, Valdés-Mas R, López C, Chapaprieta V, Puiggrós M, Castellano G, Costa D, Aymerich M, Jares P, Espinet B, Muntañola A, Ribera‐Cortada I, Siebert R, Colomer D, Torrents D, Giné E, López-Guillermo A, Küppers R, Martín-Subero J, Puente X, Beà S, Campo E. Genomic and epigenomic insights into the origin, pathogenesis and clinical behavior of mantle cell lymphoma subtypes. Blood. 2020;

				TERT.md
			
          @@ -1,5 +1,11 @@

           # TERT

          -

          +## History

          +```mermaid

          +%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%

          +timeline

          +    title Publication timing

          +      2020-09-17 : Nadeu : MCL

          +```

           ## Relevance tier by entity

           |Entity|Tier|Description             |

          @@ -36,3 +42,5 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/T

           ![image](images/gene_expression/TERT_by_pathology.svg)

           <!-- ORIGIN: nadeuGenomicEpigenomicInsights2020a -->

           <!-- MCL: nadeuGenomicEpigenomicInsights2020a -->

          +## References

          +1.  Nadeu F, Martín-García D, Clot G, Díaz-Navarro A, Duran-Ferrer M, Navarro A, Vilarrasa-Blasi R, Kulis M, Royo R, Gutiérrez-Abril J, Valdés-Mas R, López C, Chapaprieta V, Puiggrós M, Castellano G, Costa D, Aymerich M, Jares P, Espinet B, Muntañola A, Ribera‐Cortada I, Siebert R, Colomer D, Torrents D, Giné E, López-Guillermo A, Küppers R, Martín-Subero J, Puente X, Beà S, Campo E. Genomic and epigenomic insights into the origin, pathogenesis and clinical behavior of mantle cell lymphoma subtypes. Blood. 2020;

				TLR2.md
			
          @@ -4,7 +4,7 @@

           %%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%

           timeline

               title Publication timing

          -      2013-11-05 : Be : MCL

          +      2013-11-05 : Bea : MCL

                 2018-05-01 : Chapuy : DLBCL

           ```

           ## Relevance tier by entity

          @@ -32,11 +32,6 @@ timeline

           |DLBCL |No  |No                   |3.705           |0               |

           |FL    |No  |No                   |0.000           |0               |

          -

          -> [!NOTE]

          -> First described in DLBCL in 2018 by [Chapuy B](https://pubmed.ncbi.nlm.nih.gov/29713087). First described in MCL in 2013 by [Beà S](https://pubmed.ncbi.nlm.nih.gov/24145436)

          -

          -

            ## TLR2 Hotspots

           | Chromosome |Coordinate (hg19) | ref>alt | HGVSp |

				TP53.md
			
          @@ -1,6 +1,16 @@

           # TP53

          -## Overview

          +## History

          +```mermaid

          +%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%

          +timeline

          +    title Publication timing

          +      2004-03-01 : Wilda : BL

          +      2011-07-27 : Morin : FL

          +      2012-08-27 : Rossi : MZL

          +      2013-11-05 : Be : MCL

          +      2018-05-31 : Tiacci : PMBL

          +```

           ## Relevance tier by entity

           |Entity|Tier|Description               |

				UBR5.md
			
          @@ -1,5 +1,12 @@

           # UBR5

          -

          +## History

          +```mermaid

          +%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%

          +timeline

          +    title Publication timing

          +      2013-01-01 : Zhang : DLBCL

          +      2020-07-30 : Pararajalingam : MCL

          +```

           ## Relevance tier by entity

           |Entity|Tier|Description                              |

          @@ -43,3 +50,6 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/U

           <!-- ORIGIN: zhangGeneticHeterogeneityDiffuse2013 -->

           <!-- DLBCL: zhangGeneticHeterogeneityDiffuse2013 -->

           <!-- MCL: pararajalingamCodingNoncodingDrivers2020 -->

          +## References

          +1.  Zhang J, Grubor V, Love CL, Banerjee A, Richards KL, Mieczkowski PA, Dunphy C, Choi W, Au WY, Srivastava G, Lugar PL, Rizzieri DA, Lagoo AS, Bernal-Mizrachi L, Mann KP, Flowers C, Naresh K, Evens A, Gordon LI, Czader M, Gill JI, Hsi ED, Liu Q, Fan A, Walsh K, Jima D, Smith LL, Johnson AJ, Byrd JC, Luftig MA, Ni T, Zhu J, Chadburn A, Levy S, Dunson D, Dave SS. Genetic heterogeneity of diffuse large B-cell lymphoma. 2013 Jan; 

          +2.  Pararajalingam P, Coyle KM, Arthur SE, Thomas N, Alcaide M, Meissner B, Boyle M, Qureshi Q, Grande BM, Rushton C, Slack GW, Mungall AJ, Tam CS, Agarwal R, Dawson SJ, Lenz G, Balasubramanian S, Gascoyne RD, Steidl C, Connors J, Villa D, Audas TE, Marra MA, Johnson NA, Scott DW, Morin RD. Coding and noncoding drivers of mantle cell lymphoma identified through exome and genome sequencing. Blood. 2020 Jul 30;136(5):572–584. PMCID: PMC7440974

...	...	@@ -4,7 +4,7 @@
4	4	%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%
5	5	timeline
6	6	title Publication timing
7		- 2013-11-05 : Be : MCL
	7	+ 2013-11-05 : Bea : MCL
8	8	```
9	9	## Relevance tier by entity
10	10

...	...	@@ -2,6 +2,13 @@
2	2	## Overview
3	3	Non-coding mutations, including synonymous and intronic mutations, are enriched at splicing signals in exon 4 of HNRNPH1. These result in deregulated splicing and increased expression of the hnRNP H1 protein. This overexpression is linked to enhanced cell proliferation and survival, contributing to the aggressive nature of MCL. <sup>1,2</sup> Although initially characterized in MCL, the same pattern of mutations appears in a small number of DLBCLs.
4	4
	5	+## History
	6	+```mermaid
	7	+%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%
	8	+timeline
	9	+ title Publication timing
	10	+ 2020-07-30 : Pararajalingam : MCL
	11	+```
5	12	## Relevance tier by entity
6	13
7	14	\|Entity\|Tier\|Description \|

...	...	@@ -6,6 +6,16 @@ KMT2D (also known as MLL2) encodes a histone H3K4 methyltransferase, playing a c
6	6	First identified as mutated in DLBCL and FL in 2011 by Morin et al.<sup>1</sup>
7	7	Mutations were later described in MCL in 2013 by Bea et al.<sup>4</sup> KMT2D mutations were later reported in BL by Grande et al.<sup>5</sup>
8	8
	9	+```mermaid
	10	+%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%
	11	+timeline
	12	+ title Publication timing
	13	+ 2011-07-27 : Morin : FL
	14	+ 2012-08-27 : Rossi : MZL
	15	+ 2013-11-05 : Bea : MCL
	16	+ 2019-03-21 : Grande : BL
	17	+ 2019-08-20 : Desch : PMBL
	18	+```
9	19	## Relevance tier by entity
10	20
11	21	\|Entity\|Tier\|Description \|
...	...	@@ -50,12 +60,7 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/K
50	60	## KMT2D Expression
51	61	![image](images/gene_expression/KMT2D_by_pathology.svg)
52	62
53		-## References
54		-1. Morin RD, Mendez-Lago M, Mungall AJ, Goya R, Mungall KL, Corbett RD, Johnson NA, Severson TM, Chiu R, Field M, Jackman S, Krzywinski M, Scott DW, Trinh DL, Tamura-Wells J, Li S, Firme MR, Rogic S, Griffith M, Chan S, Yakovenko O, Meyer IM, Zhao EY, Smailus D, Moksa M, Chittaranjan S, Rimsza L, Brooks-Wilson A, Spinelli JJ, Ben-Neriah S, Meissner B, Woolcock B, Boyle M, McDonald H, Tam A, Zhao Y, Delaney A, Zeng T, Tse K, Butterfield Y, Birol I, Holt R, Schein J, Horsman DE, Moore R, Jones SJ, Connors JM, Hirst M, Gascoyne RD, Marra MA. Frequent mutation of histone-modifying genes in non-Hodgkin lymphoma. Nature. 2011 Jul 27;476(7360):298-303. doi: 10.1038/nature10351. PMID: 21796119; PMCID: PMC3210554.
55		-2. You, H., Xu-Monette, Z., Wei, L., Nunns, H., Nagy, M., Bhagat, G., Fang, X., Zhu, F., Visco, C., Tzankov, A., Dybkaer, K., Chiu, A., Tam, W., Zu, Y., Hsi, E., Hagemeister, F., Huh, J., Ponzoni, M., Ferreri, A., Møller, M., Parsons, B., Krieken, J., Piris, M., Winter, J., Li, Y., Au, Q., Xu, B., Albitar, M., & Young, K. (2021). Genomic complexity is associated with epigenetic regulator mutations and poor prognosis in diffuse large B-cell lymphoma. Oncoimmunology, 10. https://doi.org/10.1080/2162402X.2021.1928365.
56		-3. Rushton CK, Arthur SE, Alcaide M, Cheung M, Jiang A, Coyle KM, Cleary KLS, Thomas N, Hilton LK, Michaud N, Daigle S, Davidson J, Bushell K, Yu S, Rys RN, Jain M, Shepherd L, Marra MA, Kuruvilla J, Crump M, Mann K, Assouline S, Connors JM, Steidl C, Cragg MS, Scott DW, Johnson NA, Morin RD. Genetic and evolutionary patterns of treatment resistance in relapsed B-cell lymphoma. Blood Adv. 2020 Jul 14;4(13):2886-2898. doi: 10.1182/bloodadvances.2020001696. PMID: 32589730; PMCID: PMC7362366.
57		-4. Beà S, Valdés-Mas R, Navarro A, Salaverria I, Martín-Garcia D, Jares P, Giné E, Pinyol M, Royo C, Nadeu F, Conde L, Juan M, Clot G, Vizán P, Croce LD, Puente DA, López-Guerra M, Moros A, Roue G, Aymerich M, Villamor N, Colomo L, Martínez A, Valera A, Martín-Subero JI, Amador V, Hernández L, Rozman M, Enjuanes A, Forcada P, Muntañola A, Hartmann EM, Calasanz MJ, Rosenwald A, Ott G, Hernández-Rivas JM, Klapper W, Siebert R, Wiestner A, Wilson WH, Colomer D, López-Guillermo A, López-Otín C, Puente XS, Campo E. Landscape of somatic mutations and clonal evolution in mantle cell lymphoma. PNAS. 2013 Nov 5;110(45):18250–18255. PMID: 24145436
58		-5. Grande BM, Gerhard DS, Jiang A, Griner NB, Abramson JS, Alexander TB, Allen H, Ayers LW, Bethony JM, Bhatia K, Bowen J, Casper C, Choi JK, Culibrk L, Davidsen TM, Dyer MA, Gastier-Foster JM, Gesuwan P, Greiner TC, Gross TG, Hanf B, Harris NL, He Y, Irvin JD, Jaffe ES, Jones SJM, Kerchan P, Knoetze N, Leal FE, Lichtenberg TM, Ma Y, Martin JP, Martin MR, Mbulaiteye SM, Mullighan CG, Mungall AJ, Namirembe C, Novik K, Noy A, Ogwang MD, Omoding A, Orem J, Reynolds SJ, Rushton CK, Sandlund JT, Schmitz R, Taylor C, Wilson WH, Wright GW, Zhao EY, Marra MA, Morin RD, Staudt LM. Genome-wide discovery of somatic coding and noncoding mutations in pediatric endemic and sporadic Burkitt lymphoma. Blood. 2019 Mar 21;133(12):1313–1324.
	63	+
59	64
60	65
61	66	<!-- ORIGIN: morinFrequentMutationHistonemodifying2011 -->
...	...	@@ -65,3 +70,12 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/K
65	70	<!-- DLBCL: morinFrequentMutationHistonemodifying2011 -->
66	71	<!-- MCL: beaLandscapeSomaticMutations2013 -->
67	72	<!-- MZL: rossiCodingGenomeSplenic2012c -->
	73	+## References
	74	+1. Morin RD, Mendez-Lago M, Mungall AJ, Goya R, Mungall KL, Corbett RD, Johnson NA, Severson TM, Chiu R, Field M, Jackman S, Krzywinski M, Scott DW, Trinh DL, Tamura-Wells J, Li S, Firme MR, Rogic S, Griffith M, Chan S, Yakovenko O, Meyer IM, Zhao EY, Smailus D, Moksa M, Chittaranjan S, Rimsza L, Brooks-Wilson A, Spinelli JJ, Ben-Neriah S, Meissner B, Woolcock B, Boyle M, McDonald H, Tam A, Zhao Y, Delaney A, Zeng T, Tse K, Butterfield Y, Birol I, Holt R, Schein J, Horsman DE, Moore R, Jones SJM, Connors JM, Hirst M, Gascoyne RD, Marra MA. Frequent mutation of histone-modifying genes in non-Hodgkin lymphoma. Nature. 2011 Jul 27;476(7360):298–303. PMCID: PMC3210554
	75	+2. You, H., Xu-Monette, Z., Wei, L., Nunns, H., Nagy, M., Bhagat, G., Fang, X., Zhu, F., Visco, C., Tzankov, A., Dybkaer, K., Chiu, A., Tam, W., Zu, Y., Hsi, E., Hagemeister, F., Huh, J., Ponzoni, M., Ferreri, A., Møller, M., Parsons, B., Krieken, J., Piris, M., Winter, J., Li, Y., Au, Q., Xu, B., Albitar, M., & Young, K. (2021). Genomic complexity is associated with epigenetic regulator mutations and poor prognosis in diffuse large B-cell lymphoma. Oncoimmunology, 10. https://doi.org/10.1080/2162402X.2021.1928365.
	76	+3. Rushton CK, Arthur SE, Alcaide M, Cheung M, Jiang A, Coyle KM, Cleary KLS, Thomas N, Hilton LK, Michaud N, Daigle S, Davidson J, Bushell K, Yu S, Rys RN, Jain M, Shepherd L, Marra MA, Kuruvilla J, Crump M, Mann K, Assouline S, Connors JM, Steidl C, Cragg MS, Scott DW, Johnson NA, Morin RD. Genetic and evolutionary patterns of treatment resistance in relapsed B-cell lymphoma. Blood Adv. 2020 Jul 14;4(13):2886-2898. doi: 10.1182/bloodadvances.2020001696. PMID: 32589730; PMCID: PMC7362366.
	77	+4. Rossi D, Trifonov V, Fangazio M, Bruscaggin A, Rasi S, Spina V, Monti S, Vaisitti T, Arruga F, Famà R, Ciardullo C, Greco M, Cresta S, Piranda D, Holmes A, Fabbri G, Messina M, Rinaldi A, Wang J, Agostinelli C, Piccaluga PP, Lucioni M, Tabbò F, Serra R, Franceschetti S, Deambrogi C, Daniele G, Gattei V, Marasca R, Facchetti F, Arcaini L, Inghirami G, Bertoni F, Pileri SA, Deaglio S, Foà R, Dalla-Favera R, Pasqualucci L, Rabadan R, Gaidano G. The coding genome of splenic marginal zone lymphoma: activation of NOTCH2 and other pathways regulating marginal zone development. J Exp Med. 2012 Aug 27;209(9):1537–1551. PMCID: PMC3428941
	78	+5. Beà S, Valdés-Mas R, Navarro A, Salaverria I, Martín-Garcia D, Jares P, Giné E, Pinyol M, Royo C, Nadeu F, Conde L, Juan M, Clot G, Vizán P, Croce LD, Puente DA, López-Guerra M, Moros A, Roue G, Aymerich M, Villamor N, Colomo L, Martínez A, Valera A, Martín-Subero JI, Amador V, Hernández L, Rozman M, Enjuanes A, Forcada P, Muntañola A, Hartmann EM, Calasanz MJ, Rosenwald A, Ott G, Hernández-Rivas JM, Klapper W, Siebert R, Wiestner A, Wilson WH, Colomer D, López-Guillermo A, López-Otín C, Puente XS, Campo E. Landscape of somatic mutations and clonal evolution in mantle cell lymphoma. PNAS. 2013 Nov 5;110(45):18250–18255. PMID: 24145436
	79	+6. Grande BM, Gerhard DS, Jiang A, Griner NB, Abramson JS, Alexander TB, Allen H, Ayers LW, Bethony JM, Bhatia K, Bowen J, Casper C, Choi JK, Culibrk L, Davidsen TM, Dyer MA, Gastier-Foster JM, Gesuwan P, Greiner TC, Gross TG, Hanf B, Harris NL, He Y, Irvin JD, Jaffe ES, Jones SJM, Kerchan P, Knoetze N, Leal FE, Lichtenberg TM, Ma Y, Martin JP, Martin MR, Mbulaiteye SM, Mullighan CG, Mungall AJ, Namirembe C, Novik K, Noy A, Ogwang MD, Omoding A, Orem J, Reynolds SJ, Rushton CK, Sandlund JT, Schmitz R, Taylor C, Wilson WH, Wright GW, Zhao EY, Marra MA, Morin RD, Staudt LM. Genome-wide discovery of somatic coding and noncoding mutations in pediatric endemic and sporadic Burkitt lymphoma. Blood. 2019 Mar 21;133(12):1313–1324.
	80	+7. Desch AK, Hartung K, Botzen A, Brobeil A, Rummel M, Kurch L, Georgi T, Jox T, Bielack S, Burdach S, Classen CF, Claviez A, Debatin KM, Ebinger M, Eggert A, Faber J, Flotho C, Frühwald M, Graf N, Jorch N, Kontny U, Kramm C, Kulozik A, Kühr J, Sykora KW, Metzler M, Müller HL, Nathrath M, Nüßlein T, Paulussen M, Pekrun A, Reinhardt D, Reinhard H, Rössig C, Sauerbrey A, Schlegel PG, Schneider DT, Scheurlen W, Schweigerer L, Simon T, Suttorp M, Vorwerk P, Schmitz R, Kluge R, Mauz-Körholz C, Körholz D, Gattenlöhner S, Bräuninger A. Genotyping circulating tumor DNA of pediatric Hodgkin lymphoma. Leukemia. 2020 Jan;34(1):151–166. PMID: 31431735
	81	+
...	...	\ No newline at end of file

...	...	@@ -1,11 +1,19 @@
1	1	# MEF2B
2	2	## Overview
3	3	MEF2B is one of [a number of genes](https://github.com/morinlab/LLMPP/wiki/ashm) affected by aberrant somatic hypermutation in B-cell lymphomas, which complicates the interpretation of mutations at this locus. MEF2B mutations are observed in a significant subset of follicular lymphoma cases, as well as in other B-cell lymphomas, including diffuse large B-cell lymphoma (DLBCL) and MCL.<sup>1</sup> MEF2B has known hotspot mutations that affect multiple distinct domains of the protein.
4		-
	4	+## History
	5	+```mermaid
	6	+%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%
	7	+timeline
	8	+ title Publication timing
	9	+ 2011-07-27 : Morin : DLBCL
	10	+ 2013-11-05 : Bea : MCL
	11	+```
5	12	## Relevance tier by entity
6	13
7	14	\|Entity\|Tier\|Description \|
8	15	\|:------:\|:----:\|--------------------------------------\|
	16	+\|![MCL](images/icons/MCL_tier2.png)\|2\|relevance in MCL not firmly established\|
9	17	\|![BL](images/icons/BL_tier2.png) \|2-a \| aSHM target; Although recurrent, the relevance of mutations in BL is tenuous \|
10	18	\|![DLBCL](images/icons/DLBCL_tier1.png) \|1-a \| aSHM target and high-confidence DLBCL gene \|
11	19	\|![FL](images/icons/FL_tier1.png) \|1-a \| aSHM target and high-confidence FL gene \|
...	...	@@ -81,13 +89,12 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/M
81	89	## MEF2B Expression
82	90	![image](images/gene_expression/MEF2B_by_pathology.svg)
83	91
84		-## References
85		-
86		-1. Morin RD, Mendez-Lago M, Mungall AJ, Goya R, Mungall KL, Corbett RD, Johnson NA, Severson TM, Chiu R, Field M, Jackman S, Krzywinski M, Scott DW, Trinh DL, Tamura-Wells J, Li S, Firme MR, Rogic S, Griffith M, Chan S, Yakovenko O, Meyer IM, Zhao EY, Smailus D, Moksa M, Chittaranjan S, Rimsza L, Brooks-Wilson A, Spinelli JJ, Ben-Neriah S, Meissner B, Woolcock B, Boyle M, McDonald H, Tam A, Zhao Y, Delaney A, Zeng T, Tse K, Butterfield Y, Birol I, Holt R, Schein J, Horsman DE, Moore R, Jones SJ, Connors JM, Hirst M, Gascoyne RD, Marra MA. Frequent mutation of histone-modifying genes in non-Hodgkin lymphoma. Nature. 2011 Jul 27;476(7360):298-303. doi: 10.1038/nature10351. PMID: 21796119; PMCID: PMC3210554.
87		-
88	92
89	93	<!-- ORIGIN: morinFrequentMutationHistonemodifying2011 -->
90	94	<!-- DLBCL: morinFrequentMutationHistonemodifying2011 -->
91	95	<!-- MCL: beaLandscapeSomaticMutations2013 -->
92	96	<!-- FL: morinFrequentMutationHistonemodifying2011 -->
93	97	<!-- BL: 2 -->
	98	+## References
	99	+1. Morin RD, Mendez-Lago M, Mungall AJ, Goya R, Mungall KL, Corbett RD, Johnson NA, Severson TM, Chiu R, Field M, Jackman S, Krzywinski M, Scott DW, Trinh DL, Tamura-Wells J, Li S, Firme MR, Rogic S, Griffith M, Chan S, Yakovenko O, Meyer IM, Zhao EY, Smailus D, Moksa M, Chittaranjan S, Rimsza L, Brooks-Wilson A, Spinelli JJ, Ben-Neriah S, Meissner B, Woolcock B, Boyle M, McDonald H, Tam A, Zhao Y, Delaney A, Zeng T, Tse K, Butterfield Y, Birol I, Holt R, Schein J, Horsman DE, Moore R, Jones SJM, Connors JM, Hirst M, Gascoyne RD, Marra MA. Frequent mutation of histone-modifying genes in non-Hodgkin lymphoma. Nature. 2011 Jul 27;476(7360):298–303. PMCID: PMC3210554
	100	+2. Beà S, Valdés-Mas R, Navarro A, Salaverria I, Martín-Garcia D, Jares P, Giné E, Pinyol M, Royo C, Nadeu F, Conde L, Juan M, Clot G, Vizán P, Croce LD, Puente DA, López-Guerra M, Moros A, Roue G, Aymerich M, Villamor N, Colomo L, Martínez A, Valera A, Martín-Subero JI, Amador V, Hernández L, Rozman M, Enjuanes A, Forcada P, Muntañola A, Hartmann EM, Calasanz MJ, Rosenwald A, Ott G, Hernández-Rivas JM, Klapper W, Siebert R, Wiestner A, Wilson WH, Colomer D, López-Guillermo A, López-Otín C, Puente XS, Campo E. Landscape of somatic mutations and clonal evolution in mantle cell lymphoma. PNAS. 2013 Nov 5;110(45):18250–18255. PMID: 24145436

...	...	@@ -1,7 +1,16 @@
1	1	# NFKBIE
2	2	## Overview
3	3	NFKBIE encodes IκBε, a negative regulator of NF-κB. Mutations in NFKBIE can disrupt this regulatory function, leading to constitutive activation of NF-κB signaling.<sup>1</sup> Mutations are relatively common in DLBCL and MCL.<sup>2</sup>
4		-
	4	+## History
	5	+
	6	+```mermaid
	7	+%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%
	8	+timeline
	9	+ title Publication timing
	10	+ 2016-05-01 : Morin : DLBCL
	11	+ 2016-12-08 : Mansouri : PMBL
	12	+ 2020-07-30 : Pararajalingam : MCL
	13	+```
5	14	## Relevance tier by entity
6	15
7	16	\|Entity\|Tier\|Description \|

...	...	@@ -1,5 +1,15 @@
1	1	# NOTCH1
	2	+## History
2	3
	4	+```mermaid
	5	+%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%
	6	+timeline
	7	+ title Publication timing
	8	+ 2011-07-31 : Pasqualucci : DLBCL
	9	+ 2012-08-27 : Rossi : MZL
	10	+ 2012-12-01 : Love : BL
	11	+ 2013-11-05 : Bea : MCL
	12	+```
3	13	## Relevance tier by entity
4	14
5	15	\|Entity\|Tier\|Description \|

...	...	@@ -1,5 +1,14 @@
1	1	# NOTCH2
2		-
	2	+## History
	3	+```mermaid
	4	+%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%
	5	+timeline
	6	+ title Publication timing
	7	+ 2008-07-01 : Troen : DLBCL
	8	+ 2012-08-27 : Rossi : MZL
	9	+ 2013-11-05 : Bea : MCL
	10	+ 2019-09-26 : Panea : BL
	11	+```
3	12	## Relevance tier by entity
4	13
5	14	\|Entity\|Tier\|Description \|

...	...	@@ -1,9 +1,16 @@
1	1	# NSD2
2		-
	2	+## History
	3	+```mermaid
	4	+%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%
	5	+timeline
	6	+ title Publication timing
	7	+ 2013-11-05 : Bea : MCL
	8	+```
3	9	## Relevance tier by entity
4	10
5	11	\|Entity\|Tier\|Description \|
6	12	\|:------:\|:----:\|------------------------\|
	13	+\|![PMBL](images/icons/PMBL_tier2.png)\|2\|relevance in PMBL/cHL/GZL not firmly established\|
7	14	\|![MCL](images/icons/MCL_tier1.png) \|1 \|high-confidence MCL gene\|
8	15
9	16	## Mutation incidence in large patient cohorts (GAMBL reanalysis)
...	...	@@ -32,3 +39,5 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/N
32	39	![image](images/gene_expression/NSD2_by_pathology.svg)
33	40	<!-- ORIGIN: beaLandscapeSomaticMutations2013 -->
34	41	<!-- MCL: beaLandscapeSomaticMutations2013 -->
	42	+## References
	43	+1. Beà S, Valdés-Mas R, Navarro A, Salaverria I, Martín-Garcia D, Jares P, Giné E, Pinyol M, Royo C, Nadeu F, Conde L, Juan M, Clot G, Vizán P, Croce LD, Puente DA, López-Guerra M, Moros A, Roue G, Aymerich M, Villamor N, Colomo L, Martínez A, Valera A, Martín-Subero JI, Amador V, Hernández L, Rozman M, Enjuanes A, Forcada P, Muntañola A, Hartmann EM, Calasanz MJ, Rosenwald A, Ott G, Hernández-Rivas JM, Klapper W, Siebert R, Wiestner A, Wilson WH, Colomer D, López-Guillermo A, López-Otín C, Puente XS, Campo E. Landscape of somatic mutations and clonal evolution in mantle cell lymphoma. PNAS. 2013 Nov 5;110(45):18250–18255. PMID: 24145436

...	...	@@ -1,5 +1,11 @@
1	1	# ODZ3
2		-
	2	+## History
	3	+```mermaid
	4	+%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%
	5	+timeline
	6	+ title Publication timing
	7	+ 2013-08-15 : Morin : DLBCL
	8	+```
3	9	## Relevance tier by entity
4	10
5	11	\|Entity\|Tier\|Description \|
...	...	@@ -26,3 +32,5 @@
26	32	![image](images/gene_expression/ODZ3_by_pathology.svg)
27	33	<!-- ORIGIN: morinMutationalStructuralAnalysis2013 -->
28	34	<!-- DLBCL: morinMutationalStructuralAnalysis2013 -->
	35	+## References
	36	+1. Morin RD, Mungall K, Pleasance E, Mungall AJ, Goya R, Huff RD, Scott DW, Ding J, Roth A, Chiu R, Corbett RD, Chan FC, Mendez-Lago M, Trinh DL, Bolger-Munro M, Taylor G, Hadj Khodabakhshi A, Ben-Neriah S, Pon J, Meissner B, Woolcock B, Farnoud N, Rogic S, Lim EL, Johnson NA, Shah S, Jones S, Steidl C, Holt R, Birol I, Moore R, Connors JM, Gascoyne RD, Marra MA. Mutational and structural analysis of diffuse large B-cell lymphoma using whole-genome sequencing. Blood. 2013 Aug 15;122(7):1256–1265. PMCID: PMC3744992

...	...	@@ -1,5 +1,12 @@
1	1	# POT1
2		-
	2	+## History
	3	+
	4	+```mermaid
	5	+%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%
	6	+timeline
	7	+ title Publication timing
	8	+ 2014-05-08 : Zhang : MCL
	9	+```
3	10	## Relevance tier by entity
4	11
5	12	\|Entity\|Tier\|Description \|
...	...	@@ -36,3 +43,5 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/P
36	43	![image](images/gene_expression/POT1_by_pathology.svg)
37	44	<!-- ORIGIN: zhangGenomicLandscapeMantle2014 -->
38	45	<!-- MCL: zhangGenomicLandscapeMantle2014 -->
	46	+## References
	47	+1. Zhang J, Jima D, Moffitt AB, Liu Q, Czader M, Hsi ED, Fedoriw Y, Dunphy CH, Richards KL, Gill JI, Sun Z, Love C, Scotland P, Lock E, Levy S, Hsu DS, Dunson D, Dave SS. The genomic landscape of mantle cell lymphoma is related to the epigenetically determined chromatin state of normal B cells. Blood. 2014 May 8;123(19):2988–2996.

...	...	@@ -1,5 +1,13 @@
1	1	# RB1
2		-
	2	+## History
	3	+
	4	+```mermaid
	5	+%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%
	6	+timeline
	7	+ title Publication timing
	8	+ 2013-08-15 : Morin : DLBCL
	9	+ 2014-05-08 : Zhang : MCL
	10	+```
3	11	## Relevance tier by entity
4	12
5	13	\|Entity\|Tier\|Description \|
...	...	@@ -42,3 +50,6 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/R
42	50	<!-- ORIGIN: morinMutationalStructuralAnalysis2013 -->
43	51	<!-- DLBCL: morinMutationalStructuralAnalysis2013 -->
44	52	<!-- MCL: zhangGenomicLandscapeMantle2014 -->
	53	+## References
	54	+1. Morin RD, Mungall K, Pleasance E, Mungall AJ, Goya R, Huff RD, Scott DW, Ding J, Roth A, Chiu R, Corbett RD, Chan FC, Mendez-Lago M, Trinh DL, Bolger-Munro M, Taylor G, Hadj Khodabakhshi A, Ben-Neriah S, Pon J, Meissner B, Woolcock B, Farnoud N, Rogic S, Lim EL, Johnson NA, Shah S, Jones S, Steidl C, Holt R, Birol I, Moore R, Connors JM, Gascoyne RD, Marra MA. Mutational and structural analysis of diffuse large B-cell lymphoma using whole-genome sequencing. Blood. 2013 Aug 15;122(7):1256–1265. PMCID: PMC3744992
	55	+2. Zhang J, Jima D, Moffitt AB, Liu Q, Czader M, Hsi ED, Fedoriw Y, Dunphy CH, Richards KL, Gill JI, Sun Z, Love C, Scotland P, Lock E, Levy S, Hsu DS, Dunson D, Dave SS. The genomic landscape of mantle cell lymphoma is related to the epigenetically determined chromatin state of normal B cells. Blood. 2014 May 8;123(19):2988–2996.

...	...	@@ -1,5 +1,15 @@
1	1	# SMARCA4
	2	+## History
2	3
	4	+```mermaid
	5	+%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%
	6	+timeline
	7	+ title Publication timing
	8	+ 2012-11-11 : Richter : BL
	9	+ 2013-01-01 : Zhang : DLBCL
	10	+ 2017-01-26 : Krysiak : FL
	11	+ 2020-09-17 : Nadeu : MCL
	12	+```
3	13	## Relevance tier by entity
4	14
5	15	\|Entity\|Tier\|Description \|
...	...	@@ -51,3 +61,8 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/S
51	61	<!-- DLBCL: zhangGeneticHeterogeneityDiffuse2013 -->
52	62	<!-- FL: krysiakRecurrentSomaticMutations2017b -->
53	63	<!-- BL: richterRecurrentMutationID32012a -->
	64	+## References
	65	+1. Richter J, Schlesner M, Hoffmann S, Kreuz M, Leich E, Burkhardt B, Rosolowski M, Ammerpohl O, Wagener R, Bernhart SH, Lenze D, Szczepanowski M, Paulsen M, Lipinski S, Russell RB, Adam-Klages S, Apic G, Claviez A, Hasenclever D, Hovestadt V, Hornig N, Korbel JO, Kube D, Langenberger D, Lawerenz C, Lisfeld J, Meyer K, Picelli S, Pischimarov J, Radlwimmer B, Rausch T, Rohde M, Schilhabel M, Scholtysik R, Spang R, Trautmann H, Zenz T, Borkhardt A, Drexler HG, Möller P, MacLeod RAF, Pott C, Schreiber S, Trümper L, Loeffler M, Stadler PF, Lichter P, Eils R, Küppers R, Hummel M, Klapper W, Rosenstiel P, Rosenwald A, Brors B, Siebert R, ICGC MMML-Seq Project. Recurrent mutation of the ID3 gene in Burkitt lymphoma identified by integrated genome, exome and transcriptome sequencing. Nat Genet. 2012 Dec;44(12):1316–1320. PMID: 23143595
	66	+2. Zhang J, Grubor V, Love CL, Banerjee A, Richards KL, Mieczkowski PA, Dunphy C, Choi W, Au WY, Srivastava G, Lugar PL, Rizzieri DA, Lagoo AS, Bernal-Mizrachi L, Mann KP, Flowers C, Naresh K, Evens A, Gordon LI, Czader M, Gill JI, Hsi ED, Liu Q, Fan A, Walsh K, Jima D, Smith LL, Johnson AJ, Byrd JC, Luftig MA, Ni T, Zhu J, Chadburn A, Levy S, Dunson D, Dave SS. Genetic heterogeneity of diffuse large B-cell lymphoma. 2013 Jan;
	67	+3. Krysiak K, Gomez F, White BS, Matlock M, Miller CA, Trani L, Fronick CC, Fulton RS, Kreisel F, Cashen AF, Carson KR, Berrien-Elliott MM, Bartlett NL, Griffith M, Griffith OL, Fehniger TA. Recurrent somatic mutations affecting B-cell receptor signaling pathway genes in follicular lymphoma. Blood. 2017 Jan 26;129(4):473–483. PMCID: PMC5270390
	68	+4. Nadeu F, Martín-García D, Clot G, Díaz-Navarro A, Duran-Ferrer M, Navarro A, Vilarrasa-Blasi R, Kulis M, Royo R, Gutiérrez-Abril J, Valdés-Mas R, López C, Chapaprieta V, Puiggrós M, Castellano G, Costa D, Aymerich M, Jares P, Espinet B, Muntañola A, Ribera‐Cortada I, Siebert R, Colomer D, Torrents D, Giné E, López-Guillermo A, Küppers R, Martín-Subero J, Puente X, Beà S, Campo E. Genomic and epigenomic insights into the origin, pathogenesis and clinical behavior of mantle cell lymphoma subtypes. Blood. 2020;

...	...	@@ -1,5 +1,11 @@
1	1	# SP140
2		-
	2	+## History
	3	+```mermaid
	4	+%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%
	5	+timeline
	6	+ title Publication timing
	7	+ 2013-11-05 : Bea : MCL
	8	+```
3	9	## Relevance tier by entity
4	10
5	11	\|Entity\|Tier\|Description \|
...	...	@@ -36,3 +42,5 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/S
36	42	![image](images/gene_expression/SP140_by_pathology.svg)
37	43	<!-- ORIGIN: beaLandscapeSomaticMutations2013 -->
38	44	<!-- MCL: beaLandscapeSomaticMutations2013 -->
	45	+## References
	46	+1. Beà S, Valdés-Mas R, Navarro A, Salaverria I, Martín-Garcia D, Jares P, Giné E, Pinyol M, Royo C, Nadeu F, Conde L, Juan M, Clot G, Vizán P, Croce LD, Puente DA, López-Guerra M, Moros A, Roue G, Aymerich M, Villamor N, Colomo L, Martínez A, Valera A, Martín-Subero JI, Amador V, Hernández L, Rozman M, Enjuanes A, Forcada P, Muntañola A, Hartmann EM, Calasanz MJ, Rosenwald A, Ott G, Hernández-Rivas JM, Klapper W, Siebert R, Wiestner A, Wilson WH, Colomer D, López-Guillermo A, López-Otín C, Puente XS, Campo E. Landscape of somatic mutations and clonal evolution in mantle cell lymphoma. PNAS. 2013 Nov 5;110(45):18250–18255. PMID: 24145436

...	...	@@ -1,5 +1,11 @@
1	1	# SYNE1
2		-
	2	+## History
	3	+```mermaid
	4	+%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%
	5	+timeline
	6	+ title Publication timing
	7	+ 2020-09-17 : Nadeu : MCL
	8	+```
3	9	## Relevance tier by entity
4	10
5	11	\|Entity\|Tier\|Description \|
...	...	@@ -36,3 +42,5 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/S
36	42	![image](images/gene_expression/SYNE1_by_pathology.svg)
37	43	<!-- ORIGIN: nadeuGenomicEpigenomicInsights2020a -->
38	44	<!-- MCL: nadeuGenomicEpigenomicInsights2020a -->
	45	+## References
	46	+1. Nadeu F, Martín-García D, Clot G, Díaz-Navarro A, Duran-Ferrer M, Navarro A, Vilarrasa-Blasi R, Kulis M, Royo R, Gutiérrez-Abril J, Valdés-Mas R, López C, Chapaprieta V, Puiggrós M, Castellano G, Costa D, Aymerich M, Jares P, Espinet B, Muntañola A, Ribera‐Cortada I, Siebert R, Colomer D, Torrents D, Giné E, López-Guillermo A, Küppers R, Martín-Subero J, Puente X, Beà S, Campo E. Genomic and epigenomic insights into the origin, pathogenesis and clinical behavior of mantle cell lymphoma subtypes. Blood. 2020;

...	...	@@ -1,5 +1,11 @@
1	1	# TERT
2		-
	2	+## History
	3	+```mermaid
	4	+%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%
	5	+timeline
	6	+ title Publication timing
	7	+ 2020-09-17 : Nadeu : MCL
	8	+```
3	9	## Relevance tier by entity
4	10
5	11	\|Entity\|Tier\|Description \|
...	...	@@ -36,3 +42,5 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/T
36	42	![image](images/gene_expression/TERT_by_pathology.svg)
37	43	<!-- ORIGIN: nadeuGenomicEpigenomicInsights2020a -->
38	44	<!-- MCL: nadeuGenomicEpigenomicInsights2020a -->
	45	+## References
	46	+1. Nadeu F, Martín-García D, Clot G, Díaz-Navarro A, Duran-Ferrer M, Navarro A, Vilarrasa-Blasi R, Kulis M, Royo R, Gutiérrez-Abril J, Valdés-Mas R, López C, Chapaprieta V, Puiggrós M, Castellano G, Costa D, Aymerich M, Jares P, Espinet B, Muntañola A, Ribera‐Cortada I, Siebert R, Colomer D, Torrents D, Giné E, López-Guillermo A, Küppers R, Martín-Subero J, Puente X, Beà S, Campo E. Genomic and epigenomic insights into the origin, pathogenesis and clinical behavior of mantle cell lymphoma subtypes. Blood. 2020;

...	...	@@ -1,6 +1,16 @@
1	1	# TP53
2		-## Overview
	2	+## History
3	3
	4	+```mermaid
	5	+%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%
	6	+timeline
	7	+ title Publication timing
	8	+ 2004-03-01 : Wilda : BL
	9	+ 2011-07-27 : Morin : FL
	10	+ 2012-08-27 : Rossi : MZL
	11	+ 2013-11-05 : Be : MCL
	12	+ 2018-05-31 : Tiacci : PMBL
	13	+```
4	14	## Relevance tier by entity
5	15
6	16	\|Entity\|Tier\|Description \|

...	...	@@ -1,5 +1,12 @@
1	1	# UBR5
2		-
	2	+## History
	3	+```mermaid
	4	+%%{init: { 'logLevel': 'debug', 'theme': 'dark' } }%%
	5	+timeline
	6	+ title Publication timing
	7	+ 2013-01-01 : Zhang : DLBCL
	8	+ 2020-07-30 : Pararajalingam : MCL
	9	+```
3	10	## Relevance tier by entity
4	11
5	12	\|Entity\|Tier\|Description \|
...	...	@@ -43,3 +50,6 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/U
43	50	<!-- ORIGIN: zhangGeneticHeterogeneityDiffuse2013 -->
44	51	<!-- DLBCL: zhangGeneticHeterogeneityDiffuse2013 -->
45	52	<!-- MCL: pararajalingamCodingNoncodingDrivers2020 -->
	53	+## References
	54	+1. Zhang J, Grubor V, Love CL, Banerjee A, Richards KL, Mieczkowski PA, Dunphy C, Choi W, Au WY, Srivastava G, Lugar PL, Rizzieri DA, Lagoo AS, Bernal-Mizrachi L, Mann KP, Flowers C, Naresh K, Evens A, Gordon LI, Czader M, Gill JI, Hsi ED, Liu Q, Fan A, Walsh K, Jima D, Smith LL, Johnson AJ, Byrd JC, Luftig MA, Ni T, Zhu J, Chadburn A, Levy S, Dunson D, Dave SS. Genetic heterogeneity of diffuse large B-cell lymphoma. 2013 Jan;
	55	+2. Pararajalingam P, Coyle KM, Arthur SE, Thomas N, Alcaide M, Meissner B, Boyle M, Qureshi Q, Grande BM, Rushton C, Slack GW, Mungall AJ, Tam CS, Agarwal R, Dawson SJ, Lenz G, Balasubramanian S, Gascoyne RD, Steidl C, Connors J, Villa D, Audas TE, Marra MA, Johnson NA, Scott DW, Morin RD. Coding and noncoding drivers of mantle cell lymphoma identified through exome and genome sequencing. Blood. 2020 Jul 30;136(5):572–584. PMCID: PMC7440974