ADAMTS5.md
... ...
@@ -36,4 +36,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/A
36 36
![image](images/proteinpaint/ADAMTS5.svg)
37 37
## ADAMTS5 Expression
38 38
![image](images/gene_expression/ADAMTS5_by_pathology.svg)
39
-<!-- ORIGIN: schmitzBurkittLymphomaPathogenesis2012 -->
39
+<!-- ORIGIN: burkhardtClinicalRelevanceMolecular2022b -->
ADNP.md
... ...
@@ -36,4 +36,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/A
36 36
![image](images/proteinpaint/ADNP.svg)
37 37
## ADNP Expression
38 38
![image](images/gene_expression/ADNP_by_pathology.svg)
39
-<!-- ORIGIN: schmitzBurkittLymphomaPathogenesis2012 -->
39
+<!-- ORIGIN: burkhardtClinicalRelevanceMolecular2022b -->
AGO4.md
... ...
@@ -36,4 +36,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/A
36 36
![image](images/proteinpaint/AGO4.svg)
37 37
## AGO4 Expression
38 38
![image](images/gene_expression/AGO4_by_pathology.svg)
39
-<!-- ORIGIN: schmitzBurkittLymphomaPathogenesis2012 -->
39
+<!-- ORIGIN: burkhardtClinicalRelevanceMolecular2022b -->
ARHGEF1.md
... ...
@@ -36,4 +36,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/A
36 36
![image](images/proteinpaint/ARHGEF1.svg)
37 37
## ARHGEF1 Expression
38 38
![image](images/gene_expression/ARHGEF1_by_pathology.svg)
39
-<!-- ORIGIN: chapuyMolecularSubtypesDiffuse2018b -->
39
+<!-- ORIGIN: muppidiLossSignalingGa132014b -->
ARID1A.md
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@@ -45,4 +45,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/A
45 45
![image](images/proteinpaint/ARID1A.svg)
46 46
## ARID1A Expression
47 47
![image](images/gene_expression/ARID1A_by_pathology.svg)
48
-<!-- ORIGIN: zhangGeneticHeterogeneityDiffuse2013 -->
48
+<!-- ORIGIN: loveGeneticLandscapeMutations2012 -->
ATM.md
... ...
@@ -39,4 +39,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/A
39 39
![image](images/proteinpaint/ATM.svg)
40 40
## ATM Expression
41 41
![image](images/gene_expression/ATM_by_pathology.svg)
42
-<!-- ORIGIN: reddyGeneticFunctionalDrivers2017 -->
42
+<!-- ORIGIN: beaLandscapeSomaticMutations2013 -->
ATP6AP1.md
... ...
@@ -31,4 +31,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/A
31 31
![image](images/proteinpaint/ATP6AP1.svg)
32 32
## ATP6AP1 Expression
33 33
![image](images/gene_expression/ATP6AP1_by_pathology.svg)
34
-<!-- ORIGIN: Unknown -->
34
+<!-- ORIGIN: okosunRecurrentMTORC1activatingRRAGC2016a -->
ATP6V1B2.md
... ...
@@ -38,4 +38,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/A
38 38
![image](images/proteinpaint/ATP6V1B2.svg)
39 39
## ATP6V1B2 Expression
40 40
![image](images/gene_expression/ATP6V1B2_by_pathology.svg)
41
-<!-- ORIGIN: Unknown -->
41
+<!-- ORIGIN: okosunRecurrentMTORC1activatingRRAGC2016a -->
BCL11A.md
... ...
@@ -62,4 +62,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/B
62 62
1. *Satterwhite E, Sonoki T, Willis TG, Harder L, Nowak R, Arriola EL, Liu H, Price HP, Gesk S, Steinemann D, Schlegelberger B, Oscier DG, Siebert R, Tucker PW, Dyer MJ. The BCL11 gene family: involvement of BCL11A in lymphoid malignancies. Blood. 2001 Dec 1;98(12):3413-20. doi: 10.1182/blood.v98.12.3413. PMID: 11719382.*
63 63
## BCL11A Expression
64 64
![image](images/gene_expression/BCL11A_by_pathology.svg)
65
-<!-- ORIGIN: Unknown -->
65
+<!-- ORIGIN: NA -->
BCL2.md
... ...
@@ -74,4 +74,4 @@ and BCL2 rearrangements-an LLMPP study. Blood. 2024. Epub May 3.*
74 74
3. *Singh K, Briggs JM. Functional Implications of the spectrum of BCL2 mutations in Lymphoma. Mutat Res Rev Mutat Res. 2016 Jul-Sep;769:1-18. doi: 10.1016/j.mrrev.2016.06.001. Epub 2016 Jun 16. PMID: 27543313.*
75 75
## BCL2 Expression
76 76
![image](images/gene_expression/BCL2_by_pathology.svg)
77
-<!-- ORIGIN: morinFrequentMutationHistonemodifying2011 -->
77
+<!-- ORIGIN: tanakaFrequentIncidenceSomatic1992 -->
BCL7A.md
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@@ -56,4 +56,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/B
56 56
3. *Baliñas-Gavira C, Rodríguez MI, Andrades A, Cuadros M, Álvarez-Pérez JC, Álvarez-Prado ÁF, de Yébenes VG, Sánchez-Hernández S, Fernández-Vigo E, Muñoz J, Martín F, Ramiro AR, Martínez-Climent JA, Medina PP. Frequent mutations in the amino-terminal domain of BCL7A impair its tumor suppressor role in DLBCL. Leukemia. 2020 Oct;34(10):2722-2735. doi: 10.1038/s41375-020-0919-5. Epub 2020 Jun 24. PMID: 32576963.*
57 57
## BCL7A Expression
58 58
![image](images/gene_expression/BCL7A_by_pathology.svg)
59
-<!-- ORIGIN: arthurGenomewideDiscoverySomatic2018 -->
59
+<!-- ORIGIN: krysiakRecurrentSomaticMutations2017b -->
BCOR.md
... ...
@@ -52,4 +52,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/B
52 52
2. *Nadeu F, Martin-Garcia 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, Puiggros M, Castellano G, Costa D, Aymerich M, Jares P, Espinet B, Muntañola A, Ribera-Cortada I, Siebert R, Colomer D, Torrents D, Gine E, López-Guillermo A, Küppers R, Martin-Subero JI, Puente XS, Beà S, Campo E. Genomic and epigenomic insights into the origin, pathogenesis, and clinical behavior of mantle cell lymphoma subtypes. Blood. 2020 Sep 17;136(12):1419-1432. doi: 10.1182/blood.2020005289. PMID: 32584970; PMCID: PMC7498364.*
53 53
## BCOR Expression
54 54
![image](images/gene_expression/BCOR_by_pathology.svg)
55
-<!-- ORIGIN: nadeuGenomicEpigenomicInsights2020a -->
55
+<!-- ORIGIN: NA -->
BIRC3.md
... ...
@@ -44,4 +44,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/B
44 44
![image](images/proteinpaint/BIRC3.svg)
45 45
## BIRC3 Expression
46 46
![image](images/gene_expression/BIRC3_by_pathology.svg)
47
-<!-- ORIGIN: arthurGenomewideDiscoverySomatic2018 -->
47
+<!-- ORIGIN: beaLandscapeSomaticMutations2013 -->
BLK.md
... ...
@@ -39,4 +39,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/B
39 39
![image](images/proteinpaint/BLK.svg)
40 40
## BLK Expression
41 41
![image](images/gene_expression/BLK_by_pathology.svg)
42
-<!-- ORIGIN: Unknown -->
42
+<!-- ORIGIN: NA -->
CARD11.md
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@@ -67,4 +67,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/C
67 67
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.*
68 68
## CARD11 Expression
69 69
![image](images/gene_expression/CARD11_by_pathology.svg)
70
-<!-- ORIGIN: morinFrequentMutationHistonemodifying2011 -->
70
+<!-- ORIGIN: lenzOncogenicCARD11Mutations2008 -->
CD79A.md
... ...
@@ -43,4 +43,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/C
43 43
![image](images/proteinpaint/CD79A.svg)
44 44
## CD79A Expression
45 45
![image](images/gene_expression/CD79A_by_pathology.svg)
46
-<!-- ORIGIN: schmitzBurkittLymphomaPathogenesis2012 -->
46
+<!-- ORIGIN: burkhardtClinicalRelevanceMolecular2022b -->
CDC73.md
... ...
@@ -41,4 +41,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/C
41 41
![image](images/proteinpaint/CDC73.svg)
42 42
## CDC73 Expression
43 43
![image](images/gene_expression/CDC73_by_pathology.svg)
44
-<!-- ORIGIN: reddyGeneticFunctionalDrivers2017 -->
44
+<!-- ORIGIN: loveGeneticLandscapeMutations2012 -->
CDKN2C.md
... ...
@@ -36,4 +36,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/C
36 36
![image](images/proteinpaint/CDKN2C.svg)
37 37
## CDKN2C Expression
38 38
![image](images/gene_expression/CDKN2C_by_pathology.svg)
39
-<!-- ORIGIN: Unknown -->
39
+<!-- ORIGIN: thomasGeneticSubgroupsInform2023 -->
CHD4.md
... ...
@@ -36,4 +36,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/C
36 36
![image](images/proteinpaint/CHD4.svg)
37 37
## CHD4 Expression
38 38
![image](images/gene_expression/CHD4_by_pathology.svg)
39
-<!-- ORIGIN: schmitzBurkittLymphomaPathogenesis2012 -->
39
+<!-- ORIGIN: burkhardtClinicalRelevanceMolecular2022b -->
CPXM2.md
... ...
@@ -36,4 +36,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/C
36 36
![image](images/proteinpaint/CPXM2.svg)
37 37
## CPXM2 Expression
38 38
![image](images/gene_expression/CPXM2_by_pathology.svg)
39
-<!-- ORIGIN: schmitzBurkittLymphomaPathogenesis2012 -->
39
+<!-- ORIGIN: burkhardtClinicalRelevanceMolecular2022b -->
CTSS.md
... ...
@@ -39,4 +39,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/C
39 39
![image](images/proteinpaint/CTSS.svg)
40 40
## CTSS Expression
41 41
![image](images/gene_expression/CTSS_by_pathology.svg)
42
-<!-- ORIGIN: Unknown -->
42
+<!-- ORIGIN: barariaCathepsinAlterationsInduce2020c -->
DDX3X.md
... ...
@@ -56,4 +56,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/D
56 56
57 57
## DDX3X Expression
58 58
![image](images/gene_expression/DDX3X_by_pathology.svg)
59
-<!-- ORIGIN: schmitzGeneticsPathogenesisDiffuse2018a -->
59
+<!-- ORIGIN: schmitzBurkittLymphomaPathogenesis2012 -->
E2F2.md
... ...
@@ -36,4 +36,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/E
36 36
![image](images/proteinpaint/E2F2.svg)
37 37
## E2F2 Expression
38 38
![image](images/gene_expression/E2F2_by_pathology.svg)
39
-<!-- ORIGIN: schmitzBurkittLymphomaPathogenesis2012 -->
39
+<!-- ORIGIN: burkhardtClinicalRelevanceMolecular2022b -->
EDNRB.md
... ...
@@ -36,4 +36,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/E
36 36
![image](images/proteinpaint/EDNRB.svg)
37 37
## EDNRB Expression
38 38
![image](images/gene_expression/EDNRB_by_pathology.svg)
39
-<!-- ORIGIN: schmitzBurkittLymphomaPathogenesis2012 -->
39
+<!-- ORIGIN: burkhardtClinicalRelevanceMolecular2022b -->
EIF2AK3.md
... ...
@@ -34,4 +34,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/E
34 34
![image](images/proteinpaint/EIF2AK3.svg)
35 35
## EIF2AK3 Expression
36 36
![image](images/gene_expression/EIF2AK3_by_pathology.svg)
37
-<!-- ORIGIN: Unknown -->
37
+<!-- ORIGIN: NA -->
ERAP1.md
... ...
@@ -36,4 +36,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/E
36 36
![image](images/proteinpaint/ERAP1.svg)
37 37
## ERAP1 Expression
38 38
![image](images/gene_expression/ERAP1_by_pathology.svg)
39
-<!-- ORIGIN: schmitzBurkittLymphomaPathogenesis2012 -->
39
+<!-- ORIGIN: burkhardtClinicalRelevanceMolecular2022b -->
FANK1.md
... ...
@@ -39,4 +39,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/F
39 39
![image](images/proteinpaint/FANK1.svg)
40 40
## FANK1 Expression
41 41
![image](images/gene_expression/FANK1_by_pathology.svg)
42
-<!-- ORIGIN: Unknown -->
42
+<!-- ORIGIN: NA -->
HIST1H1B.md
... ...
@@ -41,4 +41,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/H
41 41
![image](images/proteinpaint/HIST1H1B.svg)
42 42
## HIST1H1B Expression
43 43
![image](images/gene_expression/HIST1H1B_by_pathology.svg)
44
-<!-- ORIGIN: chapuyMolecularSubtypesDiffuse2018b -->
44
+<!-- ORIGIN: krysiakRecurrentSomaticMutations2017b -->
HIST1H2AM.md
... ...
@@ -73,4 +73,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/H
73 73
![image](images/proteinpaint/HIST1H2AM.svg)
74 74
## HIST1H2AM Expression
75 75
![image](images/gene_expression/HIST1H2AM_by_pathology.svg)
76
-<!-- ORIGIN: paneaWholeGenomeLandscape2019 -->
76
+<!-- ORIGIN: NA -->
HIST1H2BD.md
... ...
@@ -29,4 +29,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/H
29 29
![image](images/proteinpaint/HIST1H2BD.svg)
30 30
## HIST1H2BD Expression
31 31
![image](images/gene_expression/HIST1H2BD_by_pathology.svg)
32
-<!-- ORIGIN: Unknown -->
32
+<!-- ORIGIN: krysiakRecurrentSomaticMutations2017b -->
HIST1H2BG.md
... ...
@@ -29,4 +29,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/H
29 29
![image](images/proteinpaint/HIST1H2BG.svg)
30 30
## HIST1H2BG Expression
31 31
![image](images/gene_expression/HIST1H2BG_by_pathology.svg)
32
-<!-- ORIGIN: Unknown -->
32
+<!-- ORIGIN: krysiakRecurrentSomaticMutations2017b -->
HIST1H2BK.md
... ...
@@ -43,4 +43,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/H
43 43
![image](images/proteinpaint/HIST1H2BK.svg)
44 44
## HIST1H2BK Expression
45 45
![image](images/gene_expression/HIST1H2BK_by_pathology.svg)
46
-<!-- ORIGIN: paneaWholeGenomeLandscape2019 -->
46
+<!-- ORIGIN: NA -->
HIST1H2BM.md
... ...
@@ -34,4 +34,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/H
34 34
![image](images/proteinpaint/HIST1H2BM.svg)
35 35
## HIST1H2BM Expression
36 36
![image](images/gene_expression/HIST1H2BM_by_pathology.svg)
37
-<!-- ORIGIN: russler-germainMutationsAssociatedProgression2023a -->
37
+<!-- ORIGIN: krysiakRecurrentSomaticMutations2017b -->
HIST1H3G.md
... ...
@@ -31,4 +31,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/H
31 31
![image](images/proteinpaint/HIST1H3G.svg)
32 32
## HIST1H3G Expression
33 33
![image](images/gene_expression/HIST1H3G_by_pathology.svg)
34
-<!-- ORIGIN: Unknown -->
34
+<!-- ORIGIN: krysiakRecurrentSomaticMutations2017b -->
HIST1H3I.md
... ...
@@ -38,4 +38,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/H
38 38
![image](images/proteinpaint/HIST1H3I.svg)
39 39
## HIST1H3I Expression
40 40
![image](images/gene_expression/HIST1H3I_by_pathology.svg)
41
-<!-- ORIGIN: paneaWholeGenomeLandscape2019 -->
41
+<!-- ORIGIN: krysiakRecurrentSomaticMutations2017b -->
HLA-B.md
... ...
@@ -60,4 +60,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/H
60 60
## References
61 61
1. *Riemersma, S., Jordanova, E., Schop, R., Philippo, K., Looijenga, L., Schuuring, E., & Kluin, P. (2000). Extensive genetic alterations of the HLA region, including homozygous deletions of HLA class II genes in B-cell lymphomas arising in immune-privileged sites.. Blood, 96 10, 3569-77 . https://doi.org/10.1182/BLOOD.V96.10.3569.*
62 62
63
-<!-- ORIGIN: Unknown -->
63
+<!-- ORIGIN: NA -->
HLA-DQB1.md
... ...
@@ -36,4 +36,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/H
36 36
![image](images/proteinpaint/HLA-DQB1.svg)
37 37
## HLA-DQB1 Expression
38 38
![image](images/gene_expression/HLA-DQB1_by_pathology.svg)
39
-<!-- ORIGIN: schmitzBurkittLymphomaPathogenesis2012 -->
39
+<!-- ORIGIN: burkhardtClinicalRelevanceMolecular2022b -->
HVCN1.md
... ...
@@ -54,4 +54,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/H
54 54
1. *Krysiak, K., Gomez, F., White, B., Matlock, M., Miller, C., Trani, L., Fronick, C., Fulton, R., Kreisel, F., Cashen, A., Carson, K., Berrien-Elliott, M., Bartlett, N., Griffith, M., Griffith, O., & Fehniger, T. (2017). Recurrent somatic mutations affecting B-cell receptor signaling pathway genes in follicular lymphoma.. Blood, 129 4, 473-483 . https://doi.org/10.1182/blood-2016-07-729954.*
55 55
## HVCN1 Expression
56 56
![image](images/gene_expression/HVCN1_by_pathology.svg)
57
-<!-- ORIGIN: Unknown -->
57
+<!-- ORIGIN: NA -->
IL16.md
... ...
@@ -40,4 +40,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/I
40 40
41 41
<!-- FLAGGED FOR TIER 2 -->
42 42
43
-<!-- ORIGIN: Unknown -->
43
+<!-- ORIGIN: NA -->
KLHL26.md
... ...
@@ -36,4 +36,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/K
36 36
![image](images/proteinpaint/KLHL26.svg)
37 37
## KLHL26 Expression
38 38
![image](images/gene_expression/KLHL26_by_pathology.svg)
39
-<!-- ORIGIN: schmitzBurkittLymphomaPathogenesis2012 -->
39
+<!-- ORIGIN: burkhardtClinicalRelevanceMolecular2022b -->
LTB.md
... ...
@@ -51,4 +51,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/L
51 51
![image](images/gene_expression/LTB_by_pathology.svg)
52 52
53 53
## References
54
-<!-- ORIGIN: Unknown -->
54
+<!-- ORIGIN: chapuyMolecularSubtypesDiffuse2018b -->
LYN.md
... ...
@@ -38,4 +38,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/L
38 38
![image](images/gene_expression/LYN_by_pathology.svg)
39 39
40 40
<!-- FLAGGED FOR TIER 2 -->
41
-<!-- ORIGIN: Unknown -->
41
+<!-- ORIGIN: chapuyMolecularSubtypesDiffuse2018b -->
MAP2K1.md
... ...
@@ -45,4 +45,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/M
45 45
![image](images/proteinpaint/MAP2K1.svg)
46 46
## MAP2K1 Expression
47 47
![image](images/gene_expression/MAP2K1_by_pathology.svg)
48
-<!-- ORIGIN: Unknown -->
48
+<!-- ORIGIN: shinBRAFV600EMAP2K12015 -->
MYC.md
... ...
@@ -86,4 +86,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/M
86 86
87 87
## References
88 88
89
-<!-- ORIGIN: Unknown -->
89
+<!-- ORIGIN: pasqualucciHypermutationMultipleProtooncogenes2001a -->
NCOA3.md
... ...
@@ -39,4 +39,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/N
39 39
![image](images/proteinpaint/NCOA3.svg)
40 40
## NCOA3 Expression
41 41
![image](images/gene_expression/NCOA3_by_pathology.svg)
42
-<!-- ORIGIN: Unknown -->
42
+<!-- ORIGIN: NA -->
NFKB1.md
... ...
@@ -48,4 +48,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/N
48 48
![image](images/gene_expression/NFKB1_by_pathology.svg)
49 49
50 50
<!-- FLAGGED FOR TIER 2 -->
51
-<!-- ORIGIN: Unknown -->
51
+<!-- ORIGIN: NA -->
NFKBIA.md
... ...
@@ -49,4 +49,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/N
49 49
50 50
## References
51 51
1. *Wright GW, Huang DW, Phelan JD, Coulibaly ZA, Roulland S, Young RM, Wang JQ, Schmitz R, Morin RD, Tang J, Jiang A, Bagaev A, Plotnikova O, Kotlov N, Johnson CA, Wilson WH, Scott DW, Staudt LM. A Probabilistic Classification Tool for Genetic Subtypes of Diffuse Large B Cell Lymphoma with Therapeutic Implications. Cancer Cell. 2020 Apr 13;37(4):551-568.e14. doi: 10.1016/j.ccell.2020.03.015. PMID: 32289277; PMCID: PMC8459709.*
52
-<!-- ORIGIN: russler-germainMutationsAssociatedProgression2023a -->
52
+<!-- ORIGIN: NA -->
NLRC5.md
... ...
@@ -34,4 +34,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/N
34 34
![image](images/proteinpaint/NLRC5.svg)
35 35
## NLRC5 Expression
36 36
![image](images/gene_expression/NLRC5_by_pathology.svg)
37
-<!-- ORIGIN: Unknown -->
37
+<!-- ORIGIN: NA -->
NOA1.md
... ...
@@ -36,4 +36,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/N
36 36
![image](images/proteinpaint/NOA1.svg)
37 37
## NOA1 Expression
38 38
![image](images/gene_expression/NOA1_by_pathology.svg)
39
-<!-- ORIGIN: schmitzBurkittLymphomaPathogenesis2012 -->
39
+<!-- ORIGIN: burkhardtClinicalRelevanceMolecular2022b -->
PCBP1.md
... ...
@@ -50,4 +50,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/P
50 50
![image](images/proteinpaint/PCBP1.svg)
51 51
## PCBP1 Expression
52 52
![image](images/gene_expression/PCBP1_by_pathology.svg)
53
-<!-- ORIGIN: Unknown -->
53
+<!-- ORIGIN: NA -->
POU2AF1.md
... ...
@@ -54,4 +54,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/P
54 54
![image](images/proteinpaint/POU2AF1.svg)
55 55
## POU2AF1 Expression
56 56
![image](images/gene_expression/POU2AF1_by_pathology.svg)
57
-<!-- ORIGIN: Unknown -->
57
+<!-- ORIGIN: NA -->
PPP1R9B.md
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@@ -36,4 +36,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/P
36 36
37 37
<!-- FLAGGED FOR TIER 2 -->
38 38
39
-<!-- ORIGIN: Unknown -->
39
+<!-- ORIGIN: NA -->
PPP6R2.md
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@@ -36,4 +36,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/P
36 36
![image](images/proteinpaint/PPP6R2.svg)
37 37
## PPP6R2 Expression
38 38
![image](images/gene_expression/PPP6R2_by_pathology.svg)
39
-<!-- ORIGIN: schmitzBurkittLymphomaPathogenesis2012 -->
39
+<!-- ORIGIN: burkhardtClinicalRelevanceMolecular2022b -->
PREX1.md
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@@ -36,4 +36,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/P
36 36
![image](images/proteinpaint/PREX1.svg)
37 37
## PREX1 Expression
38 38
![image](images/gene_expression/PREX1_by_pathology.svg)
39
-<!-- ORIGIN: schmitzBurkittLymphomaPathogenesis2012 -->
39
+<!-- ORIGIN: burkhardtClinicalRelevanceMolecular2022b -->
PTEN.md
... ...
@@ -38,4 +38,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/P
38 38
![image](images/proteinpaint/PTEN.svg)
39 39
## PTEN Expression
40 40
![image](images/gene_expression/PTEN_by_pathology.svg)
41
-<!-- ORIGIN: loveGeneticLandscapeMutations2012 -->
41
+<!-- ORIGIN: NA -->
PTPN1.md
... ...
@@ -39,4 +39,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/P
39 39
![image](images/proteinpaint/PTPN1.svg)
40 40
## PTPN1 Expression
41 41
![image](images/gene_expression/PTPN1_by_pathology.svg)
42
-<!-- ORIGIN: Unknown -->
42
+<!-- ORIGIN: NA -->
PTPRD.md
... ...
@@ -43,4 +43,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/P
43 43
![image](images/proteinpaint/PTPRD.svg)
44 44
## PTPRD Expression
45 45
![image](images/gene_expression/PTPRD_by_pathology.svg)
46
-<!-- ORIGIN: Unknown -->
46
+<!-- ORIGIN: NA -->
RAC2.md
... ...
@@ -49,4 +49,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/R
49 49
![image](images/proteinpaint/RAC2.svg)
50 50
## RAC2 Expression
51 51
![image](images/gene_expression/RAC2_by_pathology.svg)
52
-<!-- ORIGIN: hubschmannMutationalMechanismsShaping2021b -->
52
+<!-- ORIGIN: paneaWholeGenomeLandscape2019 -->
REV3L.md
... ...
@@ -36,4 +36,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/R
36 36
![image](images/proteinpaint/REV3L.svg)
37 37
## REV3L Expression
38 38
![image](images/gene_expression/REV3L_by_pathology.svg)
39
-<!-- ORIGIN: schmitzBurkittLymphomaPathogenesis2012 -->
39
+<!-- ORIGIN: burkhardtClinicalRelevanceMolecular2022b -->
RFX7.md
... ...
@@ -38,4 +38,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/R
38 38
![image](images/proteinpaint/RFX7.svg)
39 39
## RFX7 Expression
40 40
![image](images/gene_expression/RFX7_by_pathology.svg)
41
-<!-- ORIGIN: grandeGenomewideDiscoverySomatic2019 -->
41
+<!-- ORIGIN: NA -->
RPL10.md
... ...
@@ -36,4 +36,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/R
36 36
![image](images/proteinpaint/RPL10.svg)
37 37
## RPL10 Expression
38 38
![image](images/gene_expression/RPL10_by_pathology.svg)
39
-<!-- ORIGIN: schmitzBurkittLymphomaPathogenesis2012 -->
39
+<!-- ORIGIN: burkhardtClinicalRelevanceMolecular2022b -->
SAL3.md
... ...
@@ -30,4 +30,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/S
30 30
![image](images/proteinpaint/SAL3.svg)
31 31
## SAL3 Expression
32 32
![image](images/gene_expression/SAL3_by_pathology.svg)
33
-<!-- ORIGIN: schmitzBurkittLymphomaPathogenesis2012 -->
33
+<!-- ORIGIN: burkhardtClinicalRelevanceMolecular2022b -->
SIN3A.md
... ...
@@ -41,4 +41,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/S
41 41
![image](images/proteinpaint/SIN3A.svg)
42 42
## SIN3A Expression
43 43
![image](images/gene_expression/SIN3A_by_pathology.svg)
44
-<!-- ORIGIN: grandeGenomewideDiscoverySomatic2019 -->
44
+<!-- ORIGIN: NA -->
SMARCA4.md
... ...
@@ -45,4 +45,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/S
45 45
![image](images/proteinpaint/SMARCA4.svg)
46 46
## SMARCA4 Expression
47 47
![image](images/gene_expression/SMARCA4_by_pathology.svg)
48
-<!-- ORIGIN: zhangGeneticHeterogeneityDiffuse2013 -->
48
+<!-- ORIGIN: loveGeneticLandscapeMutations2012 -->
SP140.md
... ...
@@ -34,4 +34,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/S
34 34
![image](images/proteinpaint/SP140.svg)
35 35
## SP140 Expression
36 36
![image](images/gene_expression/SP140_by_pathology.svg)
37
-<!-- ORIGIN: pararajalingamCodingNoncodingDrivers2020 -->
37
+<!-- ORIGIN: beaLandscapeSomaticMutations2013 -->
STAT6.md
... ...
@@ -66,4 +66,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/S
66 66
1. *Morin RD, Assouline S, Alcaide M, Mohajeri A, Johnston RL, Chong L, Grewal J, Yu S, Fornika D, Bushell K, Nielsen TH, Petrogiannis-Haliotis T, Crump M, Tosikyan A, Grande BM, MacDonald D, Rousseau C, Bayat M, Sesques P, Froment R, Albuquerque M, Monczak Y, Oros KK, Greenwood C, Riazalhosseini Y, Arseneault M, Camlioglu E, Constantin A, Pan-Hammarstrom Q, Peng R, Mann KK, Johnson NA. Genetic Landscapes of Relapsed and Refractory Diffuse Large B-Cell Lymphomas. Clin Cancer Res. 2016 May 1;22(9):2290-300. doi: 10.1158/1078-0432.CCR-15-2123. Epub 2015 Dec 8. PMID: 26647218.*
67 67
## STAT6 Expression
68 68
![image](images/gene_expression/STAT6_by_pathology.svg)
69
-<!-- ORIGIN: morinGeneticLandscapesRelapsed2016 -->
69
+<!-- ORIGIN: yildizActivatingSTAT6Mutations2015c -->
TCL1A.md
... ...
@@ -51,3 +51,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/T
51 51
52 52
## References
53 53
1. *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. doi: 10.1182/blood-2018-09-871418. Epub 2019 Jan 7. PMID: 30617194; PMCID: PMC6428665.*
54
+<!-- ORIGIN: NA -->
TFAP4.md
... ...
@@ -40,3 +40,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/T
40 40
41 41
## References
42 42
1. *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. doi: 10.1182/blood-2018-09-871418. Epub 2019 Jan 7. PMID: 30617194; PMCID: PMC6428665.*
43
+<!-- ORIGIN: grandeGenomewideDiscoverySomatic2019 -->
TLR2.md
... ...
@@ -46,4 +46,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/T
46 46
![image](images/proteinpaint/TLR2.svg)
47 47
## TLR2 Expression
48 48
![image](images/gene_expression/TLR2_by_pathology.svg)
49
-<!-- ORIGIN: chapuyMolecularSubtypesDiffuse2018b -->
49
+<!-- ORIGIN: beaLandscapeSomaticMutations2013 -->
TP53.md
... ...
@@ -50,4 +50,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/T
50 50
51 51
## References
52 52
1.
53
-<!-- ORIGIN: morinFrequentMutationHistonemodifying2011 -->
53
+<!-- ORIGIN: NA -->
TRIP12.md
... ...
@@ -34,4 +34,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/T
34 34
![image](images/proteinpaint/TRIP12.svg)
35 35
## TRIP12 Expression
36 36
![image](images/gene_expression/TRIP12_by_pathology.svg)
37
-<!-- ORIGIN: Unknown -->
37
+<!-- ORIGIN: NA -->
TRRAP.md
... ...
@@ -41,4 +41,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/T
41 41
![image](images/proteinpaint/TRRAP.svg)
42 42
## TRRAP Expression
43 43
![image](images/gene_expression/TRRAP_by_pathology.svg)
44
-<!-- ORIGIN: Unknown -->
44
+<!-- ORIGIN: NA -->
TTN.md
... ...
@@ -42,4 +42,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/T
42 42
![image](images/proteinpaint/TTN.svg)
43 43
## TTN Expression
44 44
![image](images/gene_expression/TTN_by_pathology.svg)
45
-<!-- ORIGIN: schmitzBurkittLymphomaPathogenesis2012 -->
45
+<!-- ORIGIN: burkhardtClinicalRelevanceMolecular2022b -->
UNC5C.md
... ...
@@ -34,4 +34,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/U
34 34
![image](images/proteinpaint/UNC5C.svg)
35 35
## UNC5C Expression
36 36
![image](images/gene_expression/UNC5C_by_pathology.svg)
37
-<!-- ORIGIN: Unknown -->
37
+<!-- ORIGIN: NA -->
UNC5D.md
... ...
@@ -36,4 +36,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/U
36 36
## UNC5D Expression
37 37
![image](images/gene_expression/UNC5D_by_pathology.svg)
38 38
39
-<!-- FLAGGED FOR TIER 2 --><!-- ORIGIN: Unknown -->
39
+<!-- ORIGIN: NA -->
USP7.md
... ...
@@ -42,3 +42,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/U
42 42
43 43
## References
44 44
1. *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. doi: 10.1182/blood-2018-09-871418. Epub 2019 Jan 7. PMID: 30617194; PMCID: PMC6428665.*
45
+<!-- ORIGIN: NA -->
VPS13B.md
... ...
@@ -41,4 +41,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/V
41 41
![image](images/proteinpaint/VPS13B.svg)
42 42
## VPS13B Expression
43 43
![image](images/gene_expression/VPS13B_by_pathology.svg)
44
-<!-- ORIGIN: Unknown -->
44
+<!-- ORIGIN: NA -->
VWA7.md
... ...
@@ -36,4 +36,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/V
36 36
![image](images/proteinpaint/VWA7.svg)
37 37
## VWA7 Expression
38 38
![image](images/gene_expression/VWA7_by_pathology.svg)
39
-<!-- ORIGIN: schmitzBurkittLymphomaPathogenesis2012 -->
39
+<!-- ORIGIN: burkhardtClinicalRelevanceMolecular2022b -->
ZAN.md
... ...
@@ -32,4 +32,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/Z
32 32
![image](images/proteinpaint/ZAN.svg)
33 33
## ZAN Expression
34 34
![image](images/gene_expression/ZAN_by_pathology.svg)
35
-<!-- ORIGIN: schmitzBurkittLymphomaPathogenesis2012 -->
35
+<!-- ORIGIN: burkhardtClinicalRelevanceMolecular2022b -->
ZNF85.md
... ...
@@ -36,4 +36,4 @@ View all variants in GenomePaint [hg19](https://morinlab.github.io/LLMPP/GAMBL/Z
36 36
![image](images/proteinpaint/ZNF85.svg)
37 37
## ZNF85 Expression
38 38
![image](images/gene_expression/ZNF85_by_pathology.svg)
39
-<!-- ORIGIN: schmitzBurkittLymphomaPathogenesis2012 -->
39
+<!-- ORIGIN: burkhardtClinicalRelevanceMolecular2022b -->