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Demichelis, Francesca
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A
Casiraghi N
,
Orlando F
,
Ciani Y
,
Xiang J
,
Sboner A
,
Elemento O
,
Attard G
,
Beltran H
,
Demichelis F
,
Romanel A
. 2020.
ABEMUS: platform-specific and data-informed detection of somatic SNVs in cfDNA.
.
Bioinformatics. 36(9):2665-2674.
C
Beltran H
,
Romanel A
,
Conteduca V
,
Casiraghi N
,
Sigouros M
,
Franceschini GMarco
,
Orlando F
,
Fedrizzi T
,
Ku S-Y
,
Dann E
et al.
. 2020.
Circulating tumor DNA profile recognizes transformation to castration-resistant neuroendocrine prostate cancer.
.
J Clin Invest. 130(4):1653-1668.
Faltas BM
,
Prandi D
,
Tagawa ST
,
Molina AM
,
Nanus DM
,
Sternberg C
,
Rosenberg J
,
Mosquera JMiguel
,
Robinson B
,
Elemento O
et al.
. 2016.
Clonal evolution of chemotherapy-resistant urothelial carcinoma.
.
Nat Genet. 48(12):1490-1499.
D
Rennert H
,
Eng K
,
Zhang T
,
Tan A
,
Xiang J
,
Romanel A
,
Kim R
,
Tam W
,
Liu Y-C
,
Bhinder B
et al.
. 2016.
Development and validation of a whole-exome sequencing test for simultaneous detection of point mutations, indels and copy-number alterations for precision cancer care.
.
NPJ Genom Med. 1
Beltran H
,
Prandi D
,
Mosquera JMiguel
,
Benelli M
,
Puca L
,
Cyrta J
,
Marotz C
,
Giannopoulou E
,
Chakravarthi BVSK
,
Varambally S
et al.
. 2016.
Divergent clonal evolution of castration-resistant neuroendocrine prostate cancer.
.
Nat Med. 22(3):298-305.
E
Lin P-C
,
Chiu Y-L
,
Banerjee S
,
Park K
,
Mosquera JMiguel
,
Giannopoulou E
,
Alves P
,
Tewari AK
,
Gerstein MB
,
Beltran H
et al.
. 2013.
Epigenetic repression of miR-31 disrupts androgen receptor homeostasis and contributes to prostate cancer progression.
.
Cancer Res. 73(3):1232-44.
Romanel A
,
Zhang T
,
Elemento O
,
Demichelis F
. 2017.
EthSEQ: ethnicity annotation from whole exome sequencing data.
.
Bioinformatics. 33(15):2402-2404.
I
Demichelis F
,
Setlur SR
,
Banerjee S
,
Chakravarty D
,
Chen JYun Helen
,
Chen CX
,
Huang J
,
Beltran H
,
Oldridge DA
,
Kitabayashi N
et al.
. 2012.
Identification of functionally active, low frequency copy number variants at 15q21.3 and 12q21.31 associated with prostate cancer risk.
.
Proc Natl Acad Sci U S A. 109(17):6686-91.
Romanel A
,
Garritano S
,
Stringa B
,
Blattner M
,
Dalfovo D
,
Chakravarty D
,
Soong D
,
Cotter KA
,
Petris G
,
Dhingra P
et al.
. 2017.
Inherited determinants of early recurrent somatic mutations in prostate cancer.
.
Nat Commun. 8(1):48.
Robinson D
,
Van Allen EM
,
Wu Y-M
,
Schultz N
,
Lonigro RJ
,
Mosquera J-M
,
Montgomery B
,
Taplin M-E
,
Pritchard CC
,
Attard G
et al.
. 2015.
Integrative Clinical Genomics of Advanced Prostate Cancer.
.
Cell. 162(2):454.
Sailer V
,
Eng KWa
,
Zhang T
,
Bareja R
,
Pisapia DJ
,
Sigaras A
,
Bhinder B
,
Romanel A
,
Wilkes D
,
Sticca E
et al.
. 2019.
Integrative Molecular Analysis of Patients With Advanced and Metastatic Cancer.
.
JCO Precis Oncol. 3
Liu D
,
Shoag JE
,
Poliak D
,
Goueli RS
,
Ravikumar V
,
Redmond D
,
Vosoughi A
,
Fontugne J
,
Pan H
,
Lee D
et al.
. 2020.
Integrative multiplatform molecular profiling of benign prostatic hyperplasia identifies distinct subtypes.
.
Nat Commun. 11(1):1987.
N
Pisapia DJ
,
Salvatore S
,
Pauli C
,
Hissong E
,
Eng K
,
Prandi D
,
Sailer V-W
,
Robinson BD
,
Park K
,
Cyrta J
et al.
. 2017.
Next-Generation Rapid Autopsies Enable Tumor Evolution Tracking and Generation of Preclinical Models.
.
JCO Precis Oncol. 2017
Dardenne E
,
Beltran H
,
Benelli M
,
Gayvert K
,
Berger A
,
Puca L
,
Cyrta J
,
Sboner A
,
Noorzad Z
,
MacDonald T
et al.
. 2016.
N-Myc Induces an EZH2-Mediated Transcriptional Program Driving Neuroendocrine Prostate Cancer.
.
Cancer Cell. 30(4):563-577.
O
Rickman DS
,
T Soong D
,
Moss B
,
Mosquera JMiguel
,
Dlabal J
,
Terry S
,
MacDonald TY
,
Tripodi J
,
Bunting K
,
Najfeld V
et al.
. 2012.
Oncogene-mediated alterations in chromatin conformation.
.
Proc Natl Acad Sci U S A. 109(23):9083-8.
P
Puca L
,
Bareja R
,
Prandi D
,
Shaw R
,
Benelli M
,
Karthaus WR
,
Hess J
,
Sigouros M
,
Donoghue A
,
Kossai M
et al.
. 2018.
Patient derived organoids to model rare prostate cancer phenotypes.
.
Nat Commun. 9(1):2404.
Pauli C
,
Hopkins BD
,
Prandi D
,
Shaw R
,
Fedrizzi T
,
Sboner A
,
Sailer V
,
Augello M
,
Puca L
,
Rosati R
et al.
. 2017.
Personalized and Cancer Models to Guide Precision Medicine.
.
Cancer Discov. 7(5):462-477.
Baca SC
,
Prandi D
,
Lawrence MS
,
Mosquera JMiguel
,
Romanel A
,
Drier Y
,
Park K
,
Kitabayashi N
,
MacDonald TY
,
Ghandi M
et al.
. 2013.
Punctuated evolution of prostate cancer genomes.
.
Cell. 153(3):666-77.
W
Beltran H
,
Eng K
,
Mosquera JMiguel
,
Sigaras A
,
Romanel A
,
Rennert H
,
Kossai M
,
Pauli C
,
Faltas B
,
Fontugne J
et al.
. 2015.
Whole-Exome Sequencing of Metastatic Cancer and Biomarkers of Treatment Response.
.
JAMA Oncol. 1(4):466-74.