375 related articles for article (PubMed ID: 26583378)
1. SAAS-CNV: A Joint Segmentation Approach on Aggregated and Allele Specific Signals for the Identification of Somatic Copy Number Alterations with Next-Generation Sequencing Data.
Zhang Z; Hao K
PLoS Comput Biol; 2015 Nov; 11(11):e1004618. PubMed ID: 26583378
[TBL] [Abstract][Full Text] [Related]
2. Using SAAS-CNV to Detect and Characterize Somatic Copy Number Alterations in Cancer Genomes from Next Generation Sequencing and SNP Array Data.
Zhang Z; Hao K
Methods Mol Biol; 2018; 1833():29-47. PubMed ID: 30039361
[TBL] [Abstract][Full Text] [Related]
3. hsegHMM: hidden Markov model-based allele-specific copy number alteration analysis accounting for hypersegmentation.
Choo-Wosoba H; Albert PS; Zhu B
BMC Bioinformatics; 2018 Nov; 19(1):424. PubMed ID: 30428830
[TBL] [Abstract][Full Text] [Related]
4. Evaluation of somatic copy number estimation tools for whole-exome sequencing data.
Nam JY; Kim NK; Kim SC; Joung JG; Xi R; Lee S; Park PJ; Park WY
Brief Bioinform; 2016 Mar; 17(2):185-92. PubMed ID: 26210357
[TBL] [Abstract][Full Text] [Related]
5. A computational approach to distinguish somatic vs. germline origin of genomic alterations from deep sequencing of cancer specimens without a matched normal.
Sun JX; He Y; Sanford E; Montesion M; Frampton GM; Vignot S; Soria JC; Ross JS; Miller VA; Stephens PJ; Lipson D; Yelensky R
PLoS Comput Biol; 2018 Feb; 14(2):e1005965. PubMed ID: 29415044
[TBL] [Abstract][Full Text] [Related]
6. Sequenza: allele-specific copy number and mutation profiles from tumor sequencing data.
Favero F; Joshi T; Marquard AM; Birkbak NJ; Krzystanek M; Li Q; Szallasi Z; Eklund AC
Ann Oncol; 2015 Jan; 26(1):64-70. PubMed ID: 25319062
[TBL] [Abstract][Full Text] [Related]
7. FACETS: allele-specific copy number and clonal heterogeneity analysis tool for high-throughput DNA sequencing.
Shen R; Seshan VE
Nucleic Acids Res; 2016 Sep; 44(16):e131. PubMed ID: 27270079
[TBL] [Abstract][Full Text] [Related]
8. Comparative analysis of methods for identifying somatic copy number alterations from deep sequencing data.
Alkodsi A; Louhimo R; Hautaniemi S
Brief Bioinform; 2015 Mar; 16(2):242-54. PubMed ID: 24599115
[TBL] [Abstract][Full Text] [Related]
9. An evaluation of copy number variation detection tools for cancer using whole exome sequencing data.
Zare F; Dow M; Monteleone N; Hosny A; Nabavi S
BMC Bioinformatics; 2017 May; 18(1):286. PubMed ID: 28569140
[TBL] [Abstract][Full Text] [Related]
10. CLImAT-HET: detecting subclonal copy number alterations and loss of heterozygosity in heterogeneous tumor samples from whole-genome sequencing data.
Yu Z; Li A; Wang M
BMC Med Genomics; 2017 Mar; 10(1):15. PubMed ID: 28298214
[TBL] [Abstract][Full Text] [Related]
11. Low-cost and clinically applicable copy number profiling using repeat DNA.
Abujudeh S; Zeki SS; van Lanschot MCJ; Pusung M; Weaver JMJ; Li X; Noorani A; Metz AJ; Bornschein J; Bower L; Miremadi A; Fitzgerald RC; Morrissey ER; Lynch AG
BMC Genomics; 2022 Aug; 23(1):599. PubMed ID: 35978291
[TBL] [Abstract][Full Text] [Related]
12. Combining targeted sequencing and ultra-low-pass whole-genome sequencing for accurate somatic copy number alteration detection.
Fu J; Guo W; Yan C; Lv Z; Wang Y; Wang Z; Fan Z; Lei T
Funct Integr Genomics; 2021 Mar; 21(2):161-169. PubMed ID: 33543400
[TBL] [Abstract][Full Text] [Related]
13. Accurity: accurate tumor purity and ploidy inference from tumor-normal WGS data by jointly modelling somatic copy number alterations and heterozygous germline single-nucleotide-variants.
Luo Z; Fan X; Su Y; Huang YS
Bioinformatics; 2018 Jun; 34(12):2004-2011. PubMed ID: 29385401
[TBL] [Abstract][Full Text] [Related]
14. A Validation Framework for Somatic Copy Number Detection in Targeted Sequencing Panels.
Chandramohan R; Reuther J; Gandhi I; Voicu H; Alvarez KR; Plon SE; Lopez-Terrada DH; Fisher KE; Parsons DW; Roy A
J Mol Diagn; 2022 Jul; 24(7):760-774. PubMed ID: 35487348
[TBL] [Abstract][Full Text] [Related]
15. Allele-specific copy-number discovery from whole-genome and whole-exome sequencing.
Wang W; Wang W; Sun W; Crowley JJ; Szatkiewicz JP
Nucleic Acids Res; 2015 Aug; 43(14):e90. PubMed ID: 25883151
[TBL] [Abstract][Full Text] [Related]
16. CloneCNA: detecting subclonal somatic copy number alterations in heterogeneous tumor samples from whole-exome sequencing data.
Yu Z; Li A; Wang M
BMC Bioinformatics; 2016 Aug; 17():310. PubMed ID: 27538789
[TBL] [Abstract][Full Text] [Related]
17. SCNVSim: somatic copy number variation and structure variation simulator.
Qin M; Liu B; Conroy JM; Morrison CD; Hu Q; Cheng Y; Murakami M; Odunsi AO; Johnson CS; Wei L; Liu S; Wang J
BMC Bioinformatics; 2015 Feb; 16(1):66. PubMed ID: 25886838
[TBL] [Abstract][Full Text] [Related]
18. A remark on copy number variation detection methods.
Li S; Dou X; Gao R; Ge X; Qian M; Wan L
PLoS One; 2018; 13(4):e0196226. PubMed ID: 29702671
[TBL] [Abstract][Full Text] [Related]
19. Tangent normalization for somatic copy-number inference in cancer genome analysis.
Gao GF; Oh C; Saksena G; Deng D; Westlake LC; Hill BA; Reich M; Schumacher SE; Berger AC; Carter SL; Cherniack AD; Meyerson M; Tabak B; Beroukhim R; Getz G
Bioinformatics; 2022 Oct; 38(20):4677-4686. PubMed ID: 36040167
[TBL] [Abstract][Full Text] [Related]
20. AbsCN-seq: a statistical method to estimate tumor purity, ploidy and absolute copy numbers from next-generation sequencing data.
Bao L; Pu M; Messer K
Bioinformatics; 2014 Apr; 30(8):1056-1063. PubMed ID: 24389661
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
