Zobrazeno 1 - 10
of 15
pro vyhledávání: '"Erik Gafni"'
Autor:
Mouadh Barbirou, Amanda A. Miller, Erik Gafni, Amel Mezlini, Asma Zidi, Nathan Boley, Peter J. Tonellato
Publikováno v:
Scientific Reports, Vol 12, Iss 1, Pp 1-14 (2022)
Abstract A cell-free DNA (cfDNA) assay would be a promising approach to early cancer diagnosis, especially for patients with dense tissues. Consistent cfDNA signatures have been observed for many carcinogens. Recently, investigations of cfDNA as a re
Externí odkaz:
https://doaj.org/article/047d0fed8b4d45cd877bc684841294af
Autor:
Susan Rojahn, Tina Hambuch, Jessika Adrian, Erik Gafni, Alex Gileta, Hannah Hatchell, Britt Johnson, Ben Kallman, Kate Karfilis, Curtis Kautzer, Michael Kennemer, Lloyd Kirk, Daniel Kvitek, Jessica Lettes, Fenner Macrae, Fernando Mendez, Joshua Paul, Maurizio Pellegrino, Ronny Preciado, Jan Risinger, Matthew Schultz, Lindsay Spurka, Sajani Swamy, Rebecca Truty, Nathan Usem, Andrea Velenich, Swaroop Aradhya
Publikováno v:
Molecular Genetics & Genomic Medicine, Vol 10, Iss 12, Pp n/a-n/a (2022)
Abstract Background Some clinically important genetic variants are not easily evaluated with next‐generation sequencing (NGS) methods due to technical challenges arising from high‐ similarity copies (e.g., PMS2, SMN1/SMN2, GBA1, HBA1/HBA2, CYP21A
Externí odkaz:
https://doaj.org/article/f96c2a3a0d53441093c4dd5a10f72c60
Autor:
Nathan Wan, David Weinberg, Tzu-Yu Liu, Katherine Niehaus, Eric A. Ariazi, Daniel Delubac, Ajay Kannan, Brandon White, Mitch Bailey, Marvin Bertin, Nathan Boley, Derek Bowen, James Cregg, Adam M. Drake, Riley Ennis, Signe Fransen, Erik Gafni, Loren Hansen, Yaping Liu, Gabriel L. Otte, Jennifer Pecson, Brandon Rice, Gabriel E. Sanderson, Aarushi Sharma, John St. John, Catherina Tang, Abraham Tzou, Leilani Young, Girish Putcha, Imran S. Haque
Publikováno v:
BMC Cancer, Vol 19, Iss 1, Pp 1-10 (2019)
Abstract Background Blood-based methods using cell-free DNA (cfDNA) are under development as an alternative to existing screening tests. However, early-stage detection of cancer using tumor-derived cfDNA has proven challenging because of the small pr
Externí odkaz:
https://doaj.org/article/fe732f6285b646618c64630c5a91ae05
Publikováno v:
PLoS Computational Biology, Vol 7, Iss 8, p e1002147 (2011)
In this overview to biomedical computing in the cloud, we discussed two primary ways to use the cloud (a single instance or cluster), provided a detailed example using NGS mapping, and highlighted the associated costs. While many users new to the clo
Externí odkaz:
https://doaj.org/article/871ae85728a44765aac0caa3cb2ed938
Autor:
Mouadh Barbirou, Amanda A. Miller, Erik Gafni, Amel Mezlini, Asma Zidi, Nathan Boley, Peter J. Tonellato
Publikováno v:
Scientific reports. 12(1)
A cell-free DNA (cfDNA) assay would be a promising approach to early cancer diagnosis, especially for patients with dense tissues. Consistent cfDNA signatures have been observed for many carcinogens. Recently, investigations of cfDNA as a reliable ea
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::58f65f919d2fdd0b8370b6608cadd922
https://pubmed.ncbi.nlm.nih.gov/35589867
https://pubmed.ncbi.nlm.nih.gov/35589867
Autor:
Jane M. Landolin, Amanda Miller, Omid Shams Solari, Adam Harvey, Christina Curtis, Peter J. Tonellato, Stefanie S. Jeffrey, Nathan Boley, Anshul Kundaje, George W. Sledge, Paul G. Giresi, Artur Jaroszewicz, Erik Gafni, Mouadh Barbirou
Publikováno v:
Cancer Research. 81:2105-2105
Introduction: Chromatin accessibility and cell-free DNA fragmentation patterns can be used to identify epigenomic mechanisms (Sharma et al. 2010) and infer cell-types contributing to cfDNA in pathological states such as cancer (Snyder et al. 2016; Ul
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::2bf4e2dae9087a0733f1ed6516b3d6f0
https://doi.org/10.1158/1538-7445.am2021-2105
https://doi.org/10.1158/1538-7445.am2021-2105
Autor:
Abraham Tzou, Jennifer Pecson, Tzu-Yu Liu, Signe Fransen, John St. John, David E. Weinberg, Riley Ennis, Yaping Liu, Brandon J. Rice, Daniel Delubac, Nathan Boley, Marvin Bertin, Katherine E. Niehaus, Leilani Young, Aarushi Sharma, Girish Putcha, Adam Drake, James Cregg, Erik Gafni, Nathan Wan, Catherina Tang, Derek Bowen, Brandon White, Imran S. Haque, Ajay Kannan, Mitch Bailey, Gabriel E. Sanderson, Eric A. Ariazi, Gabriel Otte, Loren Hansen
Publikováno v:
BMC Cancer
BMC Cancer, Vol 19, Iss 1, Pp 1-10 (2019)
BMC Cancer, Vol 19, Iss 1, Pp 1-10 (2019)
BackgroundBlood-based methods using cell-free DNA (cfDNA) are under development as an alternative to existing screening tests. However, early-stage detection of cancer using tumor-derived cfDNA has proven challenging because of the small proportion o
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::d5ac7ac8fea1c37b4c91bf798c0a4eff
https://pubmed.ncbi.nlm.nih.gov/31443703
https://pubmed.ncbi.nlm.nih.gov/31443703
Autor:
John A. St John, Erik Gafni, Brandon White, Ajay Kannan, Loren Hansen, Artur Jaroszewicz, Anshul Kundaje, Nathan Boley
Publikováno v:
Cancer Research. 79:4349-4349
The ability to use a blood sample to determine the transcriptional state of cells that are releasing DNA into the bloodstream of a patient may be helpful in a variety of clinical applications. Here we present a case study of a gene expression predict
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::0c732896a9a5c4f6cd1623c699a4096d
https://doi.org/10.1158/1538-7445.am2019-4349
https://doi.org/10.1158/1538-7445.am2019-4349
Autor:
Gabriel Otte, Mitch Bailey, Marvin Bertin, Signe Fransen, Tzu-Yu Liu, Loren Hansen, Catherina Tang, Gabriel E. Sanderson, Katherine E. Niehaus, Abe Tzou, Brandon White, Aarushi Sharma, Ajay Kannan, Riley Ennis, Yaping Liu, Erik Gafni, David H. Weinberg, James Cregg, Nathan Wan, Nathan Boley, Girish Putcha, Derek Bowen, Eric A. Ariazi, Imran S. Haque, Jennifer Pecson, John St. John, Brandon J. Rice, Leilani Young, Daniel Delubac, Adam Drake
Publikováno v:
Gastroenterology. 156:S-600
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::5ba4940ae445effb5471db4266a9e069
https://doi.org/10.1016/s0016-5085(19)38396-9
https://doi.org/10.1016/s0016-5085(19)38396-9
Autor:
Lovelace J. Luquette, Peter J. Tonellato, Dennis P. Wall, Jared B. Hawkins, Alex K. Lancaster, Erik Gafni, Yassine Souilmi, Jae-Yoon Jung
Publikováno v:
Bioinformatics
Summary: Efficient workflows to shepherd clinically generated genomic data through the multiple stages of a next-generation sequencing pipeline are of critical importance in translational biomedical science. Here we present COSMOS, a Python library f
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::939d530ac316ce8636c1ee90d27b8523
https://doi.org/10.1093/bioinformatics/btu385
https://doi.org/10.1093/bioinformatics/btu385