CIViCpy: A Python Software Development and Analysis Toolkit for the CIViC Knowledgebase

por Wagner, Alex H., Kiwala, Susanna, Coffman, Adam C., McMichael, Joshua F., Cotto, Kelsy C., Mooney, Thomas B., Barnell, Erica K., Krysiak, Kilannin, Danos, Arpad M., Walker, Jason, Griffith, Obi L., Griffith, Malachi
Publicado 2020

In Silico Epitope Prediction Analyses Highlight the Potential for Distracting Antigen Immunodominance with Allogeneic Cancer Vaccines

por James, C. Alston, Ronning, Peter, Cullinan, Darren, Cotto, Kelsy C., Barnell, Erica K., Campbell, Katie M., Skidmore, Zachary L., Sanford, Dominic E., Goedegebuure, S. Peter, Gillanders, William E., Griffith, Obi L., Hawkins, William G., Griffith, Malachi
Publicado 2021

Personalized ctDNA micro-panels can monitor and predict clinical outcomes for patients with triple-negative breast cancer

por Barnell, Erica K., Fisk, Bryan, Skidmore, Zachary L., Cotto, Kelsy C., Basu, Anamika, Anand, Aparna, Richters, Megan M., Luo, Jingqin, Fronick, Catrina, Anurag, Meenakshi, Fulton, Robert, Ellis, Matthew J., Griffith, Obi L., Griffith, Malachi, Ademuyiwa, Foluso O.
Publicado 2022

Oral Cavity Squamous Cell Carcinoma Xenografts Retain Complex Genotypes and Intertumor Molecular Heterogeneity

por Campbell, Katie M., Lin, Tianxiang, Zolkind, Paul, Barnell, Erica K., Skidmore, Zachary L., Winkler, Ashley E., Law, Jonathan H., Mardis, Elaine R., Wartman, Lukas D., Adkins, Douglas R., Chernock, Rebecca D., Griffith, Malachi, Uppaluri, Ravindra, Griffith, Obi L.
Publicado 2018

Adapting crowdsourced clinical cancer curation in CIViC to the ClinGen minimum variant level data community‐driven standards

por Danos, Arpad M., Ritter, Deborah I., Wagner, Alex H., Krysiak, Kilannin, Sonkin, Dmitriy, Micheel, Christine, McCoy, Matthew, Rao, Shruti, Raca, Gordana, Boca, Simina M., Roy, Angshumoy, Barnell, Erica K., McMichael, Joshua F., Kiwala, Susanna, Coffman, Adam C., Kujan, Lynzey, Kulkarni, Shashikant, Griffith, Malachi, Madhavan, Subha, Griffith, Obi L.
Publicado 2018

Open-Sourced CIViC Annotation Pipeline to Identify and Annotate Clinically Relevant Variants Using Single-Molecule Molecular Inversion Probes

por Barnell, Erica K., Waalkes, Adam, Mosior, Matt C., Penewit, Kelsi, Cotto, Kelsy C., Danos, Arpad M., Sheta, Lana M., Campbell, Katie M., Krysiak, Kilannin, Rieke, Damian, Spies, Nicholas C., Skidmore, Zachary L., Pritchard, Colin C., Fehniger, Todd A., Uppaluri, Ravindra, Govindan, Ramaswamy, Griffith, Malachi, Salipante, Stephen J., Griffith, Obi L.
Publicado 2019

Standard operating procedure for somatic variant refinement of sequencing data with paired tumor and normal samples

por Barnell, Erica K., Ronning, Peter, Campbell, Katie M., Krysiak, Kilannin, Ainscough, Benjamin J., Sheta, Lana M., Pema, Shahil P., Schmidt, Alina D., Richters, Megan, Cotto, Kelsy C., Danos, Arpad M., Ramirez, Cody, Skidmore, Zachary L., Spies, Nicholas C., Hundal, Jasreet, Sediqzad, Malik S., Kunisaki, Jason, Gomez, Felicia, Trani, Lee, Matlock, Matthew, Wagner, Alex H., Swamidass, S. Joshua, Griffith, Malachi, Griffith, Obi L.
Publicado 2018

Standard operating procedure for curation and clinical interpretation of variants in cancer

por Danos, Arpad M., Krysiak, Kilannin, Barnell, Erica K., Coffman, Adam C., McMichael, Joshua F., Kiwala, Susanna, Spies, Nicholas C., Sheta, Lana M., Pema, Shahil P., Kujan, Lynzey, Clark, Kaitlin A., Wollam, Amber Z., Rao, Shruti, Ritter, Deborah I., Sonkin, Dmitriy, Raca, Gordana, Lin, Wan-Hsin, Grisdale, Cameron J., Kim, Raymond H., Wagner, Alex H., Madhavan, Subha, Griffith, Malachi, Griffith, Obi L.
Publicado 2019

Impact of a 40-Gene Targeted Panel Test on Physician Decision Making for Patients With Acute Myeloid Leukemia

por Barnell, Erica K., Newcomer, Kenneth F., Skidmore, Zachary L., Krysiak, Kilannin, Anderson, Sydney R., Wartman, Lukas D., Oh, Stephen T., Welch, John S., Stockerl-Goldstein, Keith E., Vij, Ravi, Cashen, Amanda F., Pusic, Iskra, Westervelt, Peter, Abboud, Camille N., Ghobadi, Armin, Uy, Geoffrey L., Schroeder, Mark A., Dipersio, John F., Politi, Mary C., Spencer, David H., Duncavage, Eric J., Ley, Timothy J., Griffith, Malachi, Jacoby, Meagan A., Griffith, Obi L.
Publicado 2021

Distinct clonal identities of B-ALLs arising after lenolidomide therapy for multiple myeloma

por Barnell, Erica K., Skidmore, Zachary L., Newcomer, Kenneth F., Chavez, Monique, Campbell, Katie M., Cotto, Kelsy C., Spies, Nicholas C., Ruzinova, Marianna B., Wang, Tianjiao, Abro, Brooj, Kreisel, Friederike, Parikh, Bijal A., Duncavage, Eric J., Frater, John L., Lee, Yi-Shan, Hassan, Anjum, King, Justin A., Kohnen, Daniel R., Fiala, Mark A., Welch, John S., Uy, Geoffrey L., Vij, Kiran, Vij, Ravi, Griffith, Malachi, Griffith, Obi L., Wartman, Lukas D.
Publicado 2022

CIViC is a community knowledgebase for expert crowdsourcing the clinical interpretation of variants in cancer

por Griffith, Malachi, Spies, Nicholas C, Krysiak, Kilannin, McMichael, Joshua F, Coffman, Adam C, Danos, Arpad M, Ainscough, Benjamin J, Ramirez, Cody A, Rieke, Damian T, Kujan, Lynzey, Barnell, Erica K, Wagner, Alex H, Skidmore, Zachary L, Wollam, Amber, Liu, Connor J, Jones, Martin R, Bilski, Rachel L, Lesurf, Robert, Feng, Yan-Yang, Shah, Nakul M, Bonakdar, Melika, Trani, Lee, Matlock, Matthew, Ramu, Avinash, Campbell, Katie M, Spies, Gregory C, Graubert, Aaron P, Gangavarapu, Karthik, Eldred, James M, Larson, David E, Walker, Jason R, Good, Benjamin M, Wu, Chunlei, Su, Andrew I, Dienstmann, Rodrigo, Margolin, Adam A, Tamborero, David, Lopez-Bigas, Nuria, Jones, Steven J M, Bose, Ron, Spencer, David H, Wartman, Lukas D, Wilson, Richard K, Mardis, Elaine R, Griffith, Obi L
Publicado 2017

CIViCdb 2022: evolution of an open-access cancer variant interpretation knowledgebase

por Krysiak, Kilannin, Danos, Arpad M, Saliba, Jason, McMichael, Joshua F, Coffman, Adam C, Kiwala, Susanna, Barnell, Erica K, Sheta, Lana, Grisdale, Cameron J, Kujan, Lynzey, Pema, Shahil, Lever, Jake, Ridd, Sarah, Spies, Nicholas C, Andric, Veronica, Chiorean, Andreea, Rieke, Damian T, Clark, Kaitlin A, Reisle, Caralyn, Venigalla, Ajay C, Evans, Mark, Jani, Payal, Takahashi, Hideaki, Suda, Avila, Horak, Peter, Ritter, Deborah I, Zhou, Xin, Ainscough, Benjamin J, Delong, Sean, Kesserwan, Chimene, Lamping, Mario, Shen, Haolin, Marr, Alex R, Hoang, My H, Singhal, Kartik, Khanfar, Mariam, Li, Brian V, Lin, Wan-Hsin, Terraf, Panieh, Corson, Laura B, Salama, Yasser, Campbell, Katie M, Farncombe, Kirsten M, Ji, Jianling, Zhao, Xiaonan, Xu, Xinjie, Kanagal-Shamanna, Rashmi, King, Ian, Cotto, Kelsy C, Skidmore, Zachary L, Walker, Jason R, Zhang, Jinghui, Milosavljevic, Aleksandar, Patel, Ronak Y, Giles, Rachel H, Kim, Raymond H, Schriml, Lynn M, Mardis, Elaine R, Jones, Steven J M, Raca, Gordana, Rao, Shruti, Madhavan, Subha, Wagner, Alex H, Griffith, Malachi, Griffith, Obi L
Publicado 2022