ORegAnno 3.0: a community-driven resource for curated regulatory annotation

por Lesurf, Robert, Cotto, Kelsy C., Wang, Grace, Griffith, Malachi, Kasaian, Katayoon, Jones, Steven J. M., Montgomery, Stephen B., Griffith, Obi L.
Publicado 2016

DGIdb 3.0: a redesign and expansion of the drug–gene interaction database

por Cotto, Kelsy C, Wagner, Alex H, Feng, Yang-Yang, Kiwala, Susanna, Coffman, Adam C, Spies, Gregory, Wollam, Alex, Spies, Nicholas C, Griffith, Obi L, Griffith, Malachi
Publicado 2018

Integration of the Drug–Gene Interaction Database (DGIdb 4.0) with open crowdsource efforts

por Freshour, Sharon L, Kiwala, Susanna, Cotto, Kelsy C, Coffman, Adam C, McMichael, Joshua F, Song, Jonathan J, Griffith, Malachi, Griffith, Obi L, Wagner, Alex H
Publicado 2020

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

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

Integrated analysis of genomic and transcriptomic data for the discovery of splice-associated variants in cancer

por Cotto, Kelsy C., Feng, Yang-Yang, Ramu, Avinash, Richters, Megan, Freshour, Sharon L., Skidmore, Zachary L., Xia, Huiming, McMichael, Joshua F., Kunisaki, Jason, Campbell, Katie M., Chen, Timothy Hung-Po, Rozycki, Emily B., Adkins, Douglas, Devarakonda, Siddhartha, Sankararaman, Sumithra, Lin, Yiing, Chapman, William C., Maher, Christopher A., Arora, Vivek, Dunn, Gavin P., Uppaluri, Ravindra, Govindan, Ramaswamy, Griffith, Obi L., Griffith, Malachi
Publicado 2023

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

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

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