Neoantigen landscape supports feasibility of personalized cancer vaccine for follicular lymphoma

Authors: Ramirez, Cody A., Becker-Hapak, Michelle, Singhal, Kartik, Russler-Germain, David A., Frenkel, Felix, Barnell, Erica K., McClain, Ethan D., Desai, Sweta, Schappe, Timothy, Onyeador, Onyinyechi C., Kudryashova, Olga, Belousov, Vladislav, Bagaev, Alexander, Ocheredko, Elena, Kiwala, Susanna, Hundal, Jasreet, Skidmore, Zachary L., Watkins, Marcus P., Mooney, Thomas B., Walker, Jason R., Krysiak, Kilannin, Gomez, Felicia, Fronick, Catrina C., Fulton, Robert S., Schreiber, Robert D., Mehta-Shah, Neha, Cashen, Amanda F., Kahl, Brad S., Ataullakhanov, Ravshan, Bartlett, Nancy L., Griffith, Malachi, Griffith, Obi L., Fehniger, Todd A.

Source: In Blood Advances 13 August 2024 8(15):4035-4049

Mutations associated with progression in follicular lymphoma predict inferior outcomes at diagnosis: Alliance A151303

Authors: Russler-Germain, David A., Krysiak, Kilannin, Ramirez, Cody, Mosior, Matthew, Watkins, Marcus P., Gomez, Felicia, Skidmore, Zachary L., Trani, Lee, Gao, Feng, Geyer, Susan, Cashen, Amanda F., Mehta-Shah, Neha, Kahl, Brad S., Bartlett, Nancy L., Alderuccio, Juan P., Lossos, Izidore S., Ondrejka, Sarah L., Hsi, Eric D., Martin, Peter, Leonard, John P., Griffith, Malachi, Griffith, Obi L., Fehniger, Todd A.

Source: In Blood Advances 26 September 2023 7(18):5524-5539

Comprehensive Analysis of TEK Variants in Patients With Vascular Malformations.

Authors: Ghasemi, Reza, Corliss, Meagan M., Bowling, Kevin M., Krysiak, Kilannin, Walker, Jason, Dickson, Alexa M., Schroeder, Molly C., Parikh, Bijal A., Neidich, Julie A., Polonis, Katarzyna, Cao, Yang

Source: Clinical Genetics; Apr2025, Vol. 107 Issue 4, p458-462, 5p

Subject Terms: PROTEIN-tyrosine kinases, MISSENSE mutation, GENETIC testing, NONSENSE mutation, GENETIC variation, CEREBRAL arteriovenous malformations, NUCLEOTIDE sequencing, GENETIC mutation

Modified Rules for Classification of Variants Associated With Disorders of Somatic Mosaicism.

Authors: Leon‐Quintero, Fernando Zazueta, Bowling, Kevin M., Dickson, Alexa, Corliss, Meagan M., Schroeder, Molly C., Neidich, Julie A., Heusel, Jonathan W., Krysiak, Kilannin, Polonis, Katarzyna, Parikh, Bijal A., Cao, Yang

Source: Clinical Genetics; Mar2025, Vol. 107 Issue 3, p261-270, 10p

Subject Terms: MOSAICISM, CLASSIFICATION, MEDICAL care, BRAIN abnormalities, GENETIC disorders, BIOINFORMATICS

Genomic and transcriptomic somatic alterations of hepatocellular carcinoma in non-cirrhotic livers

Authors: Skidmore, Zachary L, Kunisaki, Jason, Lin, Yiing, Cotto, Kelsy C, Barnell, Erica K, Hundal, Jasreet, Krysiak, Kilannin, Magrini, Vincent, Trani, Lee, Walker, Jason R, Fulton, Robert, Brunt, Elizabeth M, Miller, Christopher A, Wilson, Richard K, Mardis, Elaine R, Griffith, Malachi, Chapman, William, Griffith, Obi L

Source: In Cancer Genetics June 2022 264-265:90-99

Standards for the classification of pathogenicity of somatic variants in cancer (oncogenicity): Joint recommendations of Clinical Genome Resource (ClinGen), Cancer Genomics Consortium (CGC), and Variant Interpretation for Cancer Consortium (VICC)

Authors: Horak, Peter, Griffith, Malachi, Danos, Arpad M., Pitel, Beth A., Madhavan, Subha, Liu, Xuelu, Chow, Cynthia, Williams, Heather, Carmody, Leigh, Barrow-Laing, Lisa, Rieke, Damian, Kreutzfeldt, Simon, Stenzinger, Albrecht, Tamborero, David, Benary, Manuela, Rajagopal, Padma Sheila, Ida, Cristiane M., Lesmana, Harry, Satgunaseelan, Laveniya, Merker, Jason D., Tolstorukov, Michael Y., Campregher, Paulo Vidal, Warner, Jeremy L., Rao, Shruti, Natesan, Maya, Shen, Haolin, Venstrom, Jeffrey, Roy, Somak, Tao, Kayoko, Kanagal-Shamanna, Rashmi, Xu, Xinjie, Ritter, Deborah I., Pagel, Kym, Krysiak, Kilannin, Dubuc, Adrian, Akkari, Yassmine M., Li, Xuan Shirley, Lee, Jennifer, King, Ian, Raca, Gordana, Wagner, Alex H., Li, Marylin M., Plon, Sharon E., Kulkarni, Shashikant, Griffith, Obi L., Chakravarty, Debyani, Sonkin, Dmitriy

Source: In Genetics in Medicine May 2022 24(5):986-998

Phase 1/dose expansion trial of brentuximab vedotin and lenalidomide in relapsed or refractory diffuse large B-cell lymphoma

Authors: Ward, Jeffrey P. ^*, Berrien-Elliott, Melissa M., Gomez, Felicia, Luo, Jingqin, Becker-Hapak, Michelle, Cashen, Amanda F., Wagner-Johnston, Nina D., Maddocks, Kami, Mosior, Matthew, Foster, Mark, Krysiak, Kilannin, Schmidt, Alina, Skidmore, Zachary L., Desai, Sweta, Watkins, Marcus P., Fischer, Anne, Griffith, Malachi, Griffith, Obi L., Fehniger, Todd A. ^*, Bartlett, Nancy L. ^*

Source: In Blood 31 March 2022 139(13):1999-2010

Tailored Approaches in the Treatment of Patients With Colorectal Cancer Harboring Tropomyosin Receptor Kinase Fusion and Microsatellite Instability-High: A Case Report and Literature Review.

Authors: Kim, Samuel, Itani, Malak, Liu, Xiuli, Sun, Lulu, Krysiak, Kilannin, Fox, Nicole, Firwana, Belal, Al Diffalha, Sameer, Manne, Upender, Seeber, Andreas, Karl, Molly, Frank, Michele, Stubblefield, Hannah, Pedersen, Katrina, Lim, Kian-Huat, Abushukair, Hassan, Khushman, Moh'd

Source: JCO Precision Oncology; 1/31/2025, Vol. 9, p1-6, 6p

Subject Terms: IMMUNE checkpoint inhibitors, HEMATOXYLIN & eosin staining, GENE fusion, LIVER metastasis, PROTEIN-tyrosine kinases

A Spontaneous Aggressive ERα+ Mammary Tumor Model Is Driven by Kras Activation

Authors: Campbell, Katie M., O’Leary, Kathleen A., Rugowski, Debra E., Mulligan, William A., Barnell, Erica K., Skidmore, Zachary L., Krysiak, Kilannin, Griffith, Malachi, Schuler, Linda A., Griffith, Obi L.

Source: In Cell Reports 6 August 2019 28(6):1526-1537

P801: Low-level somatic convoluted indel variants in C-terminal region of TEK revealed by deep sequencing on patients with vascular malformations

Authors: Duan, Ruizhi ¹, Dickson, Alexa ¹, Corliss, Meagan ¹, Krysiak, Kilannin ¹, Bowling, Kevin ¹, Cao, Yang ¹, Neidich, Julie ¹

Source: In Genetics in Medicine Open 2025 3 Supplement 2

P715: Testing indications and diagnostic yield of clinical exome sequencing in a US Midwestern patient cohort

Authors: Thompson, Michelle ¹, Machado Bressan Wilke, Mathues Vernet ¹, Dickson, Alexa ¹, Corliss, Meagan ¹, Thompson, Katarzyna ¹, Cao, Yang ¹, Spencer, Gregory ¹, Walker, Jason ¹, Krysiak, Kilannin ¹, Dickson, Patricia ¹, Bowling, Kevin ¹, Neidich, Julie ¹, Schroeder, Molly ¹

Source: In Genetics in Medicine Open 2025 3 Supplement 2

P324: Research analysis of clinical exome sequence data to detect diabetes-related genetic variation

Authors: Wilke, Matheus ¹, Machado Bressan Wilke, Matheus Vernet ¹, Thompson, Michelle ¹, Jho, Sungwoo ¹, Thompson, Katarzyna ¹, Rahi, Hamed ¹, Dickson, Alexa ¹, Corliss, Meagan ¹, Cao, Yang ¹, Walker, Jason ¹, Sprenger, Gregory ¹, Krysiak, Kilannin ¹, Schroeder, Molly ¹, Stone, Stephen ², Urano, Fumihiko ³, Neidich, Julie ⁴, Bowling, Kevin ¹

Source: In Genetics in Medicine Open 2025 3 Supplement 2

Single-agent ibrutinib in relapsed or refractory follicular lymphoma: a phase 2 consortium trial

Authors: Bartlett, Nancy L., Costello, Brian A., LaPlant, Betsy R., Ansell, Stephen M., Kuruvilla, John G., Reeder, Craig B., Thye, Lim S., Anderson, Daniel M., Krysiak, Kilannin, Ramirez, Cody, Qi, Jing, Siegel, Barry A., Griffith, Malachi, Griffith, Obi L., Gomez, Felicia ^*, Fehniger, Todd A. ^*

Source: In Blood 11 January 2018 131(2):182-190

Melorheostosis: Exome sequencing of an associated dermatosis implicates postzygotic mosaicism of mutated KRAS

Authors: Whyte, Michael P., Griffith, Malachi, Trani, Lee, Mumm, Steven, Gottesman, Gary S., McAlister, William H., Krysiak, Kilannin, Lesurf, Robert, Skidmore, Zachary L., Campbell, Katie M., Rosman, Ilana S., Bayliss, Susan, Bijanki, Vinieth N., Nenninger, Angela, Van Tine, Brian A., Griffith, Obi L., Mardis, Elaine R.

Source: In Bone August 2017 101:145-155

Recurrent somatic mutations affecting B-cell receptor signaling pathway genes in follicular lymphoma

Authors: Krysiak, Kilannin, Gomez, Felicia, White, Brian S., Matlock, Matthew, Miller, Christopher A., Trani, Lee, Fronick, Catrina C., Fulton, Robert S., Kreisel, Friederike, Cashen, Amanda F., Carson, Kenneth R., Berrien-Elliott, Melissa M., Bartlett, Nancy L., Griffith, Malachi, Griffith, Obi L., Fehniger, Todd A.

Source: In Blood 26 January 2017 129(4):473-483

Comprehensive genomic analysis reveals FLT3 activation and a therapeutic strategy for a patient with relapsed adult B-lymphoblastic leukemia

Authors: Griffith, Malachi, Griffith, Obi L., Krysiak, Kilannin, Skidmore, Zachary L., Christopher, Matthew J., Klco, Jeffery M., Ramu, Avinash, Lamprecht, Tamara L., Wagner, Alex H., Campbell, Katie M., Lesurf, Robert, Hundal, Jasreet, Zhang, Jin, Spies, Nicholas C., Ainscough, Benjamin J., Larson, David E., Heath, Sharon E., Fronick, Catrina, O'Laughlin, Shelly, Fulton, Robert S., Magrini, Vincent, McGrath, Sean, Smith, Scott M., Miller, Christopher A., Maher, Christopher A., Payton, Jacqueline E., Walker, Jason R., Eldred, James M., Walter, Matthew J., Link, Daniel C., Graubert, Timothy A., Westervelt, Peter, Kulkarni, Shashikant, DiPersio, John F., Mardis, Elaine R., Wilson, Richard K., Ley, Timothy J.

Source: In Experimental Hematology July 2016 44(7):603-613

P673: Four cases of unbalanced (Xq28/Yq12): Autosome translocation identified by chromosomal microarray analysis

Authors: Krysiak, Kilannin, Stehl, Kate, Cao, Yang, Polonis, Katarzyna, Fritz, Joan, Amarillo, Ina, Neidich, Julie, Schroeder, Molly

Source: In Genetics in Medicine Open 2024 2 Supplement 1

P103: Operationalizing structured curated scientific literature (CIViC and Hypothesis) in developing gene-specific recommendations of the ClinGen VHL Variant Curation Expert Panel

Authors: Ritter, Deborah, Badduke, Chansonette, Anderson, Michael, Danos, Arpad, Doonanco, Kurston, Farncombe, Kirsten, Gallinger, Bailey, Giles, Rachel, Griffith, Malachi, Griffith, Obi, Horton, Carolyn, Hruska, Kathleen, Kang, Hio Chung, Krysiak, Kilannin, Luo, Minjie, Machado, Jerry, Maher, Eamonn, McGoldrick, Kelly, Pesaran, Tina, Pipko, Neta, Ridd, Sarah, Saliba, Jason, Sheen, Clare, Kim, Raymond

Source: In Genetics in Medicine Open 2024 2 Supplement 1

P085: Addition of new variant classes to the CIViC data model

Authors: Danos, Arpad, Krysiak, Kilannin, Saliba, Jason, Coffman, Adam, Kiwala, Susanna, McMichael, Joshua, Grisdale, Cameron, Khanfar, Mariam, Griffith, Malachi, Griffith, Obi

Source: In Genetics in Medicine Open 2024 2 Supplement 1

Optimizing Cancer Genome Sequencing and Analysis

Authors: Griffith, Malachi, Miller, Christopher A., Griffith, Obi L., Krysiak, Kilannin, Skidmore, Zachary L., Ramu, Avinash, Walker, Jason R., Dang, Ha X., Trani, Lee, Larson, David E., Demeter, Ryan T., Wendl, Michael C., McMichael, Joshua F., Austin, Rachel E., Magrini, Vincent, McGrath, Sean D., Ly, Amy, Kulkarni, Shashikant, Cordes, Matthew G., Fronick, Catrina C., Fulton, Robert S., Maher, Christopher A., Ding, Li, Klco, Jeffery M., Mardis, Elaine R., Ley, Timothy J., Wilson, Richard K.

Source: In Cell Systems 23 September 2015 1(3):210-223