Works by Bottomly, Daniel

Results: 22

A noncanonical FLT3 gatekeeper mutation disrupts gilteritinib binding and confers resistance.

Published in:

American Journal of Hematology, 2021, v. 96, n. 7, p. E226, doi. 10.1002/ajh.26174

By:

Joshi, Sunil K.;
Sharzehi, Setareh;
Pittsenbarger, Janét;
Bottomly, Daniel;
Tognon, Cristina E.;
McWeeney, Shannon K.;
Druker, Brian J.;
Traer, Elie

Publication type:

Article

Identification of β-catenin binding regions in colon cancer cells using ChIP-Seq.

Published in:

Nucleic Acids Research, 2010, v. 38, n. 17, p. 5735, doi. 10.1093/nar/gkq363

By:

Bottomly, Daniel;
Kyler, Sydney L.;
McWeeney, Shannon K.;
Yochum, Gregory S.

Publication type:

Article

HitWalker2: visual analytics for precision medicine and beyond.

Published in:

Bioinformatics, 2016, v. 32, n. 8, p. 1253, doi. 10.1093/bioinformatics/btv739

By:

Bottomly, Daniel;
McWeeney, Shannon K.;
Wilmot, Beth

Publication type:

Article

HitWalker: variant prioritization for personalized functional cancer genomics.

Published in:

Bioinformatics, 2013, v. 29, n. 4, p. 509, doi. 10.1093/bioinformatics/btt003

By:

Bottomly, Daniel;
Wilmot, Beth;
Tyner, Jeffrey W.;
Eide, Christopher A.;
Loriaux, Marc M.;
Druker, Brian J.;
McWeeney, Shannon K.

Publication type:

Article

Utilizing RNA-Seq data for de novo coexpression network inference.

Published in:

Bioinformatics, 2012, v. 28, n. 12, p. 1592, doi. 10.1093/bioinformatics/bts245

By:

Iancu, Ovidiu D.;
Kawane, Sunita;
Bottomly, Daniel;
Searles, Robert;
Hitzemann, Robert;
McWeeney, Shannon

Publication type:

Article

Functional proteomics of patient derived head and neck squamous cell carcinoma cells reveal novel applications of trametinib.

Published in:

Cancer Biology & Therapy, 2022, v. 23, n. 1, p. 309, doi. 10.1080/15384047.2022.2055420

By:

Vigoda, Myles;
Mathieson, Chase;
Evans, Nathaniel;
Hale, Carolyn;
Jennings, Jennifer;
Lucero, Olivia;
Jeng, Sophia;
Bottomly, Daniel;
Clayburgh, Daniel;
Andersen, Peter;
Li, Ryan;
Petrisor, Daniel;
Tyner, Jeffrey W.;
McWeeney, Shannon;
Kulesz-Martin, Molly

Publication type:

Article

plethy: management of whole body plethysmography data in R.

Published in:

BMC Bioinformatics, 2015, v. 16, n. 1, p. 1, doi. 10.1186/s12859-015-0547-7

By:

Bottomly, Daniel;
Wilmot, Beth;
McWeeney, Shannon K.

Publication type:

Article

Modeling Host Genetic Regulation of Influenza Pathogenesis in the Collaborative Cross.

Published in:

PLoS Pathogens, 2013, v. 9, n. 2, p. 1, doi. 10.1371/journal.ppat.1003196

By:

Ferris, Martin T.;
Aylor, David L.;
Bottomly, Daniel;
Whitmore, Alan C.;
Aicher, Lauri D.;
Bell, Timothy A.;
Bradel-Tretheway, Birgit;
Bryan, Janine T.;
Buus, Ryan J.;
Gralinski, Lisa E.;
Haagmans, Bart L.;
McMillan, Leonard;
Miller, Darla R.;
Rosenzweig, Elizabeth;
Valdar, William;
Wang, Jeremy;
Churchill, Gary A.;
Threadgill, David W.;
McWeeney, Shannon K.;
Katze, Michael G.

Publication type:

Article

Utilizing cohort-level and individual networks to predict best response in patients with metastatic triple negative breast cancer.

Published in:

NPJ Precision Oncology, 2025, v. 9, n. 1, p. 1, doi. 10.1038/s41698-025-00959-w

By:

Bottomly, Daniel;
Zheng, Christina;
Creason, Allison L.;
Mitri, Zahi I.;
Mills, Gordon B.;
McWeeney, Shannon K.

Publication type:

Article

oligoMask: A Framework for Assessing and Removing the Effect of Genetic Variants on Microarray Probes.

Published in:

R Journal, 2014, v. 6, n. 1, p. 159, doi. 10.32614/RJ-2014-018

By:

Bottomly, Daniel;
Wilmot, Beth;
McWeeney, Shannon K.

Publication type:

Article

Comparison of methods to identify aberrant expression patterns in individual patients: augmenting our toolkit for precision medicine.

Published in:

Genome Medicine, 2013, v. 5, n. 11, p. 1, doi. 10.1186/gm509

By:

Bottomly, Daniel;
Ryabinin, Peter A.;
Tyner, Jeffrey W.;
Chang, Bill H.;
Loriaux, Marc M.;
Druker, Brian J.;
McWeeney, Shannon K.;
Wilmot, Beth

Publication type:

Article

Upregulation of HOXA3 by isoform‐specific Wilms tumour 1 drives chemotherapy resistance in acute myeloid leukaemia.

Published in:

British Journal of Haematology, 2024, v. 205, n. 1, p. 207, doi. 10.1111/bjh.19563

By:

Allen, Basil;
Savoy, Lindsey;
Ryabinin, Peter;
Bottomly, Daniel;
Chen, Reid;
Goff, Bonnie;
Wang, Anthony;
McWeeney, Shannon K.;
Zhang, Haijiao

Publication type:

Article

Secondary fusion proteins as a mechanism of BCR::ABL1 kinase‐independent resistance in chronic myeloid leukaemia.

Published in:

British Journal of Haematology, 2023, v. 200, n. 3, p. 323, doi. 10.1111/bjh.18515

By:

Barnes, Evan J.;
Eide, Christopher A.;
Kaempf, Andy;
Bottomly, Daniel;
Romine, Kyle A.;
Wilmot, Beth;
Saunders, Dominick;
McWeeney, Shannon K.;
Tognon, Cristina E.;
Druker, Brian J.

Publication type:

Article

Synthetic lethality of TNK2 inhibition in PTPN11-mutant leukemia.

Published in:

Science Signaling, 2018, v. 11, n. 539, p. 1, doi. 10.1126/scisignal.aao5617

By:

Jenkins, Chelsea;
Luty, Samuel B.;
Maxson, Julia E.;
Eide, Christopher A.;
Abel, Melissa L.;
Togiai, Corinne;
Nemecek, Eneida R.;
Bottomly, Daniel;
McWeeney, Shannon K.;
Wilmot, Beth;
Loriaux, Marc;
Chang, Bill H.;
Tyner, Jeffrey W.

Publication type:

Article

Androgen Receptor Promotes Ligand-Independent Prostate Cancer Progression through c-Myc Upregulation

Published in:

PLoS ONE, 2013, v. 8, n. 5, p. 1, doi. 10.1371/journal.pone.0063563

By:

Gao, Lina;
Schwartzman, Jacob;
Gibbs, Angela;
Lisac, Robert;
Kleinschmidt, Richard;
Wilmot, Beth;
Bottomly, Daniel;
Coleman, Ilsa;
Nelson, Peter;
McWeeney, Shannon;
Alumkal, Joshi

Publication type:

Article

Evaluating Gene Expression in C57BL/6J and DBA/2J Mouse Striatum Using RNA-Seq and Microarrays.

Published in:

PLoS ONE, 2011, v. 6, n. 3, p. 1, doi. 10.1371/journal.pone.0017820

By:

Bottomly, Daniel;
Walter, Nicole A. R.;
Hunter, Jessica Ezzell;
Darakjian, Priscila;
Kawane, Sunita;
Buck, Kari J.;
Searles, Robert P.;
Mooney, Michael;
McWeeney, Shannon K.;
Hitzemann, Robert

Publication type:

Article

The genetics of gene expression in complex mouse crosses as a tool to study the molecular underpinnings of behavior traits.

Published in:

Mammalian Genome, 2014, v. 25, n. 1/2, p. 12, doi. 10.1007/s00335-013-9495-6

By:

Hitzemann, Robert;
Bottomly, Daniel;
Iancu, Ovidiu;
Buck, Kari;
Wilmot, Beth;
Mooney, Michael;
Searles, Robert;
Zheng, Christina;
Belknap, John;
Crabbe, John;
McWeeney, Shannon

Publication type:

Article

Immune cell proportions correlate with clinicogenomic features and ex vivo drug responses in acute myeloid leukemia.

Published in:

Frontiers in Oncology, 2023, p. 1, doi. 10.3389/fonc.2023.1192829

By:

Romine, Kyle A.;
Bottomly, Daniel;
Yashar, William;
Long, Nicola;
Viehdorfer, Matthew;
McWeeney, Shannon K.;
Tyner, Jeffrey W.

Publication type:

Article

Clinical resistance to crenolanib in acute myeloid leukemia due to diverse molecular mechanisms.

Published in:

Nature Communications, 2019, v. 10, n. 1, p. 1, doi. 10.1038/s41467-018-08263-x

By:

Zhang, Haijiao;
Savage, Samantha;
Schultz, Anna Reister;
Bottomly, Daniel;
White, Libbey;
Segerdell, Erik;
Wilmot, Beth;
McWeeney, Shannon K.;
Eide, Christopher A.;
Nechiporuk, Tamilla;
Carlos, Amy;
Henson, Rachel;
Lin, Chenwei;
Searles, Robert;
Ho, Hoang;
Lam, Yee Ling;
Sweat, Richard;
Follit, Courtney;
Jain, Vinay;
Lind, Evan

Publication type:

Article

Dual BTK/SYK inhibition with CG-806 (luxeptinib) disrupts B-cell receptor and Bcl-2 signaling networks in mantle cell lymphoma.

Published in:

Cell Death & Disease, 2022, v. 13, n. 3, p. 1, doi. 10.1038/s41419-022-04684-1

By:

Thieme, Elana;
Liu, Tingting;
Bruss, Nur;
Roleder, Carly;
Lam, Vi;
Wang, Xiaoguang;
Nechiporuk, Tamilla;
Shouse, Geoffrey;
Danilova, Olga V.;
Bottomly, Daniel;
McWeeney, Shannon K.;
Tyner, Jeffrey W.;
Kurtz, Stephen E.;
Danilov, Alexey V.

Publication type:

Article

A DNA methylation microarray-based study identifies ERG as a gene commonly methylated in prostate cancer.

Published in:

Epigenetics, 2011, v. 6, n. 10, p. 1248, doi. 10.4161/epi.6.10.17727

By:

Schwartzman, Jacob;
Mongoue-Tchokote, Solange;
Gibbs, Angela;
Gao, Lina;
Corless, Christopher L.;
Jin, Jennifer;
Zarour, Luai;
Higano, Celestia;
True, Lawrence D.;
Vessella, Robert L.;
Wilmot, Beth;
Bottomly, Daniel;
McWeeney, Shannon K.;
Bova, G. Steven;
Partin, Alan W.;
Mori, Motomi;
Alumkal, Joshi J.

Publication type:

Article

High throughput sequencing in mice: a platform comparison identifies a preponderance of cryptic SNPs.

Published in:

BMC Genomics, 2009, v. 10, p. 379, doi. 10.1186/1471-2164-10-379

By:

Walter, Nicole A. R.;
Bottomly, Daniel;
Laderas, Ted;
Mooney, Michael A.;
Darakjian, Priscila;
Searles, Robert P.;
Harrington, Christina A.;
McWeeney, Shannon K.;
Hitzemann, Robert;
Buck, Kari J.

Publication type:

Article