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A scalable, open-source implementation of a large-scale mechanistic model for single cell proliferation and death signaling.
Published in:
Nature Communications, 2022, v. 13, n. 1, p. 1, doi. 10.1038/s41467-022-31138-1
By:
- Erdem, Cemal;
- Mutsuddy, Arnab;
- Bensman, Ethan M.;
- Dodd, William B.;
- Saint-Antoine, Michael M.;
- Bouhaddou, Mehdi;
- Blake, Robert C.;
- Gross, Sean M.;
- Heiser, Laura M.;
- Feltus, F. Alex;
- Birtwistle, Marc R.
Publication type:
Article
Single-Cell Analysis of Rohon-Beard Neurons Implicates Fgf Signaling in Axon Maintenance and Cell Survival.
Published in:
Journal of Neuroscience, 2024, v. 44, n. 16, p. 1, doi. 10.1523/JNEUROSCI.1600-23.2024
By:
- Tuttle, Adam M.;
- Miller, Lauren N.;
- Royer, Lindsey J.;
- Hua Wen;
- Kelly, Jimmy J.;
- Calistri, Nicholas L.;
- Heiser, Laura M.;
- Nechiporuk, Alex V.
Publication type:
Article
A multiplex implantable microdevice assay identifies synergistic combinations of cancer immunotherapies and conventional drugs.
Published in:
Nature Biotechnology, 2022, v. 40, n. 12, p. 1823, doi. 10.1038/s41587-022-01379-y
By:
- Tatarova, Zuzana;
- Blumberg, Dylan C.;
- Korkola, James E.;
- Heiser, Laura M.;
- Muschler, John L.;
- Schedin, Pepper J.;
- Ahn, Sebastian W.;
- Mills, Gordon B.;
- Coussens, Lisa M.;
- Jonas, Oliver;
- Gray, Joe W.
Publication type:
Article
A community effort to assess and improve drug sensitivity prediction algorithms.
Published in:
Nature Biotechnology, 2014, v. 32, n. 12, p. 1202, doi. 10.1038/nbt.2877
By:
- Costello, James C;
- Collins, James J;
- Gallahan, Dan;
- Singer, Dinah;
- Kaski, Samuel;
- Stolovitzky, Gustavo;
- Heiser, Laura M;
- Georgii, Elisabeth;
- Gönen, Mehmet;
- Ammad-ud-din, Muhammad;
- Khan, Suleiman A;
- Menden, Michael P;
- Saez-Rodriguez, Julio;
- Wang, Nicholas J;
- Gray, Joe W;
- Bansal, Mukesh;
- Hintsanen, Petteri;
- Mpindi, John-Patrick;
- Kallioniemi, Olli;
- Aittokallio, Tero
Publication type:
Article
Systematic replication enables normalization of high-throughput imaging assays.
Published in:
Bioinformatics, 2022, v. 38, n. 21, p. 4934, doi. 10.1093/bioinformatics/btac606
By:
- Hunt, Gregory J;
- Dane, Mark A;
- Korkola, James E;
- Heiser, Laura M;
- Gagnon-Bartsch, Johann A
Publication type:
Article
PEG-lipid micelles enable cholesterol efflux in Niemann-Pick Type C1 disease-based lysosomal storage disorder.
Published in:
Scientific Reports, 2016, p. 31750, doi. 10.1038/srep31750
By:
- Brown, Anna;
- Patel, Siddharth;
- Ward, Carl;
- Lorenz, Anna;
- Ortiz, Mauren;
- DuRoss, Allison;
- Wieghardt, Fabian;
- Esch, Amanda;
- Otten, Elsje G.;
- Heiser, Laura M.;
- Korolchuk, Viktor I.;
- Sun, Conroy;
- Sarkar, Sovan;
- Sahay, Gaurav
Publication type:
Article
MOBILE pipeline enables identification of context-specific networks and regulatory mechanisms.
Published in:
Nature Communications, 2023, v. 14, n. 1, p. 1, doi. 10.1038/s41467-023-39729-2
By:
- Erdem, Cemal;
- Gross, Sean M.;
- Heiser, Laura M.;
- Birtwistle, Marc R.
Publication type:
Article
Analysis and modeling of cancer drug responses using cell cycle phase-specific rate effects.
Published in:
Nature Communications, 2023, v. 14, n. 1, p. 1, doi. 10.1038/s41467-023-39122-z
By:
- Gross, Sean M.;
- Mohammadi, Farnaz;
- Sanchez-Aguila, Crystal;
- Zhan, Paulina J.;
- Liby, Tiera A.;
- Dane, Mark A.;
- Meyer, Aaron S.;
- Heiser, Laura M.
Publication type:
Article
ATM Suppresses SATB1-Induced Malignant Progression in Breast Epithelial Cells.
Published in:
PLoS ONE, 2012, v. 7, n. 12, p. 1, doi. 10.1371/journal.pone.0051786
By:
- Ordinario, Ellen;
- Han, Hye-Jung;
- Furuta, Saori;
- Heiser, Laura M.;
- Jakkula, Lakshmi R.;
- Rodier, Francis;
- Spellman, Paul T.;
- Campisi, Judith;
- Gray, Joe W.;
- Bissell, Mina J.;
- Kohwi, Yoshinori;
- Kohwi-Shigematsu, Terumi
Publication type:
Article
A Network-Based Model of Oncogenic Collaboration for Prediction of Drug Sensitivity.
Published in:
Frontiers in Genetics, 2015, p. 1, doi. 10.3389/fgene.2015.00341
By:
- Laderas, Ted G.;
- Heiser, Laura M.;
- Sönmez, Kemal
Publication type:
Article
Overcoming endocrine resistance due to reduced PTEN levels in estrogen receptor-positive breast cancer by co-targeting mammalian target of rapamycin, protein kinase B, or mitogen-activated protein kinase kinase.
Published in:
Breast Cancer Research, 2014, v. 16, n. 5, p. 1, doi. 10.1186/s13058-014-0430-x
By:
- Xiaoyong Fu;
- Creighton, Chad J.;
- Biswal, Nrusingh C.;
- Kumar, Vijetha;
- Shea, Martin;
- Herrera, Sabrina;
- Contreras, Alejandro;
- Gutierrez, Carolina;
- Tao Wang;
- Nanda, Sarmistha;
- Giuliano, Mario;
- Morrison, Gladys;
- Nardone, Agostina;
- Karlin, Kristen L.;
- Westbrook, Thomas F.;
- Heiser, Laura M.;
- Anur, Pavana;
- Spellman, Paul;
- Guichard, Sylvie M.;
- Smith, Paul D.
Publication type:
Article
Overcoming endocrine resistance due to reduced PTEN levels in estrogen receptor-positive breast cancer by co-targeting mammalian target of rapamycin, protein kinase B, or mitogen-activated protein kinase kinase.
Published in:
2014
By:
- Fu, Xiaoyong;
- Creighton, Chad J;
- Biswal, Nrusingh C;
- Kumar, Vijetha;
- Shea, Martin;
- Herrera, Sabrina;
- Contreras, Alejandro;
- Gutierrez, Carolina;
- Wang, Tao;
- Nanda, Sarmistha;
- Giuliano, Mario;
- Morrison, Gladys;
- Nardone, Agostina;
- Karlin, Kristen L;
- Westbrook, Thomas F;
- Heiser, Laura M;
- Anur, Pavana;
- Spellman, Paul;
- Guichard, Sylvie M;
- Smith, Paul D
Publication type:
journal article
Annot: a Django-based sample, reagent, and experiment metadata tracking system.
Published in:
BMC Bioinformatics, 2019, v. 20, n. 1, p. 1, doi. 10.1186/s12859-019-3147-0
By:
- Bucher, Elmar;
- Claunch, Cheryl J.;
- Hee, Derrick;
- Smith, Rebecca L.;
- Devlin, Kaylyn;
- Thompson, Wallace;
- Korkola, James E.;
- Heiser, Laura M.
Publication type:
Article
An altered extracellular matrix–integrin interface contributes to Huntington's disease-associated CNS dysfunction in glial and vascular cells.
Published in:
Human Molecular Genetics, 2023, v. 32, n. 9, p. 1483, doi. 10.1093/hmg/ddac303
By:
- Hernandez, Sarah J;
- Lim, Ryan G;
- Onur, Tarik;
- Dane, Mark A;
- Smith, Rebecca;
- Wang, Keona;
- Jean, Grace En-Hway;
- Reyes-Ortiz, Andrea;
- Devlin, Kaylyn;
- Miramontes, Ricardo;
- Wu, Jie;
- Casale, Malcolm;
- Kilburn, David;
- Heiser, Laura M;
- Korkola, James E;
- Vactor, David Van;
- Botas, Juan;
- Thompson-Peer, Katherine L;
- Thompson, Leslie M
Publication type:
Article
Modeling precision treatment of breast cancer.
Published in:
Genome Biology, 2013, v. 14, n. 10, p. R110, doi. 10.1186/gb-2013-14-10-r110
By:
- Daemen, Anneleen;
- Griffith, Obi L;
- Heiser, Laura M;
- Wang, Nicholas J;
- Enache, Oana M;
- Sanborn, Zachary;
- Pepin, Francois;
- Durinck, Steffen;
- Korkola, James E;
- Griffith, Malachi;
- Joe S Hur;
- Nam Huh;
- Jongsuk Chung;
- Cope, Leslie;
- Fackler, Mary Jo;
- Umbricht, Christopher;
- Sukumar, Saraswati;
- Seth, Pankaj;
- Sukhatme, Vikas P;
- Jakkula, Lakshmi R
Publication type:
Article
Characterizing advanced breast cancer heterogeneity and treatment resistance through serial biopsies and comprehensive analytics.
Published in:
NPJ Precision Oncology, 2021, v. 5, n. 1, p. 1, doi. 10.1038/s41698-021-00165-4
By:
- Li, Allen;
- Keck, Jamie M.;
- Parmar, Swapnil;
- Patterson, Janice;
- Labrie, Marilyne;
- Creason, Allison L.;
- Johnson, Brett E.;
- Downey, Molly;
- Thomas, George;
- Beadling, Carol;
- Heiser, Laura M.;
- Kolodzie, Annette;
- Guimaraes, Alexander R.;
- Corless, Christopher L.;
- Gray, Joe W.;
- Mills, Gordon B.;
- Bergan, Raymond C.;
- Mitri, Zahi I.
Publication type:
Article
Live Cell Lineage Tracing of Dormant Cancer Cells.
Published in:
Advanced Healthcare Materials, 2023, v. 12, n. 14, p. 1, doi. 10.1002/adhm.202202275
By:
- Kim, Hyuna;
- Wirasaputra, Anna;
- Mohammadi, Farnaz;
- Kundu, Aritra Nath;
- Esteves, Jennifer A. E.;
- Heiser, Laura M.;
- Meyer, Aaron S.;
- Peyton, Shelly R.
Publication type:
Article
MYC regulates ductal-neuroendocrine lineage plasticity in pancreatic ductal adenocarcinoma associated with poor outcome and chemoresistance.
Published in:
Nature Communications, 2017, v. 8, n. 1, p. 1, doi. 10.1038/s41467-017-01967-6
By:
- Farrell, Amy S.;
- Joly, Meghan Morrison;
- Allen-Petersen, Brittany L.;
- Worth, Patrick J.;
- Lanciault, Christian;
- Sauer, David;
- Link, Jason;
- Pelz, Carl;
- Heiser, Laura M.;
- Morton, Jennifer P.;
- Muthalagu, Nathiya;
- Hoffman, Megan T.;
- Manning, Sara L.;
- Pratt, Erica D.;
- Kendsersky, Nicholas D.;
- Egbukichi, Nkolika;
- Amery, Taylor S.;
- Thoma, Mary C.;
- Jenny, Zina P.;
- Rhim, Andrew D.
Publication type:
Article
A robust prognostic signature for hormone-positive node-negative breast cancer.
Published in:
Genome Medicine, 2013, v. 5, n. 10, p. 19, doi. 10.1186/gm496
By:
- Griffith, Obi L.;
- Pepin, François;
- Enache, Oana M.;
- Heiser, Laura M.;
- Collisson, Eric A.;
- Spellman, Paul T.;
- Gray, Joe W.
Publication type:
Article
The tracking of lipopolysaccharide through the feto‐maternal compartment and the involvement of maternal TLR4 in inflammation‐induced fetal brain injury.
Published in:
American Journal of Reproductive Immunology, 2019, v. 82, n. 6, p. N.PAG, doi. 10.1111/aji.13189
By:
- Brown, Amy G.;
- Maubert, Monique E.;
- Anton, Lauren;
- Heiser, Laura M.;
- Elovitz, Michal A.
Publication type:
Article
Metrics other than potency reveal systematic variation in responses to cancer drugs.
Published in:
Nature Chemical Biology, 2013, v. 9, n. 11, p. 708, doi. 10.1038/nchembio.1337
By:
- Fallahi-Sichani, Mohammad;
- Honarnejad, Saman;
- Heiser, Laura M;
- Gray, Joe W;
- Sorger, Peter K
Publication type:
Article
Bayesian Inference of Signaling Network Topology in a Cancer Cell Line.
Published in:
Bioinformatics, 2012, v. 28, n. 21, p. 2804, doi. 10.1093/bioinformatics/bts514
By:
- Hill, Steven M.;
- Lu, Yiling;
- Molina, Jennifer;
- Heiser, Laura M.;
- Spellman, Paul T.;
- Speed, Terence P.;
- Gray, Joe W.;
- Mills, Gordon B.;
- Mukherjee, Sach
Publication type:
Article
Morphodynamical cell state description via live-cell imaging trajectory embedding.
Published in:
Communications Biology, 2023, v. 6, n. 1, p. 1, doi. 10.1038/s42003-023-04837-8
By:
- Copperman, Jeremy;
- Gross, Sean M.;
- Chang, Young Hwan;
- Heiser, Laura M.;
- Zuckerman, Daniel M.
Publication type:
Article
A lineage tree-based hidden Markov model quantifies cellular heterogeneity and plasticity.
Published in:
Communications Biology, 2022, v. 5, n. 1, p. 1, doi. 10.1038/s42003-022-04208-9
By:
- Mohammadi, Farnaz;
- Visagan, Shakthi;
- Gross, Sean M.;
- Karginov, Luka;
- Lagarde, J. C.;
- Heiser, Laura M.;
- Meyer, Aaron S.
Publication type:
Article
Activity of distinct growth factor receptor network components in breast tumors uncovers two biologically relevant subtypes.
Published in:
Genome Medicine, 2017, v. 9, p. 1, doi. 10.1186/s13073-017-0429-x
By:
- Rahman, Mumtahena;
- MacNeil, Shelley M.;
- Jenkins, David F.;
- Shrestha, Gajendra;
- Wyatt, Sydney R.;
- McQuerry, Jasmine A.;
- Piccolo, Stephen R.;
- Heiser, Laura M.;
- Gray, Joe W.;
- Johnson, W. Evan;
- Bild, Andrea H.
Publication type:
Article
Correction: Decoupling of the PI3K Pathway via Mutation Necessitates Combinatorial Treatment in HER2+ Breast Cancer.
Published in:
2017
By:
- Korkola, James E.;
- Collisson, Eric A.;
- Heiser, Laura M.;
- Oates, Chris;
- Bayani, Nora;
- Itani, Sleiman;
- Esch, Amanda;
- Thompson, Wallace;
- Griffith, Obi L.;
- Wang, Nicholas J.;
- Kuo, Wen-Lin;
- Cooper, Brian;
- Billig, Jessica;
- Ziyad, Safiyyah;
- Hung, Jenny L.;
- Jakkula, Lakshmi;
- Feiler, Heidi;
- Lu, Yiling;
- Mills, Gordon B.;
- Spellman, Paul T.
Publication type:
Correction Notice

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