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Deep Learning-Based Identification of Tissue of Origin for Carcinomas of Unknown Primary Using MicroRNA Expression: Algorithm Development and Validation.
Raghu A, Raghu A, Wise JF. Deep Learning-Based Identification of Tissue of Origin for Carcinomas of Unknown Primary Using MicroRNA Expression: Algorithm Development and Validation. JMIR bioinformatics and biotechnology. 2024;5:e56538. doi:10.2196/56538Google ScholarPubMedDOI
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DNA Sequence Variation in Encoding the Activin Receptor-Like Kinase 7 Influences Body Fat Distribution and Protects Against Type 2 Diabetes.
Emdin CA, Khera AV, Aragam K, et al. DNA Sequence Variation in Encoding the Activin Receptor-Like Kinase 7 Influences Body Fat Distribution and Protects Against Type 2 Diabetes. Diabetes. 2019;68(1):226-234. doi:10.2337/db18-0857Google ScholarPubMedDOI
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MAUDE: inferring expression changes in sorting-based CRISPR screens.
de Boer CG, Ray JP, Hacohen N, Regev A. MAUDE: inferring expression changes in sorting-based CRISPR screens. Genome Biol. 2020;21(1):134. doi:10.1186/s13059-020-02046-8Google ScholarPubMedDOI
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Pan-cancer integrative histology-genomic analysis via multimodal deep learning.
Chen RJ, Lu MY, Williamson DFK, et al. Pan-cancer integrative histology-genomic analysis via multimodal deep learning. Cancer Cell. 2022;40(8):865-878.e6. doi:10.1016/j.ccell.2022.07.004Google ScholarPubMedDOI
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A New Image for Cell Sorting.
Filby A, Carpenter AE. A New Image for Cell Sorting. N Engl J Med. 2022;386(18):1755-1758. doi:10.1056/NEJMcibr2200971Google ScholarPubMedDOI
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Predicting drug polypharmacology from cell morphology readouts using variational autoencoder latent space arithmetic.
Chow YL, Singh S, Carpenter AE, Way GP. Predicting drug polypharmacology from cell morphology readouts using variational autoencoder latent space arithmetic. PLoS Comput Biol. 2022;18(2):e1009888. doi:10.1371/journal.pcbi.1009888Google ScholarPubMedDOI
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PINES: phenotype-informed tissue weighting improves prediction of pathogenic noncoding variants.
Bodea CA, Mitchell AA, Bloemendal A, Day-Williams AG, Runz H, Sunyaev SR. PINES: phenotype-informed tissue weighting improves prediction of pathogenic noncoding variants. Genome Biol. 2018;19(1):173. doi:10.1186/s13059-018-1546-6Google ScholarPubMedDOI
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novoCaller: a Bayesian network approach for de novo variant calling from pedigree and population sequence data.
Mohanty AK, Vuzman D, Francioli L, et al. novoCaller: a Bayesian network approach for de novo variant calling from pedigree and population sequence data. Bioinformatics. 2019;35(7):1174-1180. doi:10.1093/bioinformatics/bty749Google ScholarPubMedDOI
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Three-dimensional genome structures of single diploid human cells.
Tan L, Xing D, Chang CH, Li H, Xie S. Three-dimensional genome structures of single diploid human cells. Science. 2018;361(6405):924-928. doi:10.1126/science.aat5641Google ScholarPubMedDOI
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The GCTx format and cmap{Py, R, M, J} packages: resources for optimized storage and integrated traversal of annotated dense matrices.
Enache OM, Lahr DL, Natoli TE, et al. The GCTx format and cmap{Py, R, M, J} packages: resources for optimized storage and integrated traversal of annotated dense matrices. Bioinformatics. 2019;35(8):1427-1429. doi:10.1093/bioinformatics/bty784Google ScholarPubMedDOI
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In March of 2020, Broad Institute converted a clinical genetics processing lab into a large-scale COVID-19 testing facility in less than two weeks.

We've screened more than 1,275 cancer cell lines as part of the Cancer Dependency Map (DepMap).

Broad Genomics Platform sequences a whole human genome every four minutes.

More than 11,000 individuals living with cancer in the United States and Canada have partnered with Count Me In to share their experiences and help accelerate cancer research.

The Drug Repurposing Hub is one of the most comprehensive and up-to-date biologically annotated collections of FDA-approved compounds in the world. Researchers anywhere can explore more than 6,000 drugs in the hub and search for possible new uses for them to jump-start new drug discovery.

In 2021, our sustainability efforts sent more than 80 percent of waste from the Genomics Platform to either a recycling facility or to an incineration plant that generates electricity.

Through Broad's Scientists in the Classroom program, Broad researchers visit every 8th grade classroom in Cambridge each year to talk about genetics and evolution.

Every summer, 18 high school students spend six weeks at Broad working side-by-side with mentors on cutting-edge research.

In November 2022, Broad’s Genomics Platform sequenced its 500,000th whole human genome, a mere four years after sequencing its 100,000th.

By the end of 2022, Broad’s COVID-19 testing lab had processed more than 37 million tests.

Working with Addgene, Broad Institute has shared CRISPR genome-editing reagents with researchers at more than 3,200 institutions in 76 countries.

The NeuroGAP-Psychosis project, a collaboration between the Stanley Center for Psychiatric Research and Harvard T.H. Chan School of Public Health to study the genetics of severe mental illness, has recruited more than 42,000 participants in Ethiopia, Kenya, Uganda, and South Africa.

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