Multiplex targeted sequencing identifies recurrently mutated genes in autism spectrum disorders

…, R Levy, DR O'Day, N Krumm, BP Coe, BK Martin… - Science, 2012 - science.org
Exome sequencing studies of autism spectrum disorders (ASDs) have identified many de
novo mutations but few recurrently disrupted genes. We therefore developed a modified …

[HTML][HTML] Embryo model completes gastrulation to neurulation and organogenesis

…, C Qiu, J De Jonghe, H Greenfeld, M Tran, BK Martin… - Nature, 2022 - nature.com
Embryonic stem (ES) cells can undergo many aspects of mammalian embryogenesis in vitro
1 , 2 , 3 , 4 – 5 , but their developmental potential is substantially extended by interactions …

The haplotype-resolved genome and epigenome of the aneuploid HeLa cancer cell line

…, JN Burton, JO Kitzman, JB Hiatt, AP Lewis, BK Martin… - Nature, 2013 - nature.com
The HeLa cell line was established in 1951 from cervical cancer cells taken from a patient,
Henrietta Lacks. This was the first successful attempt to immortalize human-derived cells in …

[HTML][HTML] Systematic reconstruction of cellular trajectories across mouse embryogenesis

C Qiu, J Cao, BK Martin, T Li, IC Welsh, S Srivatsan… - Nature …, 2022 - nature.com
Mammalian embryogenesis is characterized by rapid cellular proliferation and diversification.
Within a few weeks, a single-cell zygote gives rise to millions of cells expressing a panoply …

Optimized single-nucleus transcriptional profiling by combinatorial indexing

BK Martin, C Qiu, E Nichols, M Phung… - Nature protocols, 2023 - nature.com
Single-cell combinatorial indexing RNA sequencing (sci-RNA-seq) is a powerful method for
recovering gene expression data from an exponentially scalable number of individual cells …

MIPgen: optimized modeling and design of molecular inversion probes for targeted resequencing

EA Boyle, BJ O'Roak, BK Martin, A Kumar… - …, 2014 - academic.oup.com
Molecular inversion probes (MIPs) enable cost-effective multiplex targeted gene resequencing
in large cohorts. However, the design of individual MIPs is a critical parameter governing …

Novel approach to genetic analysis and results in 3000 hemophilia patients enrolled in the My Life, Our Future initiative

…, SN Fletcher, H Huston, S Roberge, BK Martin… - Blood …, 2017 - ashpublications.org
Hemophilia A and B are rare, X-linked bleeding disorders. My Life, Our Future (MLOF) is a
collaborative project established to genotype and study hemophilia. Patients were enrolled at …

[HTML][HTML] Chromatin context-dependent regulation and epigenetic manipulation of prime editing

X Li, W Chen, BK Martin, D Calderon, C Lee, J Choi… - Cell, 2023 - cell.com
We set out to exhaustively characterize the impact of the cis-chromatin environment on prime
editing, a precise genome engineering tool. Using a highly sensitive method for mapping …

[HTML][HTML] Massively parallel characterization of transcriptional regulatory elements in three diverse human cell types

V Agarwal, F Inoue, M Schubach, BK Martin, PM Dash… - bioRxiv, 2023 - ncbi.nlm.nih.gov
The human genome contains millions of candidate cis-regulatory elements (CREs) with cell-type-specific
activities that shape both health and myriad disease states. However, we lack a …

[HTML][HTML] A single-cell transcriptional timelapse of mouse embryonic development, from gastrula to pup

C Qiu, BK Martin, IC Welsh, RM Daza, TM Le, X Huang… - bioRxiv, 2023 - ncbi.nlm.nih.gov
The house mouse, Mus musculus, is an exceptional model system, combining genetic
tractability with close homology to human biology. Gestation in mouse development lasts just …