Luis A. Barrera
Pontifical Xavierian University
Publications 40
#1Josh Tycko (Stanford University)H-Index: 4
#2Luis A. BarreraH-Index: 17
Last.Patrick Hsu (Salk Institute for Biological Studies)H-Index: 17
view all 10 authors...
The original HTML version of this Article incorrectly listed an affiliation of Josh Tycko as ‘Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA’, instead of the correct ‘Present address: Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA’. It also incorrectly listed an affiliation of this author as ‘Present address: Arrakis Therapeutics, 35 Gatehouse Dr., Waltham, MA, 02451, USA’.The original HTML version incorrectly list...
1 CitationsSource
#1Georgia GiannoukosH-Index: 20
#2Dawn CiullaH-Index: 10
Last.Christine D. WilsonH-Index: 62
view all 14 authors...
Background Understanding the diversity of repair outcomes after introducing a genomic cut is essential for realizing the therapeutic potential of genomic editing technologies. Targeted PCR amplification combined with Next Generation Sequencing (NGS) or enzymatic digestion, while broadly used in the genome editing field, has critical limitations for detecting and quantifying structural variants such as large deletions (greater than approximately 100 base pairs), inversions, and translocations.
5 CitationsSource
#1Josh Tycko (Stanford University)H-Index: 4
#2Luis A. BarreraH-Index: 17
Last.Patrick Hsu (Salk Institute for Biological Studies)H-Index: 17
view all 10 authors...
Therapeutic genome editing with Staphylococcus aureus Cas9 (SaCas9) requires a rigorous understanding of its potential off-target activity in the human genome. Here we report a high-throughput screening approach to measure SaCas9 genome editing variation in human cells across a large repertoire of 88,692 single guide RNAs (sgRNAs) paired with matched or mismatched target sites in a synthetic cassette. We incorporate randomized barcodes that enable whitelisting of correctly synthesized molecules ...
8 CitationsSource
1 Citations
#1Luca Mariani (Brigham and Women's Hospital)H-Index: 2
#2Kathryn Weinand (Brigham and Women's Hospital)H-Index: 1
Last.Martha L. BulykH-Index: 50
view all 5 authors...
Summary Transcription factors (TFs) control cellular processes by binding specific DNA motifs to modulate gene expression. Motif enrichment analysis of regulatory regions can identify direct and indirect TF binding sites. Here, we created a glossary of 108 non-redundant TF-8mer "modules" of shared specificity for 671 metazoan TFs from publicly available and new universal protein binding microarray data. Analysis of 239 ENCODE TF chromatin immunoprecipitation sequencing datasets and associated RN...
12 CitationsSource
#1Christine D. WilsonH-Index: 62
#2Timothy FennellH-Index: 30
Last.Vic E. MyerH-Index: 9
view all 14 authors...
The recent correspondence to the Editor of Nature Methods by Schaefer et. al. has garnered significant attention since its publication as a result of its strong conclusions contradicting numerous publications in the field using similar analytical approaches and methods. The authors suggest that the CRISPR-Cas9 system is highly mutagenic in genomic regions not expected to be targeted by the gRNA. Based on experimental design and a re-analysis of the primary data, we believe that the conclusions d...
11 CitationsSource
#1Anne BothmerH-Index: 3
#2Tanushree PhadkeH-Index: 3
Last.Cecilia Cotta-RamusinoH-Index: 10
view all 12 authors...
CRISPR-Cas9 has rapidly become a common molecular biology tool for modifying genomes and has been modified to generate single-strand nicks as well as double-strand breaks. Here the authors explore the DNA repair pathways activated by the different variants of Cas9.
61 CitationsSource
#1Bradlee Nelms (Harvard University)H-Index: 2
#2Levi Waldron (CUNY: City University of New York)H-Index: 26
Last.Wayne I. Lencer (Harvard University)H-Index: 61
view all 14 authors...
We present a sensitive approach to predict genes expressed selectively in specific cell types, by searching publicly available expression data for genes with a similar expression profile to known cell-specific markers. Our method, CellMapper, strongly outperforms previous computational algorithms to predict cell type-specific expression, especially for rare and difficult-to-isolate cell types. Furthermore, CellMapper makes accurate predictions for human brain cell types that have never been isol...
9 CitationsSource
#1Angela Johana Espejo Mojica (Pontifical Xavierian University)H-Index: 1
#2Angela Mosquera (Pontifical Xavierian University)H-Index: 4
Last.Luis A. Barrera (Pontifical Xavierian University)H-Index: 17
view all 8 authors...
β -hexosaminidases (Hex) are dimeric enzymes involved in the lysosomal degradation of glycolipids and glycans. They are formed by α - and/or β -subunits encoded by HEXA and HEXB genes, respectively. Mutations in these genes lead to Tay Sachs or Sandhoff diseases, which are neurodegenerative disorders caused by the accumulation of non-degraded glycolipids. Although tissue-derived Hex have been widely characterized, limited information is available for recombinant β -hexosaminidases. In this study...
3 CitationsSource
Mucopolysaccharidosis IV A (MPS IV A, Morquio A disease) is a lysosomal storage disease (LSD) produced by mutations on N-acetylgalactosamine-6-sulfate sulfatase (GALNS). Recently an enzyme replacement therapy (ERT) for this disease was approved using a recombinant enzyme produced in CHO cells. Previously, we reported the production of an active GALNS enzyme in Escherichia coli that showed similar stability properties to that of a recombinant mammalian enzyme though it was not taken-up by culture...
13 CitationsSource