Author details

Full Name

David B Jaffe

Affiliation

ORCID

Career Start Year

2002

Papers

H Index

Expertise

CM4AI Collaborator

PMID	Paper Title	Journal Title	Published Year
37034676	Deep repertoire mining uncovers ultra-broad coronavirus neutralizing antibodies targeting multiple spike epitopes.		2023
29423234	Reference quality assembly of the 3.5-Gb genome of <i>Capsicum annuum</i> from a single linked-read library.	Hortic Res	2018
29610250	Corrigendum: Direct determination of diploid genome sequences.	Genome Res	2018
29474918	Dissecting the Causal Mechanism of X-Linked Dystonia-Parkinsonism by Integrating Genome and Transcriptome Assembly.	Cell	2018
28381613	Direct determination of diploid genome sequences.	Genome Res	2017
26944054	Evaluation of DISCOVAR de novo using a mosquito sample for cost-effective short-read genome assembly.	BMC Genomics	2016
25186727	The genomic substrate for adaptive radiation in African cichlid fish.	Nature	2014
25326702	Comprehensive variation discovery in single human genomes.	Nat Genet	2014
23718773	Characterizing and measuring bias in sequence data.	Genome Biol	2013
23870653	Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species.	Gigascience	2013
23598338	The African coelacanth genome provides insights into tetrapod evolution.	Nature	2013
23396133	Mutations causing medullary cystic kidney disease type 1 lie in a large VNTR in MUC1 missed by massively parallel sequencing.	Nat Genet	2013
23396013	Sensitive detection of somatic point mutations in impure and heterogeneous cancer samples.	Nat Biotechnol	2013
22481358	The genomic basis of adaptive evolution in threespine sticklebacks.	Nature	2012
22800726	Paired-end sequencing of Fosmid libraries by Illumina.	Genome Res	2012
22829535	Finished bacterial genomes from shotgun sequence data.	Genome Res	2012
22277967	Molecular diagnosis of infantile mitochondrial disease with targeted next-generation sequencing.	Sci Transl Med	2012
21993624	A high-resolution map of human evolutionary constraint using 29 mammals.	Nature	2011
21338519	Analyzing and minimizing PCR amplification bias in Illumina sequencing libraries.	Genome Biol	2011
21187386	High-quality draft assemblies of mammalian genomes from massively parallel sequence data.	Proc Natl Acad Sci U S A	2011
21926179	Assemblathon 1: a competitive assessment of de novo short read assembly methods.	Genome Res	2011
20179022	Integrative analysis of the melanoma transcriptome.	Genome Res	2010
20137071	A scalable, fully automated process for construction of sequence-ready barcoded libraries for 454.	Genome Biol	2010
19796385	ALLPATHS 2: small genomes assembled accurately and with high continuity from short paired reads.	Genome Biol	2009
19182786	Solution hybrid selection with ultra-long oligonucleotides for massively parallel targeted sequencing.	Nat Biotechnol	2009
19043412	High-resolution mapping of copy-number alterations with massively parallel sequencing.	Nat Methods	2009
19079253	Sensitive, specific polymorphism discovery in bacteria using massively parallel sequencing.	Nat Methods	2009
19712469	Assisted assembly: how to improve a de novo genome assembly by using related species.	Genome Biol	2009
18212088	Quality scores and SNP detection in sequencing-by-synthesis systems.	Genome Res	2008
18340039	ALLPATHS: de novo assembly of whole-genome shotgun microreads.	Genome Res	2008
18600261	Genome-scale DNA methylation maps of pluripotent and differentiated cells.	Nature	2008
17571346	Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project.	Nature	2007
17567995	Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome.	Genome Res	2007
17994087	Evolution of genes and genomes on the Drosophila phylogeny.	Nature	2007
17603471	Genome-wide maps of chromatin state in pluripotent and lineage-committed cells.	Nature	2007
17510324	Genome sequence of Aedes aegypti, a major arbovirus vector.	Science	2007
17159979	A genome-wide map of diversity in Plasmodium falciparum.	Nat Genet	2007
16421571	DNA sequence and analysis of human chromosome 8.	Nature	2006
16572171	Analysis of the DNA sequence and duplication history of human chromosome 15.	Nature	2006
16625196	DNA sequence of human chromosome 17 and analysis of rearrangement in the human lineage.	Nature	2006
16554811	Human chromosome 11 DNA sequence and analysis including novel gene identification.	Nature	2006
17080091	Insights from the genome of the biotrophic fungal plant pathogen Ustilago maydis.	Nature	2006
16341006	Genome sequence, comparative analysis and haplotype structure of the domestic dog.	Nature	2005
16012527	Facilitating genome navigation: survey sequencing and dense radiation-hybrid gene mapping.	Nat Rev Genet	2005
16077012	Assembly of polymorphic genomes: algorithms and application to Ciona savignyi.	Genome Res	2005
16177791	DNA sequence and analysis of human chromosome 18.	Nature	2005
15778292	An initial strategy for the systematic identification of functional elements in the human genome by low-redundancy comparative sequencing.	Proc Natl Acad Sci U S A	2005
15496914	Genome duplication in the teleost fish Tetraodon nigroviridis reveals the early vertebrate proto-karyotype.	Nature	2004
12712197	The genome sequence of the filamentous fungus Neurospora crassa.	Nature	2003
12529310	Whole-genome sequence assembly for mammalian genomes: Arachne 2.	Genome Res	2003