Interspersed repeats and other mementos of transposable elements in mammalian genomes

AFA Smit - Current opinion in genetics & development, 1999 - Elsevier
The bulk of the human genome is ultimately derived from transposable elements. Observations
in the past year lead to some new and surprising ideas on functions and consequences …

The origin of interspersed repeats in the human genome

AFA Smit - Current opinion in genetics & development, 1996 - Elsevier
Over a third of the human genome consists of interspersed repetitive sequences which are
primarily degenerate copies of transposable elements. In the past year, the identities of many …

[PDF][PDF] Comparative genomics of the human and mouse T cell receptor loci

…, L Rowen, I Lee, C Boysen, JC Roach, AFA Smit… - Immunity, 2001 - cell.com
The availability of the complete genomic sequences of the human and mouse T cell receptor
loci opens up new opportunities for understanding T cell receptors (TCRs) and their genes. …

The complete sequence of a human genome

…, K Shafin, CJ Shew, A Shumate, Y Sims, AFA Smit… - Science, 2022 - science.org
Since its initial release in 2000, the human reference genome has covered only the
euchromatic fraction of the genome, leaving important heterochromatic regions unfinished. …

Aligning multiple genomic sequences with the threaded blockset aligner

…, WJ Kent, C Riemer, L Elnitski, AFA Smit… - Genome …, 2004 - genome.cshlp.org
We define a “threaded blockset,” which is a novel generalization of the classic notion of a
multiple alignment. A new computer program called TBA (for “threaded blockset aligner”) …

Evolutionary and biomedical insights from the rhesus macaque genome

…, L Zhang, E Birney, K Han, MK Konkel, J Lee, AFA Smit… - science, 2007 - science.org
The rhesus macaque (Macaca mulatta) is an abundant primate species that diverged from
the ancestors of Homo sapiens about 25 million years ago. Because they are genetically and …

Analysis of genetic inheritance in a family quartet by whole-genome sequencing

JC Roach, G Glusman, AFA Smit, CD Huff, R Hubley… - Science, 2010 - science.org
We analyzed the whole-genome sequences of a family of four, consisting of two siblings
and their parents. Family-based sequencing allowed us to delineate recombination sites …

The UCSC genome browser database: 2015 update

…, N Nguyen, B Paten, BJ Raney, AFA Smit… - Nucleic acids …, 2015 - academic.oup.com
Launched in 2001 to showcase the draft human genome assembly, the UCSC Genome
Browser database ( http://genome.ucsc.edu ) and associated tools continue to grow, providing a …

[HTML][HTML] The genome of a songbird

…, XS Puente, T Olender, D Lancet, AFA Smit… - Nature, 2010 - nature.com
The zebra finch is an important model organism in several fields 1 , 2 with unique relevance
to human neuroscience 3 , 4 . Like other songbirds, the zebra finch communicates through …

[HTML][HTML] Comparative and demographic analysis of orang-utan genomes

…, MK Konkel, JA Walker, B Ullmer, MA Batzer, AFA Smit… - Nature, 2011 - nature.com
‘Orang-utan’ is derived from a Malay term meaning ‘man of the forest’ and aptly describes the
southeast Asian great apes native to Sumatra and Borneo. The orang-utan species, Pongo …