LaDeana Hillier,  McDonnell Genome Institute

Dr. LaDeana Hillier is an Assistant Director at the McDonnell Genome Institute and Senior Research Scientist in the Department of Genetics at Washington University School of Medicine, joining the department in 1989. She has been with the McDonnell Genome Institute since its inception. As Assistant Director of Informatics she has been responsible for all aspects of computational support for lab activities, user support and education, sequence analysis, submission of data to public repositories, grant preparation and publication. She has participated in software design, human sequence analysis and the sequence and analysis of various model genomes, including C. elegans, the mouse, chicken, chimpanzee and various plants and other animals.

As a participant in the Human Genome Project, Dr. Hillier was responsible for software, automation, analysis, networks and systems for the lab and played a key role in the development of the physical map of the genome. She was also responsible for the consolidation of the physical map and all genetic mapping data and existing sequence data to help maintain a non-redundant path through the genome. She supplied clones to all of the labs around the world sequencing the human genome, and helped with the interpretation of the resulting analyses. Her lab has also been responsible for helping to "finish" the human genome sequence, filling in gaps in unknown regions. Her current primary research interests are in integration of sequence and mapping data and in large-scale comparative genomic analysis. She continues to aid in the development of new methods for sequencing and analyzing genomes.

Publications

title citation publication date
A High-Resolution SNP Array-Based Linkage Map Anchors a New Domestic Cat Draft Genome Assembly and Provides Detailed Patterns of Recombination G3 (Bethesda). 2016 Jun 1;6(6):1607-16. doi: 10.1534/g3.116.028746 2016-06-01
Long-read sequence assembly of the gorilla genome. Science. 2016 Apr 1;352(6281):aae0344. doi: 10.1126/science.aae0344. 2016-04-01
The genome of the vervet (Chlorocebus aethiops sabaeus). Genome Res. 2015 Sep 16. pii: gr.192922.115. [Epub ahead of print] 2015-09-16
Comparative analysis of the domestic cat genome reveals genetic signatures underlying feline biology and domestication. Proc Natl Acad Sci U S A. 2014 Dec 2;111(48):17230-17235. Epub 2014 Nov 10. 2014-12-02
Gibbon genome and the fast karyotype evolution of small apes. Nature. 2014 Sep 11;513(7517):195-201. doi: 10.1038/nature13679. 2014-09-11
The common marmoset genome provides insight into primate biology and evolution. Nat Genet. 2014 Jul 20. doi: 10.1038/ng.3042. [Epub ahead of print] 2014-07-20
Elephant shark genome provides unique insights into gnathostome evolution. Nature. 2014 Jan 9;505(7482):174-9. doi: 10.1038/nature12826. 2014-01-09
The development and characterization of a 60K SNP chip for chicken. BMC Genomics. 2011 May 31;12(1):274. doi: 10.1186/1471-2164-12-274. 2011-05-31
The human genome: genes, pseudogenes, and variation on chromosome 7. Cold Spring Harb Symp Quant Biol. 2003;68:13-22. 2003-01-01
Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana. Nature. 1999 Dec 16;402(6763):769-77. 1998-12-16
Expressed sequence tags--ESTablishing bridges between genomes. Trends Genet. 1998 Jan;14(1):4-7. 1998-01-01
The genome of the nematode Caenorhabditis elegans. Cold Spring Harb Symp Quant Biol. 1993;58:367-76. 1993-01-01
The genome of the platyfish, Xiphophorus maculatus, provides insights into evolutionary adaptation and several complex traits. Nat Genet. 2013 Mar 31. doi: 10.1038/ng.2604. [Epub ahead of print] 2013-03-31
The western painted turtle genome, a model for the evolution of extreme physiological adaptations in a slowly evolving lineage. Genome Biol. 2013 Mar 28;14(3):R28. [Epub ahead of print] 2013-03-18
Lineage-specific biology revealed by a finished genome assembly of the mouse. PLoS Biol. 2009 May 5;7(5):e1000112. doi: 10.1371/journal.pbio.1000112. Epub 2009 May 26. 2009-05-05
Insights into hominid evolution from the gorilla genome sequence. Nature. 2012 Mar 7;483(7388):169-75. doi: 10.1038/nature10842. 2012-03-07
Analysis of the genome sequence of the flowering plant Arabidopsis thaliana Nature. 2000 Dec 14;408(6814):796-815. 2000-12-14
A vertebrate case study of the quality of assemblies derived from next-generation sequences. Genome Biol. 2011 Mar 31;12(3):R31. [Epub ahead of print] 2011-03-31
Comparative and demographic analysis of orang-utan genomes Nature. 2011 Jan 27;469(7331):529-33. 2011-01-27
Genome assembly quality: assessment and improvement using the neutral indel model. Genome Res. 2010 May;20(5):675-84. Epub 2010 Mar 19. 2010-05-18
The genome of a songbird. Nature. 2010 Apr 1;464(7289):757-62. 2010-04-01
A burst of segmental duplications in the genome of the African great ape ancestor. Nature. 2009 Feb 12;457(7231):877-81. 2009-02-12
DNA sequencing of a cytogenetically normal acute myeloid leukaemia (AML) genome. Nature. 2008 Nov 6;456(7218):66-72. 2008-11-06
Evolutionary toggling of the MAPT 17q21.31 inversion region. Nat Genet. 2008 Aug 10. [Epub ahead of print] 2008-08-10
Loss of genes implicated in gastric function during platypus evolution. Genome Biol. 2008;9(5):R81. Epub 2008 May 15. 2008-05-15
Genome analysis of the platypus reveals unique signatures of evolution. Nature. 2008 May 8;453(7192):175-83. 2008-05-08
Whole-genome sequencing and variant discovery in C. elegans. Nat Methods. 2008 Feb;5(2):183-8. Epub 2008 Jan 20. 2008-02-10
Evolution of genes and genomes on the Drosophila phylogeny. Nature. 2007 Nov 8;450(7167):203-218. 2007-11-08
Design and implementation of a generalized laboratory data model. BMC Bioinformatics. 2007 Sep 26;8(1):362 [Epub ahead of print] 2007-09-26
Comparison of C. elegans and C. briggsae Genome Sequences Reveals Extensive Conservation of Chromosome Organization and Synteny. PLoS Biol. 2007 Jul 3;5(7):e167 [Epub ahead of print] 2007-07-03
Evolutionary and biomedical insights from the rhesus macaque genome. Science. 2007 Apr 13;316(5822):222-34. 2007-04-13
A genetic variation map for chicken with 2.8 million single-nucleotide polymorphisms. Nature. 2004 Dec 9;432(7018):717-22. 2004-12-09
The DNA sequence of the human X chromosome. Nature. 2005 Mar 17;434(7031):325-37. 2005-03-17
Application of a superword array in genome assembly. Nucleic Acids Res. 2006 Jan 5;34(1):201-5. Print 2006. 2006-01-15
Physical map-assisted whole-genome shotgun sequence assemblies. Genome Res. 2006 Jun;16(6):768-75. 2006-06-01
Initial sequence of the chimpanzee genome and comparison with the human genome Nature. 2005 Sep 1;437(7055):69-87. 2005-09-01
Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes. Genome Res. 2005 Jul 15; 2005-07-15
A physical map of the chicken genome. Nature. 2004 Dec 9;432(7018):679-80. 2004-12-09
Generation and annotation of the DNA sequences of human chromosomes 2 and 4. Nature. 2005 Apr 7;434(7034):724-31. 2005-04-07
Automated processing of raw DNA sequence data. IEEE Eng Med Biol Mag. 2001 Jul-Aug;20(4):41-8. 2001-07-31
Molecular profiling of clinical tissues specimens: feasibility and applications. J Mol Diagn. 2000 May;2(2):60-6. 2000-05-01
A physical map of the mouse genome. Nature. 2002 Aug 15;418(6899):743-50. Epub 2002 Aug 04. 2002-08-15
The construction and analysis of M13 libraries prepared from YAC DNA. Nucleic Acids Res. 1995 Feb 25;23(4):670-4. 1995-02-25
Identification, characterization, and mapping of a mouse homolog of the gene mutated in Nijmegen breakage syndrome. Cytogenet Cell Genet. 1999;87(1-2):80-4. 1998-01-01
Comparative genomic sequence analysis of the human and mouse cystic fibrosis transmembrane conductance regulator genes. Proc Natl Acad Sci U S A. 2000 Feb 1;97(3):1172-7. 2000-02-01
The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes. Nature. 2003 Jun 19;423(6942):825-37. 2003-06-19
The Genome Sequence of Caenorhabditis briggsae: A Platform for Comparative Genomics. PLoS Biol. 2003 Nov;1(2):E45. Epub 2003 Nov 17. 2003-11-01
Initial sequencing and comparative analysis of the mouse genome. Nature. 2002 Dec 5;420(6915):520-62. 2002-12-05
2.2 Mb of contiguous nucleotide sequence from chromosome III of C. elegans. Nature. 1994 Mar 3;368(6466):32-8. 1994-03-03
A map of human genome sequence variation containing 1.42 million single nucleotide polymorphisms. Nature. 2001 Feb 15;409(6822):928-33. 2001-02-15
Initial sequencing and analysis of the human genome. Nature. 2001 Feb 15;409(6822):860-921. 2001-02-15
Surveying Saccharomyces genomes to identify functional elements by comparative DNA sequence analysis. Genome Res. 2001 Jul;11(7):1175-86. 2001-07-01
Software for automated analysis of DNA fingerprinting gels. Genome Res. 2003 May;13(5):940-53. 2003-05-01
The DNA sequence of human chromosome 7. Nature. 2003 Jul 10;424(6945):157-64. 2003-07-10
Genomic DNA sequencing methods. Methods Cell Biol. 1995;48:551-69. Review. 1995-01-01
Large-scale complementary DNA sequencing methods. Methods Cell Biol. 1995;48:571-82. Review. 1995-01-01
Generation and analysis of 280,000 human expressed sequence tags. Genome Res. 1996 Sep;6(9):807-28. 1996-09-01
The nucleotide sequence of Saccharomyces cerevisiae chromosome XII. Nature. 1997 May 29;387(6632 Suppl):87-90. 1997-05-29
High throughput fingerprint analysis of large-insert clones. Genome Res. 1997 Nov;7(11):1072-84. 1997-11-01
Automated sequence preprocessing in a large-scale sequencing environment. Genome Res. 1998 Sep;8(9):975-84. 1998-09-01
Genome sequence of the nematode C. elegans: a platform for investigating biology. The C. elegans Sequencing Consortium. Science. 1998 Dec 11;282(5396):2012-8. Review. Erratum in: Science 1999 Jan 1;283(5398):35. Science 1999 Mar 26;283(5410):2103. Science 1999 Sep 3;285(5433):1493. 1998-12-10
An encyclopedia of mouse genes. Nat Genet. 1999 Feb;21(2):191-4. 1999-02-01
Changes in gene expression associated with developmental arrest and longevity in Caenorhabditis elegans. Genome Res. 2001 Aug;11(8):1346-52. 2001-08-01
Complete nucleotide sequence of Saccharomyces cerevisiae chromosome VIII. Science. 1994 Sep 30;265(5181):2077-82. 1994-09-01
High-throughput plasmid DNA purification for 3 cents per sample. Nucleic Acids Res. 1999 Dec 15;27(24):e37. 1999-12-15
Alu and L1 sequence distributions in Xq24-q28 and their comparative utility in YAC contig assembly and verification. Genomics. 1993 May;16(2):417-25. 1993-05-01
Ancient conserved regions in new gene sequences and the protein databases. Science. 1993 Mar 19;259(5102):1711-6. 1993-03-19
Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution Nature. 2004 Dec 9;432(7018):695-716. 2004-12-10
Finishing the euchromatic sequence of the human genome Nature. 2004 Oct 21;431(7011):931-45. 2004-10-21
A general approach to single-nucleotide polymorphism discovery. Nat Genet. 1999 Dec;23(4):452-6. 1999-12-01
OSP: a computer program for choosing PCR and DNA sequencing primers. PCR Methods Appl. 1991 Nov;1(2):124-8. 1991-11-01
A trace display and editing program for data from fluorescence based sequencing machines. Nucleic Acids Res. 1991 Dec 11;19(23):6481-3. 1991-12-11
The C. elegans genome sequencing project: a beginning. Nature. 1992 Mar 5;356(6364):37-41. 1992-03-05
A survey of expressed genes in Caenorhabditis elegans. Nat Genet. 1992 May;1(2):114-23. 1992-05-01
Lane tracking software for four-color fluorescence-based electrophoretic gel images. Genome Res. 1996 Nov;6(11):1110-7. 1996-11-01
The homozygous complete hydatidiform mole: a unique resource for genome studies. Genomics. 1997 Dec 1;46(2):307-10. 1997-12-01
Gene discovery by EST sequencing in Toxoplasma gondii reveals sequences restricted to the Apicomplexa. Genome Res. 1998 Jan;8(1):18-28. 1998-12-31
Expressed sequence tag analysis of the bradyzoite stage of Toxoplasma gondii: identification of developmentally regulated genes. Infect Immun. 1998 Apr;66(4):1632-7. 1998-04-01
Base-calling of automated sequencer traces using phred. I. Accuracy assessment. Genome Res. 1998 Mar;8(3):175-85. 1998-02-28
Sequence assembly with CAFTOOLS. Genome Res. 1998 Mar;8(3):260-7. 1998-03-01
Overlapping genomic sequences: a treasure trove of single-nucleotide polymorphisms. Genome Res. 1998 Jul;8(7):748-54. 1998-07-01
Single nucleotide polymorphism hunting in cyberspace. Hum Mutat. 1998;12(4):221-5. 1998-12-31
DNA sequence chromatogram browsing using JAVA and CORBA. Genome Res. 1999 Mar;9(3):277-81. 1999-02-28
The DNA sequence and analysis of human chromosome 14. Nature. 2003 Feb 6;421(6923):601-7. Epub 2003 Jan 01. 2003-02-06
Theories and applications for sequencing randomly selected clones. Genome Res. 2001 Feb;11(2):274-80. 2001-02-01
PCAP: a whole-genome assembly program. Genome Res. 2003 Sep;13(9):2164-70. 2003-08-31
Integrated and sequence-ordered BAC- and YAC-based physical maps for the rat genome. Genome Res. 2004 Apr;14(4):766-79. 2004-04-01
A physical map of the human genome. Nature. 2001 Feb 15;409(6822):934-41. 2001-02-15