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Laura Landweber

Research Profile

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TOP 3
Wenwen Fang; Laura F Landweber
RNA-mediated genome rearrangement: hypotheses and evidence.
John R Bracht; Egor Dolzhenko; Wenwen Fang; Aaron David Goldman; Elizabeth M Stein; Laura F Landweber
Genomes on the edge: programmed genome instability in ciliates.
Eugene V Koonin; Laura F Landweber; David Lipman
Biology direct: celebrating 7 years of open, published peer review.

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All Publications

2013: Wenwen Fang; Laura F Landweber
RNA-mediated genome rearrangement: hypotheses and evidence.
BioEssays : news and reviews in molecular, cellular and developmental biology 2013;35(2):84-7.
2013: John R Bracht; Egor Dolzhenko; Wenwen Fang; Aaron David Goldman; Elizabeth M Stein; Laura F Landweber
Genomes on the edge: programmed genome instability in ciliates.
Cell 2013;152(3):406-16.
2013: Eugene V Koonin; Laura F Landweber; David Lipman
Biology direct: celebrating 7 years of open, published peer review.
Biology direct 2013;8(1):11.
2013: Estienne C Swart; Jessica L Wiggins; Richard K Wilson; Yi Zhou; Michael S Bowen; John R Bracht; Wei-Jen Chang; Xiao Chen; Thomas G Doak; Sean R Eddy; Robert S Fulton; Aaron D Goldman; Kevin Haub; Glenn A Herrick; Thomas A Jones; Seolkyoung Jung; Jaspreet S Khurana; Amy Ly; vincent magrini; Elaine R Mardis; John Matese; Sean McGrath; Patrick J Minx; Mariusz Nowacki; Lance Parsons; Klaas Schotanus; Donna Storton; Nicholas A Stover; Laura F Landweber
The Oxytricha trifallax macronuclear genome: a complex eukaryotic genome with 16,000 tiny chromosomes.
PLoS biology 2013;11(1):e1001473.
2013: Aaron David Goldman; Tess M Bernhard; Egor Dolzhenko; Laura F Landweber
LUCApedia: a database for the study of ancient life.
Nucleic acids research 2013;41(Database issue):D1079-82.
2012: Wenwen Fang; Mariusz Nowacki; Xing Wang; John R Bracht; Laura F Landweber
Piwi-interacting RNAs protect DNA against loss during Oxytricha genome rearrangement.
Cell 2012;151(6):1243-55.
2012: Aaron David Goldman; Laura F Landweber
Oxytricha as a modern analog of ancient genome evolution.
Trends in genetics : TIG 2012;28(8):382-8.
2012: Stephen D Zoller; Estienne C Swart; Thomas G Doak; Robert L Hammersmith; Glenn Herrick; Brian P Higgins; Laura F Landweber
Characterization and taxonomic validity of the ciliate Oxytricha trifallax (Class Spirotrichea) based on multiple gene sequences: limitations in identifying genera solely by morphology.
Protist 2012;163(4):643-57.
2012: Wenwen Fang; Yibin Kang; Yong Wei; Laura F Landweber
Detection of a common chimeric transcript between human chromosomes 7 and 16.
Biology direct 2012;7():49.
2012: Estienne C Swart; Thomas G Doak; Brian P Higgins; Vincent J Magrini; Elaine R Mardis; Patrick J Minx; Mariusz Nowacki; Klaas Schotanus; Justine Shum; Heather Stiles; Laura F Landweber
The Oxytricha trifallax mitochondrial genome.
Genome biology and evolution 2012;4(2):136-54.
2011: Mariusz Nowacki; Keerthi Shetty; Laura F Landweber
RNA-Mediated Epigenetic Programming of Genome Rearrangements.
Annual review of genomics and human genetics 2011;12():367-89.
2011: Seolkyoung Jung; Laura F Landweber; vincent magrini; Elaine R Mardis; Patrick J Minx; Estienne C Swart; Sean R Eddy
Exploiting Oxytricha trifallax nanochromosomes to screen for non-coding RNA genes.
Nucleic acids research 2011;39(17):7529-47.
2010: Mariusz Nowacki; Joanna E Haye; Wenwen Fang; Vikram Vijayan; Laura F Landweber
RNA-mediated epigenetic regulation of DNA copy number.
Proceedings of the National Academy of Sciences of the United States of America 2010;107(51):22140-4.
2009: Mariusz Nowacki; Laura F Landweber
Epigenetic inheritance in ciliates.
Current opinion in microbiology 2009;12(6):638-43.
2009: Mariusz Nowacki; Brian P Higgins; Genevieve M Maquilan; Estienne C Swart; Thomas G Doak; Laura F Landweber
A functional role for transposases in a large eukaryotic genome.
Science (New York, N.Y.) 2009;324(5929):935-8.
2008: Mariusz Nowacki; Vikram Vijayan; Yi Zhou; Klaas Schotanus; Thomas G Doak; Laura F Landweber
RNA-mediated epigenetic programming of a genome-rearrangement pathway.
Nature 2008;451(7175):153-8.
2008: Guénola Ricard; Rob M de Graaf; Bas E Dutilh; I Duarte; Theo A van Alen; Angela Ham van Hoek; Brigitte Boxma; Georg W M van der Staay; Seung Yeo Moon-van der Staay; Wei-Jen Chang; Laura F Landweber; Johannes H P Hackstein; Martijn A Huynen
Macronuclear genome structure of the ciliate Nyctotherus ovalis: single-gene chromosomes and tiny introns.
BMC genomics 2008;9():587.
2008: Matthias Möllenbeck; Yi Zhou; Andre Cavalcanti; Franziska Jönsson; Brian P Higgins; Wei-Jen Chang; Stefan A Juranek; Thomas G Doak; Grzegorz Rozenberg; Hans J Lipps; Laura F Landweber
The pathway to detangle a scrambled gene.
PloS one 2008;3(6):e2330.
2007: Angela Angeleska; Natasa Jonoska; Masahico Saito; Laura F Landweber
RNA-guided DNA assembly.
Journal of theoretical biology 2007;248(4):706-20.
2007: Laura F Landweber
Genetics. Why genomes in pieces?
Science (New York, N.Y.) 2007;318(5849):405-7.
2007: Yi Zhou; Laura F Landweber
BLASTO: a tool for searching orthologous groups.
Nucleic acids research 2007;35(Web Server issue):W678-82.
2007: Han Liang; Laura F Landweber
Hypothesis: RNA editing of microRNA target sites in humans?
RNA (New York, N.Y.) 2007;13(4):463-7.
2007: Wei-Jen Chang; Victoria M Addis; Anya J Li; Elin Axelsson; David H Ardell; Laura F Landweber
Intron Evolution and Information processing in the DNA polymerase alpha gene in spirotrichous ciliates: a hypothesis for interconversion between DNA and RNA deletion.
Biology direct 2007;2():6.
2006: Han Liang; Weihua Zhou; Laura F Landweber
SWAKK: a web server for detecting positive selection in proteins using a sliding window substitution rate analysis.
Nucleic acids research 2006;34(Web Server issue):W382-4.
2006: Matthias Möllenbeck; Andre Cavalcanti; Franziska Jönsson; Hans J Lipps; Laura F Landweber
Interconversion of germline-limited and somatic DNA in a scrambled gene.
Journal of molecular evolution 2006;63(1):69-73.
2006: Andre Cavalcanti; Nicholas A Stover; Laura F Landweber
On the paucity of duplicated genes in Caenorhabditis elegans operons.
Journal of molecular evolution 2006;62(6):765-71.
2006: Craig P McFarland; Wei-Jen Chang; Shiuhyang Kuo; Laura F Landweber
Conserved linkage of two genes on the same macronuclear chromosome in spirotrichous ciliates.
Chromosoma 2006;115(2):129-38.
2006: Li Chin Wong; Laura F Landweber
Evolution of programmed DNA rearrangements in a scrambled gene.
Molecular biology and evolution 2006;23(4):756-63.
2006: Wei-Jen Chang; Shiuhyang Kuo; Laura F Landweber
A new scrambled gene in the ciliate Uroleptus.
Gene 2006;368():72-7.
2006: Han Liang; Laura F Landweber
A genome-wide study of dual coding regions in human alternatively spliced genes.
Genome research 2006;16(2):190-6.
2006: Eugene V Koonin; Laura F Landweber; David Lipman
A community experiment with fully open and published peer review.
Biology direct 2006;1():1.
2006: Shiuhyang Kuo; Wei-Jen Chang; Laura F Landweber
Complex germline architecture: two genes intertwined on two loci.
Molecular biology and evolution 2006;23(1):4-6.
2005: Wei-Jen Chang; Paul D Bryson; Han Liang; Myung K Shin; Laura F Landweber
The evolutionary origin of a complex scrambled gene.
Proceedings of the National Academy of Sciences of the United States of America 2005;102(42):15149-54.
2005: Han Liang; Laura F Landweber; Jacques R Fresco
Are stop codons recognized by base triplets in the large ribosomal RNA subunit?
RNA (New York, N.Y.) 2005;11(10):1478-84.
2005: Alexander V Vlassov; Sergei A Kazakov; Brian H Johnston; Laura F Landweber
The RNA world on ice: a new scenario for the emergence of RNA information.
Journal of molecular evolution 2005;61(2):264-73.
2005: Han Liang; Laura F Landweber
Molecular mimicry: quantitative methods to study structural similarity between protein and RNA.
RNA (New York, N.Y.) 2005;11(8):1167-72.
2005: Nicholas A Stover; Andre Cavalcanti; Anya J Li; Brian C Richardson; Laura F Landweber
Reciprocal fusions of two genes in the formaldehyde detoxification pathway in ciliates and diatoms.
Molecular biology and evolution 2005;22(7):1539-42.
2005: Alexander V Vlassov; Brian H Johnston; Laura F Landweber; Sergei A Kazakov
RNA catalysis in frozen solutions.
Doklady. Biochemistry and biophysics 2005;402():207-9.
2005: Han Liang; Jonathan Y Wong; Qing Bao; Andre Cavalcanti; Laura F Landweber
Decoding the decoding region: analysis of eukaryotic release factor (eRF1) stop codon-binding residues.
Journal of molecular evolution 2005;60(3):337-44.
2005: Han Liang; Andre Cavalcanti; Laura F Landweber
Conservation of tandem stop codons in yeasts.
Genome biology 2005;6(4):R31.
2005: Andre Cavalcanti; Thomas H Clarke; Laura F Landweber
MDS_IES_DB: a database of macronuclear and micronuclear genes in spirotrichous ciliates.
Nucleic acids research 2005;33(Database issue):D396-8.
2004: Andre Cavalcanti; Diane M Dunn; Robert Weiss; Glenn Herrick; Laura F Landweber; Thomas G Doak
Sequence features of Oxytricha trifallax (class Spirotrichea) macronuclear telomeric and subtelomeric sequences.
Protist 2004;155(3):311-22.
2004: Andre Cavalcanti; Nicholas A Stover; Lorenzo Orecchia; Thomas G Doak; Laura F Landweber
Coding properties of Oxytricha trifallax (Sterkiella histriomuscorum) macronuclear chromosomes: analysis of a pilot genome project.
Chromosoma 2004;113(2):69-76.
2004: Wei-Jen Chang; Nicholas A Stover; Victoria M Addis; Laura F Landweber
A micronuclear locus containing three protein-coding genes remains linked during macronuclear development in the spirotrichous ciliate Holosticha.
Protist 2004;155(2):245-55.
2004: Andre Cavalcanti; Laura F Landweber
Gene Unscrambler for detangling scrambled genes in ciliates.
Bioinformatics (Oxford, England) 2004;20(5):800-2.
2004: Andre Cavalcanti; Laura F Landweber
Genetic code.
Current biology : CB 2004;14(4):R147.
2004: Alexander V Vlassov; Brian H Johnston; Laura F Landweber; Sergei A Kazakov
Ligation activity of fragmented ribozymes in frozen solution: implications for the RNA world.
Nucleic acids research 2004;32(9):2966-74.
2003: David H Ardell; Catherine A Lozupone; Laura F Landweber
Polymorphism, recombination and alternative unscrambling in the DNA polymerase alpha gene of the ciliate Stylonychia lemnae (Alveolata; class Spirotrichea).
Genetics 2003;165(4):1761-77.
2003: Andre Cavalcanti; Laura F Landweber
Genetic code: what nature missed.
Current biology : CB 2003;13(22):R884-5.
2003: Thomas G Doak; Andre Cavalcanti; Nicholas A Stover; Diane M Dunn; Robert Weiss; Glenn Herrick; Laura F Landweber
Sequencing the Oxytricha trifallax macronuclear genome: a pilot project.
Trends in genetics : TIG 2003;19(11):603-7.
2003: Michael S Livstone; Danny van Noort; Laura F Landweber
Molecular computing revisited: a Moore's Law?
Trends in biotechnology 2003;21(3):98-101.
2002: Tamara L Horton; Laura F Landweber
Rewriting the information in DNA: RNA editing in kinetoplastids and myxomycetes.
Current opinion in microbiology 2002;5(6):620-6.
2002: Laura F Landweber
Custom codons come in threes, fours, and fives.
Chemistry & biology 2002;9(2):143.
2001: Robin D Knight; Laura F Landweber; M Yarus
How mitochondria redefine the code.
Journal of molecular evolution 2001;53(4-5):299-313.
2001: T A Ronneberg; Stephen J Freeland; Laura F Landweber
Genview and Gencode : a pair of programs to test theories of genetic code evolution.
Bioinformatics (Oxford, England) 2001;17(3):280-1.
2001: Catherine A Lozupone; Robin D Knight; Laura F Landweber
The molecular basis of nuclear genetic code change in ciliates.
Current biology : CB 2001;11(2):65-74.
2001: Robin D Knight; Stephen J Freeland; Laura F Landweber
A simple model based on mutation and selection explains trends in codon and amino-acid usage and GC composition within and across genomes.
Genome biology 2001;2(4):RESEARCH0010.
2001: Robin D Knight; Stephen J Freeland; Laura F Landweber
Rewiring the keyboard: evolvability of the genetic code.
Nature reviews. Genetics 2001;2(1):49-58.
2000: T A Ronneberg; Laura F Landweber; Stephen J Freeland
Testing a biosynthetic theory of the genetic code: fact or artifact?
Proceedings of the National Academy of Sciences of the United States of America 2000;97(25):13690-5.
2000: Tamara L Horton; Laura F Landweber
Mitochondrial RNAs of myxomycetes terminate with non-encoded 3' poly(U) tails.
Nucleic acids research 2000;28(23):4750-4.
2000: A J Ruben; Laura F Landweber
The past, present and future of molecular computing.
Nature reviews. Molecular cell biology 2000;1(1):69-72.
2000: Tamara L Horton; Laura F Landweber
Evolution of four types of RNA editing in myxomycetes.
RNA (New York, N.Y.) 2000;6(10):1339-46.
2000: Robin D Knight; Laura F Landweber
The early evolution of the genetic code.
Cell 2000;101(6):569-72.
2000: Robin D Knight; Laura F Landweber
Guilt by association: the arginine case revisited.
RNA (New York, N.Y.) 2000;6(4):499-510.
2000: Stephen J Freeland; Robin D Knight; Laura F Landweber; Laurence D Hurst
Early fixation of an optimal genetic code.
Molecular biology and evolution 2000;17(4):511-8.
2000: Laura F Landweber; T C Kuo; E A Curtis
Evolution and assembly of an extremely scrambled gene.
Proceedings of the National Academy of Sciences of the United States of America 2000;97(7):3298-303.
2000: D Faulhammer; A R Cukras; RJ Lipton; Laura F Landweber
Molecular computation: RNA solutions to chess problems.
Proceedings of the National Academy of Sciences of the United States of America 2000;97(4):1385-9.
2000: L A Katz; E A Curtis; M Pfunder; Laura F Landweber
Characterization of novel sequences from distantly related taxa by walking PCR.
Molecular phylogenetics and evolution 2000;14(2):318-21.
2000: Stephen J Freeland; Robin D Knight; Laura F Landweber
Measuring adaptation within the genetic code.
Trends in biochemical sciences 2000;25(2):44-5.
2000: D Faulhammer; RJ Lipton; Laura F Landweber
Fidelity of enzymatic ligation for DNA computing.
Journal of computational biology : a journal of computational molecular cell biology 2000;7(6):839-48.
2000: Lila Kari; Laura F Landweber
Computing with DNA.
Methods in molecular biology (Clifton, N.J.) 2000;132():413-30.
1999: Stephen J Freeland; Robin D Knight; Laura F Landweber
Do proteins predate DNA?
Science (New York, N.Y.) 1999;286(5440):690-2.
1999: D Faulhammer; RJ Lipton; Laura F Landweber
Counting DNA: estimating the complexity of a test tube of DNA.
Bio Systems 1999;52(1-3):193-6.
1999: A R Cukras; D Faulhammer; RJ Lipton; Laura F Landweber
Chess games: a model for RNA based computation.
Bio Systems 1999;52(1-3):35-45.
1999: Laura F Landweber; Lila Kari
The evolution of cellular computing: nature's solution to a computational problem.
Bio Systems 1999;52(1-3):3-13.
1999: Laura F Landweber
Testing ancient RNA-protein interactions.
Proceedings of the National Academy of Sciences of the United States of America 1999;96(20):11067-8.
1999: Laura F Landweber
The evolution of cellular computing.
The Biological bulletin 1999;196(3):324-5; discussion 325-6.
1999: Robin D Knight; Stephen J Freeland; Laura F Landweber
Selection, history and chemistry: the three faces of the genetic code.
Trends in biochemical sciences 1999;24(6):241-7.
1999: Robin D Knight; Laura F Landweber
Is the genetic code really a frozen accident? New evidence from in vitro selection.
Annals of the New York Academy of Sciences 1999;870():408-10.
1999: E A Curtis; Laura F Landweber
Evolution of gene scrambling in ciliate micronuclear genes.
Annals of the New York Academy of Sciences 1999;870():349-50.
1999: Laura F Landweber; I D Pokrovskaya
Emergence of a dual-catalytic RNA with metal-specific cleavage and ligase activities: the spandrels of RNA evolution.
Proceedings of the National Academy of Sciences of the United States of America 1999;96(1):173-8.
1998: Robin D Knight; Laura F Landweber
Rhyme or reason: RNA-arginine interactions and the genetic code.
Chemistry & biology 1998;5(9):R215-20.
1997: A T Orr; J C Rabets; T L Horton; Laura F Landweber
RNA editing missing in mitochondria.
RNA (New York, N.Y.) 1997;3(4):335-6.
1994: Laura F Landweber; Walter Gilbert
Phylogenetic analysis of RNA editing: a primitive genetic phenomenon.
Proceedings of the National Academy of Sciences of the United States of America 1994;91(3):918-21.
1993: Laura F Landweber; Alexander G Fiks; Walter Gilbert
The boundaries of partially edited transcripts are not conserved in kinetoplastids: implications for the guide RNA model of editing.
Proceedings of the National Academy of Sciences of the United States of America 1993;90(20):9242-6.
1993: Laura F Landweber; Walter Gilbert
RNA editing as a source of genetic variation.
Nature 1993;363(6425):179-82.
1993: Laura F Landweber; Martin Kreitman
Producing single-stranded DNA in polymerase chain reaction for direct genomic sequencing.
Methods in enzymology 1993;218():17-26.
1992: Laura F Landweber
The evolution of RNA editing in kinetoplastid protozoa.
Bio Systems 1992;28(1-3):41-5.
1989: Martin Kreitman; Laura F Landweber
A strategy for producing single-stranded DNA in the polymerase chain reaction. A direct method for genomic sequencing.
Gene analysis techniques 1989;6(4):84-8.