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Richmond Todd

Research Profile

Devices

Oligonucleotide Array Sequence Analysis

Genes & Molecular Sequences

Living Beings

Arabidopsis

Phenomena

Nucleic Acid Hybridization

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Chemicals & Drugs

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X Hong; T J Albert; F Bolei; J M Comeron; Harshavardhan Doddapaneni; H A Halvensleben; R Metpally; C Y Nien; Richmond Todd; M J Rodesch; J R Manak
Microarray-based capture of novel expressed cell type-specific transfrags (CoNECT) to annotate tissue-specific transcription in Drosophila melanogaster.
J Kenneth Baillie; Mark W Barnett; Paul M Brennan; piero carninci; Fioravante De Sapio; Mark Fell; Thomas C Freeman; Daniel J Gerhardt; Stefano Gustincich; Peter Heutink; David A Hume; Jeffrey A Jeddeloh; John S Mattick; Richmond Todd; Patrizia Rizzu; Sarah Smith; Richard T Talbot; Kyle R Upton; Geoffrey J Faulkner
Somatic retrotransposition alters the genetic landscape of the human brain.
Matthew N Bainbridge; Min Wang; Daniel L Burgess; Christie Kovar; Matthew J Rodesch; Mark D'Ascenzo; Jacob Kitzman; Yuan-Qing Wu; Irene Newsham; Richmond Todd; Jeffrey A Jeddeloh; Donna M Muzny; Thomas J Albert; Richard A Gibbs
Whole exome capture in solution with 3 Gbp of data.

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All Publications

2012: X Hong; T J Albert; F Bolei; J M Comeron; Harshavardhan Doddapaneni; H A Halvensleben; R Metpally; C Y Nien; Richmond Todd; M J Rodesch; J R Manak
Microarray-based capture of novel expressed cell type-specific transfrags (CoNECT) to annotate tissue-specific transcription in Drosophila melanogaster.
G3 (Bethesda, Md.) 2012;2(8):873-82.
2011: J Kenneth Baillie; Mark W Barnett; Paul M Brennan; piero carninci; Fioravante De Sapio; Mark Fell; Thomas C Freeman; Daniel J Gerhardt; Stefano Gustincich; Peter Heutink; David A Hume; Jeffrey A Jeddeloh; John S Mattick; Richmond Todd; Patrizia Rizzu; Sarah Smith; Richard T Talbot; Kyle R Upton; Geoffrey J Faulkner
Somatic retrotransposition alters the genetic landscape of the human brain.
Nature 2011;479(7374):534-7.
2010: Matthew N Bainbridge; Min Wang; Daniel L Burgess; Christie Kovar; Matthew J Rodesch; Mark D'Ascenzo; Jacob Kitzman; Yuan-Qing Wu; Irene Newsham; Richmond Todd; Jeffrey A Jeddeloh; Donna M Muzny; Thomas J Albert; Richard A Gibbs
Whole exome capture in solution with 3 Gbp of data.
Genome biology 2010;11(6):R62.
2009: Matthew J Walter; Jacqueline E Payton; Rhonda E Ries; William D Shannon; Hrishikesh Deshmukh; Yu Zhao; Jack Baty; Sharon Heath; Peter Westervelt; Mark A Watson; Michael H Tomasson; Rakesh Nagarajan; Brian P O'Gara; Clara D Bloomfield; Krzysztof Mrózek; Rebecca R Selzer; Richmond Todd; Jacob Kitzman; Joel Geoghegan; Peggy S Eis; Rachel Maupin; Robert S Fulton; Michael D McLellan; Richard K Wilson; Elaine R Mardis; Daniel C Link; Timothy A Graubert; John F DiPersio; Timothy J Ley
Acquired copy number alterations in adult acute myeloid leukemia genomes.
Proceedings of the National Academy of Sciences of the United States of America 2009;106(31):12950-5.
2008: Reid Thompson; Mark Reimers; Batbayar Khulan; Mathieu Gissot; Richmond Todd; Quan Chen; Xin Zheng; Kami Kim; John M Greally
An analytical pipeline for genomic representations used for cytosine methylation studies.
Bioinformatics (Oxford, England) 2008;24(9):1161-7.
2008: Patrick Cahan; Laura E Godfrey; Peggy S Eis; Richmond Todd; Rebecca R Selzer; Michael Brent; howard mcleod; Timothy J Ley; Timothy A Graubert
wuHMM: a robust algorithm to detect DNA copy number variation using long oligonucleotide microarray data.
Nucleic acids research 2008;36(7):e41.
2008: Petra Matejková; Michal Strouhal; David Smajs; Steven J Norris; Timothy Palzkill; Joseph F Petrosino; Erica Sodergren; Jason E Norton; Jaz Singh; Richmond Todd; Michael N Molla; Thomas J Albert; George Weinstock
Complete genome sequence of Treponema pallidum ssp. pallidum strain SS14 determined with oligonucleotide arrays.
BMC microbiology 2008;8():76.
2007: Thomas J Albert; Michael Molla; Donna M Muzny; Lynne Nazareth; David Wheeler; Xingzhi Song; Richmond Todd; Chris M Middle; Matthew J Rodesch; Charles J Packard; George Weinstock; Richard A Gibbs
Direct selection of human genomic loci by microarray hybridization.
Nature methods 2007;4(11):903-5.
2007: Ewan Birney; John A Stamatoyannopoulos; Anindya Dutta; Roderic Guigó; Thomas Gingeras; Elliott H Margulies; Zhiping Weng; Michael Snyder; Emmanouil T Dermitzakis; Robert E Thurman; Michael S Kuehn; Christopher M Taylor; Shane Neph; Christoph M Koch; Saurabh Asthana; Ankit Malhotra; Ivan Adzhubei; Jason A Greenbaum; Robert M Andrews; Paul Flicek; Patrick J Boyle; Hua Cao; Nigel P Carter; Gayle K Clelland; Sean Davis; Nathan Day; Pawandeep Dhami; Shane C Dillon; Michael O Dorschner; Heike Fiegler; Paul G Giresi; Jeff Goldy; Michael Hawrylycz; Andrew Haydock; Richard Humbert; Keith D James; Brett E Johnson; Ericka M Johnson; Tristan T Frum; Elizabeth R Rosenzweig; Neerja Karnani; Kirsten Lee; Gregory C Lefebvre; Patrick A Navas; Fidencio Neri; Stephen C J Parker; Peter J Sabo; Richard Sandstrom; Anthony Shafer; David Vetrie; Molly Weaver; Sarah Wilcox; Man Yu; Francis S Collins; Job Dekker; Jason Dillon Lieb; Thomas D Tullius; Gregory E Crawford; Shamil Sunyaev; William S Noble; Ian Dunham; France Denoeud; Alexandre Reymond; Philipp Kapranov; Joel Rozowsky; Deyou Zheng; Robert Castelo; Adam Frankish; Jennifer Harrow; Srinka Ghosh; Albin Sandelin; Ivo L Hofacker; Robert Baertsch; Damian Keefe; Sujit Dike; Jill Cheng; Heather A. Hirsch; Edward A Sekinger; Julien Lagarde; Josep F Abril; Atif Shahab; Christoph Flamm; Claudia Fried; Jorg Hackermuller; Jana Hertel; Manja Lindemeyer; Kristin Missal; Andrea Tanzer; Stefan Washietl; Jan Korbel; Olof Emanuelsson; Jakob S Pedersen; Nancy Holroyd; Ruth Taylor; David Swarbreck; Nicholas Matthews; Mark C Dickson; Daryl J Thomas; Matthew T Weirauch; James Gilbert; Jorg Drenkow; Ian Bell; XiaoDong Zhao; K G Srinivasan; Wing-Kin Sung; Hong Sain Ooi; Kuo Ping Chiu; Sylvain Foissac; Tyler Alioto; Michael Brent; Lior Pachter; Michael L Tress; Alfonso Valencia; Siew Woh Choo; Chiou Yu Choo; Catherine Ucla; Caroline Manzano; Carine Wyss; Evelyn Cheung; Taane G Clark; James B Brown; Madhavan Ganesh; Sandeep Patel; Hari Tammana; Jacqueline Chrast; Charlotte N Henrichsen; Chikatoshi Kai; Jun Kawai; Ugrappa Nagalakshmi; Jiaqian Wu; Zheng Lian; Jin Lian; Peter Newburger; Xueqing Zhang; Peter Bickel; John S Mattick; piero carninci; Yoshihide Hayashizaki; Sherman Weissman; Tim Hubbard; Richard Myers; Jane Rogers; Peter F Stadler; Todd M Lowe; Chia-Lin Wei; Yijun Ruan; Kevin Struhl; Mark Gerstein; Stylianos Antonarakis; Yutao Fu; Eric Green; Ulaş Karaöz; Adam Siepel; James TAYLOR; Laura A Liefer; Kris A Wetterstrand; Peter J Good; Elise A Feingold; Mark S Guyer; Gregory Cooper; George Asimenos; Colin N Dewey; Minmei Hou; Sergey Nikolaev; Juan I Montoya-Burgos; Ari Löytynoja; Simon Whelan; Fabio Pardi; Tim Massingham; Haiyan Huang; Nancy R Zhang; Ian Holmes; James C Mullikin; Abel Ureta-Vidal; Benedict Paten; Michael Seringhaus; Deanna Church; Kate Rosenbloom; W James Kent; Eric A Stone; Serafim Batzoglou; Nick Goldman; Ross C Hardison; David Haussler; Webb Miller; Arend Sidow; Nathan D Trinklein; Zhengdong D Zhang; Leah Barrera; Rhona Stuart; David C King; Adam Ameur; Stefan Enroth; Mark C Bieda; Jonghwan Kim; Akshay A Bhinge; Nan Jiang; Jun Liu; Fei Yao; Vinsensius B Vega; Charlie W H Lee; Patrick Ng; Atif Shahab; Annie Yang; Zarmik Moqtaderi; Zhou Zhu; Xiaoqin Xu; Sharon Squazzo; Matthew J Oberley; David Inman; Michael A Singer; Richmond Todd; Kyle J Munn; Alvaro Rada-Iglesias; Ola Wallerman; Jan Komorowski; Joanna C Fowler; Phillippe Couttet; Alexander W Bruce; Oliver M Dovey; Peter D Ellis; Cordelia F Langford; David A Nix; Ghia Euskirchen; Stephen Hartman; Alexander E Urban; Peter Kraus; Sara Van Calcar; Nate Heintzman; Tae Hoon Kim; Kun Wang; Chunxu Qu; Gary Hon; Rosa Luna; Christopher K Glass; M Geoff Rosenfeld; Shelley Force Aldred; Sara J Cooper; Anason Halees; Jane M Lin; Hennady P Shulha; Xiaoling Zhang; Mousheng Xu; Jaafar N S Haidar; Yong Yu; Yijun Ruan; Vishwanath R Iyer; Roland D Green; Claes Wadelius; Peggy J Farnham; Bing Ren; Rachel A Harte; Angie S Hinrichs; Heather Trumbower; Hiram Clawson; Jennifer Hillman-Jackson; Ann S Zweig; Kayla Smith; Archana Thakkapallayil; Galt Barber; Robert M Kuhn; Donna Karolchik; Lluis Armengol; Christine P Bird; Paul I W de Bakker; Andrew D Kern; Nuria Lopez-Bigas; Joel D Martin; Barbara E Stranger; Abigail Woodroffe; Eugene Davydov; Antigone Dimas; Eduardo Eyras; Ingileif B Hallgrímsdóttir; Julian Huppert; Michael C Zody; Goncalo Abecasis; Xavier Estivill; Gerard G Bouffard; Xiaobin Guan; Nancy F Hansen; Jacquelyn R Idol; Valerie V B Maduro; Baishali Maskeri; Jennifer C McDowell; Morgan Park; Pamela J Thomas; Alice C Young; Robert W Blakesley; Donna M Muzny; Erica Sodergren; David A Wheeler; Kim C Worley; Huaiyang Jiang; George Weinstock; Richard A Gibbs; Tina Graves; Robert Fulton; Elaine R Mardis; Richard K Wilson; Michele Clamp; James Cuff; Sante Gnerre; David B Jaffe; Jean L Chang; Kerstin Lindblad-Toh; Eric S Lander; Maxim Koriabine; Mikhail Nefedov; Kazutoyo Osoegawa; Yuko Yoshinaga; Baoli Zhu; Pieter J de Jong
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project.
Nature 2007;447(7146):799-816.
2007: Jason S Maydan; Stephane Flibotte; Mark L Edgley; Joanne Lau; Rebecca R Selzer; Richmond Todd; Nathan J Pofahl; James H Thomas; Donald G Moerman
Efficient high-resolution deletion discovery in Caenorhabditis elegans by array comparative genomic hybridization.
Genome research 2007;17(3):337-47.
2007: Timothy A Graubert; Patrick Cahan; Deepa Edwin; Rebecca R Selzer; Richmond Todd; Peggy S Eis; William D Shannon; Xia Li; howard mcleod; James M Cheverud; Timothy J Ley
A high-resolution map of segmental DNA copy number variation in the mouse genome.
PLoS genetics 2007;3(1):e3.
2007: Mark R McCormick; Rebecca R Selzer; Richmond Todd
Methods in high-resolution, array-based comparative genomic hybridization.
Methods in molecular biology (Clifton, N.J.) 2007;381():189-211.
2007: Susan M Gribble; Dimitrios Kalaitzopoulos; Deborah C Burford; Elena Prigmore; Rebecca R Selzer; Bee Ling Ng; N S W Matthews; Keith Michael Porter; R Curley; Sarah J Lindsay; J Baptista; Richmond Todd; Nigel P Carter
Ultra-high resolution array painting facilitates breakpoint sequencing.
Journal of medical genetics 2007;44(1):51-8.
2006: Josée Dostie; Richmond Todd; Ramy A Arnaout; Rebecca R Selzer; William L Lee; Tracey A Honan; Eric D Rubio; Anton Krumm; Justin Lamb; Chad Nusbaum; Roland D Green; Job Dekker
Chromosome Conformation Capture Carbon Copy (5C): a massively parallel solution for mapping interactions between genomic elements.
Genome research 2006;16(10):1299-309.
2006: andrew sharp; Sierra Hansen; Rebecca R Selzer; Ze Cheng; Regina Regan; Jane A Hurst; Helen Stewart; Sue M Price; Edward Blair; Raoul Hennekam; Carrie A Fitzpatrick; Richard Segraves; Richmond Todd; Cheryl Guiver; Donna G Albertson; Daniel Pinkel; Peggy S Eis; Stuart Schwartz; Samantha J L Knight; Evan E Eichler
Discovery of previously unidentified genomic disorders from the duplication architecture of the human genome.
Nature genetics 2006;38(9):1038-42.
2006: G M Rice; Z Qi; Rebecca Selzer; Richmond Todd; K Thompson; Richard M Pauli; J Yu
Microdissection-based high-resolution genomic array analysis of two patients with cytogenetically identical interstitial deletions of chromosome 1q but distinct clinical phenotypes.
American journal of medical genetics. Part A 2006;140(15):1637-43.
2006: Batbayar Khulan; Reid Thompson; Qian Ye; Melissa Fazzari; Masako Suzuki; Edyta Stasiek; Maria E Figueroa; Jacob L Glass; Quan Chen; Cristina Montagna; Eli Hatchwell; Rebecca R Selzer; Richmond Todd; Roland D Green; Ari Melnick; John M Greally
Comparative isoschizomer profiling of cytosine methylation: the HELP assay.
Genome research 2006;16(8):1046-55.
2006: Françoise Thibaud-Nissen; Hank Wu; Richmond Todd; Julia C Redman; Christopher Johnson; Roland Green; Jonathan Arias; Christopher D Town
Development of Arabidopsis whole-genome microarrays and their application to the discovery of binding sites for the TGA2 transcription factor in salicylic acid-treated plants.
The Plant journal : for cell and molecular biology 2006;47(1):152-62.
2006: Peter J Sabo; Michael S Kuehn; Robert Thurman; Brett E Johnson; Ericka M Johnson; Hua Cao; Man Yu; Elizabeth Rosenzweig; Jeff Goldy; Andrew Haydock; Molly Weaver; Anthony Shafer; Kristin Lee; Fidencio Neri; Richard Humbert; Singer Michael; Richmond Todd; Michael O Dorschner; Michael McArthur; Michael Hawrylycz; Roland D Green; Patrick A Navas; William Stafford Noble; John A Stamatoyannopoulos
Genome-scale mapping of DNase I sensitivity in vivo using tiling DNA microarrays.
Nature methods 2006;3(7):511-8.
2006: Jon C Strefford; Frederik W van Delft; Hazel M Robinson; Helen Worley; Olga Yiannikouris; Rebecca Selzer; Richmond Todd; Ian Hann; Tony Bellotti; Manoj Raghavan; Bryan D Young; Vaskar Saha; Christine J Harrison
Complex genomic alterations and gene expression in acute lymphoblastic leukemia with intrachromosomal amplification of chromosome 21.
Proceedings of the National Academy of Sciences of the United States of America 2006;103(21):8167-72.
2006: Alexander Eckehart Urban; Jan O Korbel; Rebecca Selzer; Richmond Todd; April Hacker; George V Popescu; Joseph F Cubells; Roland Green; Beverly S Emanuel; Mark Gerstein; Sherman M Weissman; Michael Snyder
High-resolution mapping of DNA copy alterations in human chromosome 22 using high-density tiling oligonucleotide arrays.
Proceedings of the National Academy of Sciences of the United States of America 2006;103(12):4534-9.
2005: Thomas J Albert; Daiva Dailidiene; Giedrius Dailide; Jason E Norton; Awdhesh Kalia; Richmond Todd; Michael Molla; Jaz Singh; Roland D Green; Douglas E Berg
Mutation discovery in bacterial genomes: metronidazole resistance in Helicobacter pylori.
Nature methods 2005;2(12):951-3.
2005: Rebecca R Selzer; Richmond Todd; Nathan J Pofahl; Roland D Green; Peggy S Eis; Prakash Nair; Arthur R Brothman; Raymond L Stallings
Analysis of chromosome breakpoints in neuroblastoma at sub-kilobase resolution using fine-tiling oligonucleotide array CGH.
Genes, chromosomes & cancer 2005;44(3):305-19.
2005: Tae Hoon Kim; Leah O Barrera; Ming Zheng; Chunxu Qu; Singer Michael; Richmond Todd; Yingnian Wu; Roland D Green; Bing Ren
A high-resolution map of active promoters in the human genome.
Nature 2005;436(7052):876-80.
2004: Christopher W Wong; Thomas J Albert; Vinsensius B Vega; Jason E Norton; David J Cutler; Richmond Todd; Lawrence W Stanton; Edison Liu; Lance D Miller
Tracking the evolution of the SARS coronavirus using high-throughput, high-density resequencing arrays.
Genome research 2004;14(3):398-405.
2004: Michael Molla; Jude Shavlik; Richmond Todd; Steven Smith
A self-tuning method for one-chip SNP identification.
Proceedings / IEEE Computational Systems Bioinformatics Conference, CSB. IEEE Computational Systems Bioinformatics Conference 2004;():69-79.
2003: Thomas J Albert; Jason Norton; Markus Ott; Richmond Todd; Kate Nuwaysir; Emile F Nuwaysir; Klaus-Peter Stengele; Roland D Green
Light-directed 5'-->3' synthesis of complex oligonucleotide microarrays.
Nucleic acids research 2003;31(7):e35.
2002: Emile F Nuwaysir; Wei Huang; Thomas J Albert; Jaz Singh; Kate Nuwaysir; Alan Pitas; Richmond Todd; Tom Gorski; James P Berg; Jeff D Ballin; Mark McCormick; Jason Norton; Tim Pollock; Terry Sumwalt; Lawrence Butcher; DeAnn Porter; Michael Molla; Christine Hall; Fred Blattner; Michael R Sussman; Rodney L Wallace; Franco Cerrina; Roland D Green
Gene expression analysis using oligonucleotide arrays produced by maskless photolithography.
Genome research 2002;12(11):1749-55.
2001: Richmond Todd; chris somerville
Integrative approaches to determining Csl function.
Plant molecular biology 2001;47(1-2):131-43.
2001: Wolf-Rüdiger Scheible; R Eshed; Richmond Todd; D Delmer; chris somerville
Modifications of cellulose synthase confer resistance to isoxaben and thiazolidinone herbicides in Arabidopsis Ixr1 mutants.
Proceedings of the National Academy of Sciences of the United States of America 2001;98(18):10079-84.
2000: Peer M Schenk; Kemal Kazan; I Wilson; Jonathan P Anderson; Richmond Todd; Shauna Somerville; John M Manners
Coordinated plant defense responses in Arabidopsis revealed by microarray analysis.
Proceedings of the National Academy of Sciences of the United States of America 2000;97(21):11655-60.
2000: Richmond Todd; chris somerville
The cellulose synthase superfamily.
Plant physiology 2000;124(2):495-8.
2000: Richmond Todd; Shauna Somerville
Chasing the dream: plant EST microarrays.
Current opinion in plant biology 2000;3(2):108-16.
2000: Richmond Todd
Higher plant cellulose synthases.
Genome biology 2000;1(4):REVIEWS3001.
1999: Richmond Todd; Anthony B Bleecker
A defect in beta-oxidation causes abnormal inflorescence development in Arabidopsis.
The Plant cell 1999;11(10):1911-24.
1994: L L Hensel; M A Nelson; Richmond Todd; Anthony B Bleecker
The fate of inflorescence meristems is controlled by developing fruits in Arabidopsis.
Plant physiology 1994;106(3):863-76.