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Robust Cross-Platform Workflows: How Technical and Scientific Communities Collaborate to Develop, Test and Share Best Practices for Data Analysis.
Published in:
Data Science & Engineering, 2017, v. 2, n. 3, p. 232, doi. 10.1007/s41019-017-0050-4
By:
- Möller, Steffen;
- Prescott, Stuart;
- Wirzenius, Lars;
- Reinholdtsen, Petter;
- Chapman, Brad;
- Prins, Pjotr;
- Soiland-Reyes, Stian;
- Klötzl, Fabian;
- Bagnacani, Andrea;
- Kalaš, Matúš;
- Tille, Andreas;
- Crusoe, Michael
Publication type:
Article
Whole‐genome sequencing reveals new Alzheimer's disease–associated rare variants in loci related to synaptic function and neuronal development.
Published in:
Alzheimer's & Dementia: The Journal of the Alzheimer's Association, 2021, v. 17, n. 9, p. 1509, doi. 10.1002/alz.12319
By:
- Prokopenko, Dmitry;
- Morgan, Sarah L.;
- Mullin, Kristina;
- Hofmann, Oliver;
- Chapman, Brad;
- Kirchner, Rory;
- Amberkar, Sandeep;
- Wohlers, Inken;
- Lange, Christoph;
- Hide, Winston;
- Bertram, Lars;
- Tanzi, Rudolph E.
Publication type:
Article
VarDict: a novel and versatile variant caller for next-generation sequencing in cancer research.
Published in:
Nucleic Acids Research, 2016, v. 44, n. 11, p. 1, doi. 10.1093/nar/gkw227
By:
- Zhongwu Lai;
- Markovets, Aleksandra;
- Ahdesmaki, Miika;
- Chapman, Brad;
- Hofmann, Oliver;
- McEwen, Robert;
- Johnson, Justin;
- Dougherty, Brian;
- Barrett, J. Carl;
- Dry, Jonathan R.
Publication type:
Article
The Stem Cell Discovery Engine: an integrated repository and analysis system for cancer stem cell comparisons.
Published in:
Nucleic Acids Research, 2012, p. D984, doi. 10.1093/nar/gkr1051
By:
- Ho Sui, Shannan J.;
- Begley, Kimberly;
- Reilly, Dorothy;
- Chapman, Brad;
- McGovern, Ray;
- Rocca-Sera, Philippe;
- Maguire, Eamonn;
- Altschuler, Gabriel M.;
- Hansen, Terah A. A.;
- Sompallae, Ramakrishna;
- Krivtsov, Andrei;
- Shivdasani, Ramesh A.;
- Armstrong, Scott A.;
- Culhane, Aedín C.;
- Correll, Mick;
- Sansone, Susanna-Assunta;
- Hofmann, Oliver;
- Hide, Winston
Publication type:
Article
Pairwise selection assembly for sequence-independent construction of long-length DNA.
Published in:
Nucleic Acids Research, 2010, v. 38, n. 8, p. 2594, doi. 10.1093/nar/gkq123
By:
- Blake, William J.;
- Chapman, Brad A.;
- Zindal, Anuradha;
- Lee, Michael E.;
- Lippow, Shaun M.;
- Baynes, Brian M.
Publication type:
Article
Best practices for benchmarking germline small-variant calls in human genomes.
Published in:
Nature Biotechnology, 2019, v. 37, n. 5, p. 555, doi. 10.1038/s41587-019-0054-x
By:
- Krusche, Peter;
- Trigg, Len;
- Boutros, Paul C.;
- Mason, Christopher E.;
- De La Vega, Francisco M.;
- Moore, Benjamin L.;
- Gonzalez-Porta, Mar;
- Eberle, Michael A.;
- Tezak, Zivana;
- Lababidi, Samir;
- Truty, Rebecca;
- Asimenos, George;
- Funke, Birgit;
- Fleharty, Mark;
- Chapman, Brad A.;
- Salit, Marc;
- Zook, Justin M.
Publication type:
Article
Author Correction: Best practices for benchmarking germline small-variant calls in human genomes.
Published in:
2019
By:
- Krusche, Peter;
- Trigg, Len;
- Boutros, Paul C.;
- Mason, Christopher E.;
- De La Vega, Francisco M.;
- Moore, Benjamin L.;
- Gonzalez-Porta, Mar;
- Eberle, Michael A.;
- Tezak, Zivana;
- Lababidi, Samir;
- Truty, Rebecca;
- Asimenos, George;
- Funke, Birgit;
- Fleharty, Mark;
- Chapman, Brad A.;
- Salit, Marc;
- Zook, Justin M.
Publication type:
Correction Notice
Integrating human sequence data sets provides a resource of benchmark SNP and indel genotype calls.
Published in:
Nature Biotechnology, 2014, v. 32, n. 3, p. 246, doi. 10.1038/nbt.2835
By:
- Zook, Justin M;
- Chapman, Brad;
- Wang, Jason;
- Mittelman, David;
- Hofmann, Oliver;
- Hide, Winston;
- Salit, Marc
Publication type:
Article
Toward interoperable bioscience data.
Published in:
Nature Genetics, 2012, v. 44, n. 2, p. 121, doi. 10.1038/ng.1054
By:
- Sansone, Susanna-Assunta;
- Rocca-Serra, Philippe;
- Field, Dawn;
- Maguire, Eamonn;
- Taylor, Chris;
- Hofmann, Oliver;
- Fang, Hong;
- Neumann, Steffen;
- Tong, Weida;
- Amaral-Zettler, Linda;
- Begley, Kimberly;
- Booth, Tim;
- Bougueleret, Lydie;
- Burns, Gully;
- Chapman, Brad;
- Clark, Tim;
- Coleman, Lee-Ann;
- Copeland, Jay;
- Das, Sudeshna;
- de Daruvar, Antoine
Publication type:
Article
The 3rd DBCLS BioHackathon: improving life science data integration with Semantic Web technologies.
Published in:
Journal of Biomedical Semantics, 2013, v. 4, n. 1, p. 1, doi. 10.1186/2041-1480-4-6
By:
- Katayama, Toshiaki;
- Wilkinson, Mark D.;
- Micklem, Gos;
- Kawashima, Shuichi;
- Yamaguchi, Atsuko;
- Nakao, Mitsuteru;
- Yamamoto, Yasunori;
- Okamoto, Shinobu;
- Oouchida, Kenta;
- Hong-Woo Chun;
- Aerts, Jan;
- Afzal, Hammad;
- Antezana, Erick;
- Arakawa, Kazuharu;
- Aranda, Bruno;
- Belleau, Francois;
- Bolleman, Jerven;
- Bonnal, Raoul J. P.;
- Chapman, Brad;
- Cock, Peter J. A.
Publication type:
Article
COMPARISON OF MALE AND FEMALE LEADERSHIP STYLES.
Published in:
Academy of Management Journal, 1975, v. 18, n. 3, p. 645, doi. 10.2307/255695
By:
- Chapman, J. Brad
Publication type:
Article
Comparison of Illumina and 454 Deep Sequencing in Participants Failing Raltegravir-Based Antiretroviral Therapy.
Published in:
PLoS ONE, 2014, v. 9, n. 3, p. 1, doi. 10.1371/journal.pone.0090485
By:
- Li, Jonathan Z.;
- Chapman, Brad;
- Charlebois, Patrick;
- Hofmann, Oliver;
- Weiner, Brian;
- Porter, Alyssa J.;
- Samuel, Reshmi;
- Vardhanabhuti, Saran;
- Zheng, Lu;
- Eron, Joseph;
- Taiwo, Babafemi;
- Zody, Michael C.;
- Henn, Matthew R.;
- Kuritzkes, Daniel R.;
- Hide, Winston;
- Wilson, Cara C.;
- Berzins, Baiba I.;
- Acosta, Edward P.;
- Bastow, Barbara;
- Kim, Peter S.
Publication type:
Article
CloudMan as a platform for tool, data, and analysis distribution.
Published in:
BMC Bioinformatics, 2012, v. 13, n. 1, p. 315, doi. 10.1186/1471-2105-13-315
By:
- Afgan, Enis;
- Chapman, Brad;
- Taylor, James
Publication type:
Article
Bio.Phylo: A unified toolkit for processing, analyzing and visualizing phylogenetic trees in Biopython.
Published in:
BMC Bioinformatics, 2012, v. 13, n. 1, p. 209, doi. 10.1186/1471-2105-13-209
By:
- Talevich, Eric;
- Invergo, Brandon M.;
- A. Cock, Peter J.;
- Chapman, Brad A.
Publication type:
Article
Galaxy CloudMan: delivering cloud compute clusters.
Published in:
BMC Bioinformatics, 2010, v. 11, p. 1, doi. 10.1186/1471-2105-11-S12-S4
By:
- Afgan, Enis;
- Baker, Dannon;
- Coraor, Nate;
- Chapman, Brad;
- Nekrutenko, Anton;
- Taylor, James
Publication type:
Article
Identification of Novel Alzheimer's Disease Loci Using Sex-Specific Family-Based Association Analysis of Whole-Genome Sequence Data.
Published in:
Scientific Reports, 2020, v. 10, n. 1, p. 1, doi. 10.1038/s41598-020-61883-6
By:
- Prokopenko, Dmitry;
- Hecker, Julian;
- Kirchner, Rory;
- Chapman, Brad A.;
- Hoffman, Oliver;
- Mullin, Kristina;
- Hide, Winston;
- Bertram, Lars;
- Laird, Nan;
- DeMeo, Dawn L.;
- Lange, Christoph;
- Tanzi, Rudolph E.
Publication type:
Article
Deep targeted sequencing of 12 breast cancer susceptibility regions in 4611 women across four different ethnicities.
Published in:
Breast Cancer Research, 2016, v. 18, p. 1, doi. 10.1186/s13058-016-0772-7
By:
- Lindström, Sara;
- Ablorh, Akweley;
- Chapman, Brad;
- Gusev, Alexander;
- Chen, Gary;
- Turman, Constance;
- Eliassen, A. Heather;
- Price, Alkes L.;
- Henderson, Brian E.;
- Le Marchand, Loic;
- Hofmann, Oliver;
- Haiman, Christopher A.;
- Kraft, Peter
Publication type:
Article
GEMINI: Integrative Exploration of Genetic Variation and Genome Annotations.
Published in:
PLoS Computational Biology, 2013, v. 9, n. 7, p. 1, doi. 10.1371/journal.pcbi.1003153
By:
- Paila, Umadevi;
- Chapman, Brad A.;
- Kirchner, Rory;
- Quinlan, Aaron R.
Publication type:
Article
THE FEMALE LEADERSHIP DILEMMA.
Published in:
Public Personnel Management, 1975, v. 4, n. 3, p. 173, doi. 10.1177/009102607500400306
By:
- Chapman, J. Brad;
- Luthans, Fred
Publication type:
Article
Unravelling angiosperm genome evolution by phylogenetic analysis of chromosomal duplication events.
Published in:
Nature, 2003, v. 422, n. 6930, p. 433, doi. 10.1038/nature01521
By:
- Bowers, John E.;
- Chapman, Brad A.;
- Rong, Junkang;
- Paterson, Andrew H.
Publication type:
Article
Silencing of the Drosophila ortholog of SOX5 leads to abnormal neuronal development and behavioral impairment.
Published in:
Human Molecular Genetics, 2017, v. 26, n. 8, p. 1472, doi. 10.1093/hmg/ddx051
By:
- Li, Airong;
- Hooli, Basavaraj;
- Mullin, Kristina;
- Tate, Rebecca E.;
- Bubnys, Adele;
- Kirchner, Rory;
- Chapman, Brad;
- Hofmann, Oliver;
- Hide, Winston;
- Tanzi, Rudolph E.
Publication type:
Article
The 2015 Bioinformatics Open Source Conference (BOSC 2015).
Published in:
2016
By:
- Harris, Nomi L.;
- Cock, Peter J. A.;
- Lapp, Hilmar;
- Chapman, Brad;
- Davey, Rob;
- Fields, Christopher;
- Hokamp, Karsten;
- Munoz-Torres, Monica
Publication type:
Proceeding
Clonal dynamics of native haematopoiesis.
Published in:
Nature, 2014, v. 514, n. 7522, p. 322, doi. 10.1038/nature13824
By:
- Sun, Jianlong;
- Camargo, Fernando D.;
- Ramos, Azucena;
- Le, Linda;
- Chapman, Brad;
- Hofmann, Oliver;
- Johnnidis, Jonathan B.;
- Ho, Yu-Jui;
- Klein, Allon
Publication type:
Article
Identification of small RNA pathway genes using patterns of phylogenetic conservation and divergence.
Published in:
Nature, 2013, v. 493, n. 7434, p. 694, doi. 10.1038/nature11779
By:
- Tabach, Yuval;
- Billi, Allison C.;
- Hayes, Gabriel D.;
- Newman, Martin A.;
- Zuk, Or;
- Gabel, Harrison;
- Kamath, Ravi;
- Yacoby, Keren;
- Chapman, Brad;
- Garcia, Susana M.;
- Borowsky, Mark;
- Kim, John K.;
- Ruvkun, Gary
Publication type:
Article
High resolution genetic mapping and candidate gene identification at the xa5 locus for bacterial blight resistance in rice (Oryza sativa L.).
Published in:
Theoretical & Applied Genetics, 2003, v. 107, n. 1, p. 62, doi. 10.1007/s00122-003-1231-2
By:
- Blair, Matthew W.;
- Garris, Amanda J.;
- Iyer, Anjali S.;
- Chapman, Brad;
- Kresovich, Stephen;
- McCouch, Susan R.
Publication type:
Article
Aβ-accelerated neurodegeneration caused by Alzheimer's-associated ACE variant R1279Q is rescued by angiotensin system inhibition in mice.
Published in:
Science Translational Medicine, 2020, v. 12, n. 563, p. 1, doi. 10.1126/scitranslmed.aaz2541
By:
- Cuddy, Leah K.;
- Prokopenko, Dmitry;
- Cunningham, Eric P.;
- Brimberry, Ross;
- Song, Peter;
- Kirchner, Rory;
- Chapman, Brad A.;
- Hofmann, Oliver;
- Hide, Winston;
- Procissi, Daniele;
- Hanania, Taleen;
- Leiser, Steven C.;
- Tanzi, Rudolph E;
- Vassar, Robert
Publication type:
Article
Budgeting strategy: A meaningful mean.
Published in:
Advanced Management Journal (03621863), 1981, v. 46, n. 3, p. 4
By:
- Joiner, Carl;
- Chapman, J. Brad
Publication type:
Article
The Bioinformatics Open Source Conference (BOSC) 2013.
Published in:
2015
By:
- Harris, Nomi L.;
- Cock, Peter J. A.;
- Chapman, Brad A.;
- Goecks, Jeremy;
- Hotz, Hans-Rudolf;
- Lapp, Hilmar
Publication type:
Proceeding
Biopython: freely available Python tools for computational molecular biology and bioinformatics.
Published in:
Bioinformatics, 2009, v. 25, n. 11, p. 1422, doi. 10.1093/bioinformatics/btp163
By:
- Peter J. A. Cock;
- Tiago Antao;
- Jeffrey T. Chang;
- Brad A. Chapman;
- Cymon J. Cox;
- Andrew Dalke;
- Iddo Friedberg;
- Thomas Hamelryck;
- Frank Kauff;
- Bartek Wilczynski;
- Michiel J. L. de Hoon
Publication type:
Article

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