LIS contains agronomically useful information in legume species, including genome sequences, genetic maps, genes, gene families, and mapped traits. The "legumeinfo" site makes use of several open-source projects (Tripal, Chado, GBrowse, JBrowse, and many others), facilitating more efficient collaboration with other research groups using and developing these tools.
G. Bauchet, K. Bett, C. Cameron, J. Campbell, E. Cannon, S. Cannon, J. Carlson, A. Chan, A. Cleary, T. Close, D. Cook, A. Cooksey, C. Coyne, S. Dash, R. Dickstein, A. Farmer, D. Fernández-Baca, S. Hokin, E. Jones, Y. Kang, M. Monteros, M. Muñoz-Amatriaín, K. Mysore, C. Pislariu, C. Richards, A. Shi, C. Town, M. Udvardi, E. Wettberg, N. Young and P. Zhao.
The future of legume genetic data resources: Challenges, opportunities, and priorities
Legume Science (e16 LEG3-2019-052.R1), n/a(n/a), e16, 2019
Legume Information System Legume Federation PeanutBase Medicago HapMap ProjectS. Lo, M. Munoz-Amatriain, S. Hokin, N. Cisse, P. Roberts, A. Farmer, S. Xu and T. Close.
A genome-wide association and meta-analysis reveal regions associated with seed size in cowpea [Vigna unguiculata (L.) Walp]
Theor. Appl. Genet. (PMID: 31367839), 2019
Legume Information System Legume FederationD. Bertioli, J. Jenkins, J. Clevenger, O. Dudchenko, D. Gao, G. Seijo, S. Leal-Bertioli, L. Ren, A. Farmer, M. Pandey, S. Samoluk, B. Abernathy, G. Agarwal, C. Ballén-Taborda, C. Cameron, J. Campbell, C. Chavarro, A. Chitikineni, Y. Chu, S. Dash, M. Baidouri, B. Guo, W. Huang, K. Kim, W. Korani, S. Lanciano, C. Lui, M. Mirouze, M. Moretzsohn, M. Pham, J. Shin, K. Shirasawa, S. Sinharoy, A. Sreedasyam, N. Weeks, X. Zhang, Z. Zheng, Z. Sun, L. Froenicke, E. Aiden, R. Michelmore, R. Varshney, C. Holbrook, E. Cannon, B. Scheffler, J. Grimwood, P. Ozias-Akins, S. Cannon, S. Jackson and J. Schmutz.
The genome sequence of segmental allotetraploid peanut Arachis hypogaea
Nature Genetics (PMID: 31043755), 51(5), 877--884, 2019
Legume Information System Legume Federation PeanutBaseS. Lonardi, M. Muñoz-Amatriaín, Q. Liang, S. Shu, S. Wanamaker, S. Lo, J. Tanskanen, A. Schulman, T. Zhu, M. Luo, H. Alhakami, R. Ounit, A. Hasan, J. Verdier, P. Roberts, J. Santos, A. Ndeve, J. Doležel, J. Vrána, S. Hokin, A. Farmer, S. Cannon and T. Close.
The genome of cowpea (Vigna unguiculata [L.] Walp.)
The Plant Journal (PMID: 31017340), 98(5), 767--782, 2019
Legume Information System Legume FederationA. Cleary and A. Farmer.
Genome Context Viewer: visual exploration of multiple annotated genomes using microsynteny
Bioinformatics (PMID: 29194466), 34(9), 1562--1564, 2017
Legume Information System Legume FederationJ. Singh, S. Kalberer, V. Belamkar, T. Assefa, M. Nelson, A. Farmer, W. Blackmon and S. Cannon.
A transcriptome-SNP-derived linkage map of Apios americana (potato bean) provides insights about genome re-organization and synteny conservation in the phaseoloid legumes
Theoretical and Applied Genetics (PMID: 29071392), 131(2), 333--351, 2017
Legume Information SystemM. Munoz-Amatriain, H. Mirebrahim, P. Xu, S. Wanamaker, M. Luo, H. Alhakami, M. Alpert, I. Atokple, B. Batieno, O. Boukar, S. Bozdag, N. Cisse, I. Drabo, J. Ehlers, A. Farmer, C. Fatokun, Y. Gu, Y. Guo, B. Huynh, S. Jackson, F. Kusi, C. Lawley, M. Lucas, Y. Ma, M. Timko, J. Wu, F. You, N. Barkley, P. Roberts, S. Lonardi and T. Close.
Genome resources for climate-resilient cowpea, an essential crop for food security
Plant J. (PMID: 27775877), 89(5), 1042--1054, 2017
Legume Information System Legume FederationR. Penmetsa, N. Carrasquilla-Garcia, E. Bergmann, L. Vance, B. Castro, M. Kassa, B. Sarma, S. Datta, A. Farmer, J. Baek, C. Coyne, R. Varshney, E. Wettberg and D. Cook.
Multiple post-domestication origins of kabuli chickpea through allelic variation in a diversification-associated transcription factor
New Phytologist (PMID: 27193699), 211(4), 1440--1451, 2016
Legume Information System Legume FederationD. Bertioli, S. Cannon, L. Froenicke, G. Huang, A. Farmer, E. Cannon, X. Liu, D. Gao, J. Clevenger, S. Dash, L. Ren, M. Moretzsohn, K. Shirasawa, W. Huang, B. Vidigal, B. Abernathy, Y. Chu, C. Niederhuth, P. Umale, A. Araújo, A. Kozik, K. Kim, M. Burow, R. Varshney, X. Wang, X. Zhang, N. Barkley, P. Guimarães, S. Isobe, B. Guo, B. Liao, H. Stalker, R. Schmitz, B. Scheffler, S. Leal-Bertioli, X. Xun, S. Jackson, R. Michelmore and P. Ozias-Akins.
The genome sequences of Arachis duranensis and Arachis ipaensis, the diploid ancestors of cultivated peanut
Nature Genetics (PMID: 26901068), 48(4), 438--446, 2016
Legume Information System Legume Federation PeanutBaseM. Gonzales, E. Archuleta, A. Farmer, K. Gajendran, D. Grant, R. Shoemaker, W. Beavis and M. Waugh.
The Legume Information System (LIS): an integrated information resource for comparative legume biology
Nucleic Acids Res. (PMID: 15608283), 33(Database issue), D660--665, 2005
Legume Information System
The National Center for Genome Resources is a not-for-profit research institute that innovates, collaborates, and educates in the field of genomic data science. As leaders in DNA sequence analysis, we partner with government, industry, and academia to drive biological discovery in all kingdoms of life. We deliver value through expertise in experimental design, software, computation, data integration and training a skilled workforce.More
The National Center for Genome Resources, a New Mexico nonprofit corporation ("Company," "NCGR," or "we"), in the operation of this website, www.ncgr.org (the "Website") is committed to protecting the privacy of its online visitors (collectively, "our users" or, as applicable to yourself and your organization, "you").
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REVIEWING, CHANGING OR CORRECTING INFORMATION
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APPLICABLE LAW AND JURISDICTION
This Privacy Notice shall be governed by, construed and entered in accordance with the laws of the State of New Mexico, United States of America, applicable to contracts deemed to be made within such state, without regard to choice of law or conflict of law provisions thereof. All disputes with respect to this Privacy Notice shall be brought and heard either in the state or federal courts in and for the state of New Mexico, United States of Americe. You consent to the in personam jurisdiction and venue of such courts. YOU HEREBY WAIVE YOUR RIGHT TO A TRIAL BY JURY WITH RESPECT TO ANY CLAIM, ACTION OR PROCEEDING, DIRECTLY OR INDIRECTLY, ARISING OUT OF, OR RELATING TO, THIS AGREEMENT TO THE FULLEST EXTENT PERMITTED BY LAW.
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If we learn of a security systems breach we may attempt to notify you electronically so that you can take appropriate protective steps. By using the service or providing personally identifiable information to us you agree that we can communicate with you electronically regarding security, privacy and administrative issues relating to your use of our services. We may post a notice on our Webpage if a security breach occurs. We may also send an email to you at the email address you have provided to us in these circumstances. Depending on where you live, you may have a legal right to receive notice of a security breach in writing.
Effective November 4, 2019
The National Center for Genome Resources ("NCGR") website (the "Website") is owned and managed by The National Center for Genome Resources, a New Mexico nonprofit corporation ("Owner," or "we" or "us").
THE PURPOSE OF THE WEBSITE IS TO SHARE INFORMATION WITH A PROFESSIONAL AND BUSINESS AUDIENCE CONCERNING GENOMIC DATA SCIENCE.
Owner undertakes to provide accurate and up-to-date information it posts on the Website. However, each User should understand that all information obtained using the Website is subject to change, does not constitute professional advice or opinions, has not been tested or proven, and is provided "AS IS." Accordingly:
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Owner reserves the right to monitor and administer the Website and, in its sole discretion, to block or remove any content posted to the Website. Owner reserves the right to disallow the use of any particular screen name or e-mail address, or to suspend or terminate any User's access or posting privileges at any time, including individual and group postings. While Owner reserves the right to do so, Owner gives no assurance it does or will do so, as it is not Owner's intention to edit or control content generally.
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OWNERSHIP OF THE WEBSITE AND ITS CONTENTS AND ASSOCIATED TRADEMARKS
The brands, logos and names of specific products or services provided by third parties are owned by those third parties.
The content of the Website, including postings originated by Owner or its providers, and related artwork, graphics and photographic or audiovisual works, are protected by copyright and owned by Owner or third parties who provide such content to Owner. Except as permitted under U.S. Copyright laws, the Website and its contents may not be copied, reproduced, republished or sold, posted, transmitted, distributed, modified, or used for the creation of derivative works without Owner's or applicable third parties' prior written consent.
Owner, to the extent it owns such rights, grants User a non-exclusive, non-transferable, limited license to access, display and/or download a limited and temporary amount of content and pages available within the Website, solely on User's computer and for User's individual use.
Except for the permission expressly granted above to access, display, copy and download the Owner content and pages available within the Website, Owner reserves all rights in the Website and its contents. User may not "mirror" any content or information contained on the Website without Owner's prior written consent. User may not create links to the Website from other sites without Owner's prior written consent and compliance with all applicable laws.
Owner does not claim ownership of or copyrights in User Submissions. User understands that Submissions are not confidential and Owner will be free (without compensation to User) to use or disseminate such Submissions on an unrestricted basis for any purpose. User agrees that Submissions may be published, displayed, copied, distributed, downloaded, or transmitted by Owner or other Website participants, and User grants Owner and all other Users of the Website an irrevocable, unrestricted, perpetual, worldwide, royalty-free license to use, copy, reproduce, display, publish, distribute, transmit, adapt, modify or use for the creation of derivative works (including in digital form) such Submissions.
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LIMITATIONS OF LIABILITY
NEITHER OWNER NOR ITS OFFICERS, DIRECTORS, EMPLOYEES, AGENTS, OR REPRESENTATIVES SHALL BE RESPONSIBLE FOR ANY LOSS OR DAMAGE OF ANY KIND ARISING FROM OR IN ANY WAY RELATING TO (A) THE USE OF OR INABILITY TO USE THE WEBSITE, (B) ERRORS IN OR OMISSIONS FROM WEBSITE CONTENT OR ANY LINKED CONTENT, (C) ANY THIRD PARTY WEB SITES OR CONTENT THEREIN DIRECTLY OR INDIRECTLY ACCESSED THROUGH LINKS IN ANY WEBSITE CONTENT OR LINKED CONTENT, (D) THE UNAVAILABILITY OF THE WEBSITE OR ANY LINKED SITE, OR (E) ANY USE OF THE WEBSITE OR ANY LINKED SITE OR RELIANCE BY THE USER ON ANY INFORMATION OR CONTENT CONTAINED THEREIN.
OWNER SHALL NOT BE LIABLE TO ANY USERS OR ANY OTHER PERSON FOR ANY DIRECT, SPECIAL, INDIRECT, INCIDENTAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES ARISING FROM OR IN ANY WAY RELATING TO THE FOREGOING, EVEN IF THEY HAVE BEEN ADVISED OF THE POSSIBILITY OF SUCH DAMAGES OCCURRING.
IN NO EVENT MAY USER BRING ANY CLAIM OR CAUSE OF ACTION AGAINST OWNER MORE THAN ONE (1) YEAR AFTER SUCH CLAIM OR CAUSE OF ACTION ARISES.
REPRESENTATIONS BY USERS; INDEMNIFICATION
USER IS SOLELY RESPONSIBLE FOR THE CONTENTS OF HIS/HER SUBMISSIONS TO THE WEBSITE. USER REPRESENTS THAT HE/SHE HAS ALL RIGHTS NECESSARY TO POST THE INFORMATION, CONTENT OR MATERIALS SUBMITTED TO THE WEBSITE WITHOUT VIOLATING THE COPYRIGHTS OR ANY OTHER INTELLECTUAL PROPERTY RIGHTS OF THIRD PARTIES, AND THAT NO SUBMISSION BY THE USER WILL VIOLATE APPLICABLE LAWS OR THE RIGHTS OF THIRD PERSONS. USER HEREBY INDEMNIFIES AND AGREES TO HOLD HARMLESS OWNER AND ITS OFFICERS, DIRECTORS, SHAREHOLDERS, EMPLOYEES, AGENTS AND REPRESENTATIVES FROM ANY AND ALL CLAIMS ASSERTED AGAINST THEM AND ANY LIABILITY, LOSS, DAMAGE, COSTS OR EXPENSES (INCLUDING REASONABLE ATTORNEYS' FEES) INCURRED OR SUFFERED BY THEM IN CONNECTION WITH OR ARISING OUT OF USER'S ACTS OR OMISSIONS OR THE MATERIALS OR INFORMATION USER SUBMITS TO THE WEBSITE.
CHOICE OF LAW AND CONSENT TO FORUM
RESTRICTION, SUSPENSION AND TERMINATION
PROCEDURES FOR REQUESTING THE REMOVAL OF INFRINGING MATERIAL
Owner respect the intellectual property of others. If a person or organization (a "Copyright Owner") believes that his, her or its work has been copied on the Website in a way that constitutes copyright infringement, provide Owner the written information specified below. Please note that this procedure is exclusively for the Copyright Owner to notify Owner that copyrighted material of the Copyright Owner has been infringed. If a Copyright Owner believes that its own copyrighted work has been copied in a way that constitutes copyright infringement and is accessible via the Website, the Copyright Owner may notify Owner's copyright agent in accordance with the following procedures and the Digital Millennium Copyright Act of 1998 (DMCA).
For a complaint to be valid under the DMCA, the Copyright Owner must provide the following information when providing notice of the claimed copyright infringement: (1) a physical or electronic signature of a person authorized to act on behalf of the Copyright Owner; (2) identification of the copyrighted work or other intellectual property that the Copyright Owner owns and claims to have been infringed; (3) identification of the material that the Copyright Owner claims is infringing as well as information reasonably sufficient to permit Owner to locate the material on the Website; (4) the address, telephone number, and e-mail address of the Copyright Owner or its designee; (5) a statement by the Copyright Owner that the Copyright Owner as the complaining party has a good faith belief that use of the material in the manner complained of is not authorized by the Copyright Owner, its agent, or the law; and (6) a statement, made under penalty of perjury, that the information in the notification is accurate, and that the complaining party is authorized to act on behalf of the Copyright Owner of an exclusive right that is allegedly infringed. The foregoing information must be submitted as a written notification to the following Designated Agent:
- Site: www.ncgr.org
- Designated agent for infringement claims: Callum Bell, President
- Address:National Center for Genome Resources2935 Rodeo Park Drive EastSanta Fe, New Mexico 87505
- Telephone of designated agent: 505-982-7840
- E-mail of designated agent: firstname.lastname@example.org
WE CAUTION YOU THAT UNDER FEDERAL LAW, IF YOU KNOWINGLY MISREPRESENT THAT ONLINE MATERIAL IS INFRINGING, YOU MAY BE SUBJECT TO CIVIL PENALTIES. THESE INCLUDE MONETARY DAMAGES, COURT COSTS, AND ATTORNEYS' FEES INCURRED BY US, BY ANY COPYRIGHT OWNER, OR BY ANY COPYRIGHT OWNER'S LICENSEE THAT IS INJURED AS A RESULT OF OUR RELYING UPON YOUR MISREPRESENTATION. YOU MAY ALSO BE SUBJECT TO CRIMINAL PROSECUTION FOR PERJURY.
This information should not be construed as legal advice. For further details on the information required for valid DMCA notifications, see 17 U.S.C. 512(c)(3).
NOTE: This information is provided exclusively for notifying the service providers referenced above that the Copyright Owner's own copyrighted material(s) might have been infringed. All other inquiries, including technical requests, reports of e-mail abuse and third party reports of piracy, will not receive a response through this process.
HOW TO CONTACT OWNER