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The study of genetic variations is the basis of many research domains in biology. From genome structure to population dynamics, many applications involve the use of genetic variants. The advent of next-generation sequencing technologies led to such a flood of data that the daily work of scientist...


Sempéré, G.Pétel, A.Rouard, M.Frouin, J.Hueber, Y.De Bellis, F.Larmande, P.[Gigwa v2—Extended and improved genotype investigator]Gigwa v2—Extended and improved genotype investigator

Soil data requirements and soil data acquisition tools and techniques have changed over recent decades. In general, soil scientists can: i) collect new data in the field and ignore the data that are available, ii) rely entirely on legacy soil data or iii) combine available legacy data with new da...


Hendriks, C.M.J.Stoorvogel, J.J.Lutz, F.Claessens, Lieven[When can legacy soil data be used, and when should new data be collected instead?]When can legacy soil data be used, and when should new data be collected instead?

Summary: We developed a controller that is compliant with the Chado database schema, GBrowse and genome annotation-editing tools such as Artemis and Apollo. It enables the management of public and private data, monitors manual annotation (with controlled vocabularies, structural and functional an...


Guignon, V.Droc, GaëtanAlaux, M.Baurens, F.C.Garsmeur, O.Poiron, C.Carver, T.Rouard, M.Bocs, S.[Chado Controller: advanced annotation management with a community annotation system]Chado Controller: advanced annotation management with a community annotation system

Plant phenotypic data shrouds a wealth of information which, when accurately analysed and linked to other data types, brings to light the knowledge about the mechanisms of life. As phenotyping is a field of research comprising manifold, diverse and time-consuming experiments, the findings can be ...


Cwiek-Kupczynska, H.Altmann, T.Arend, D.Arnaud, ElizabethChen, D.Cornut, G.Fiorani, F.Frohmberg, W.Junker, A.Klukas, C.Lange, M.Mazurek, C.Nafissi, A.Neveu, P.Oeveren, J. vanPommier, C.Poorter, H.Rocca-Serra, P.Sansone, S.Scholz, U.Schriek, M. vanSeren, U.Usadel, B.Weise, S.F.Kersey, P.Krajewski, P.[Measures for interoperability of phenotypic data: minimum information requirements and formatting]Measures for interoperability of phenotypic data: minimum information requirements and formatting

The South Green Web portal (http://www.southgreen.fr/) provides access to a large panel of public databases, analytical workflows and bioinformatics resources dedicated to the genomics of tropical and Mediterranean crops. The portal contains currently about 20 information systems and tools and ta...


South Green collaborators[The South Green Portal: a comprehensive resource for tropical and Mediterranean crop genomics]The South Green Portal: a comprehensive resource for tropical and Mediterranean crop genomics

Data is presented from an in-depth analysis of the HSP70 family in the non-model banana during osmotic stress [1]. First, a manual curation of HSP70 sequences from the banana genome was performed and updated on the Musa hub http://banana-genome.cirad.fr/. These curated protein sequences were then...


Vanhove, A.C.Vermaelen, W.Cenci, A.Swennen, R.L.Carpentier, S.C.[Data for the characterization of the HSP70 family during osmotic stress in banana, a non-model crop.]Data for the characterization of the HSP70 family during osmotic stress in banana, a non-model crop.
Renisha, M.Parameswaran, N.K.Rajeevan, P.K.Zucker, J.Sthapit, B.R.[A preliminary appraisal of mango biodiversity in Kerala, India]A preliminary appraisal of mango biodiversity in Kerala, India
Wijk, Mark T. vanHammond, JamesGorman, LeoAdams, SamAyantunde, Augustine A.Baines, DavidBolliger, AdrianBosire, Caroline K.Carpena, PietroChesterman, SabrinaChinyophiro, AmonDaudi, HappyDontsop, PaulDouxchamps, SabineEmera, Willy DesireFraval, SimonFonte, StevenHok, LydaKiara, Henry K.Kihoro, EstherKorir, LukeLamanna, ChristineLong, Chau T. M.Manyawu, Godfrey J.Mehrabi, ZiaMengistu, Dejene K.Mercado, LeidaMeza, KatherinMora, VesalioMutemi, JacobNg’endo, MaryNjingulula, PaulinOkafor, ChrisPagella, TimPhengsavanh, PhonepaseuthRao, E.J.O.Ritzema, Randall S.Rosenstock, Todd S.Skirrow, TomSteinke, JonathanStirling, ClareSuchini, Jose GabrielTeufel, NilsThorne, Peter J.Vanek, StevenEtten, Jacob vanVanlauwe, BernardWichern, JannikeYameogo, Viviane[The Rural Household Multiple Indicator Survey, data from 13,310 farm households in 21 countries.]The Rural Household Multiple Indicator Survey, data from 13,310 farm households in 21 countries.

In this article, we present a joint effort of the wheat research community, along with data and ontology experts, to develop wheat data interoperability guidelines. Interoperability is the ability of two or more systems and devices to cooperate and exchange data, and interpret that shared informa...


Dzale-Yeumo, E.Alaux, M.Arnaud, ElizabethAubin, S.Baumann, U.Buche, P.Cooper, L.Cwiek-Kupczynska, H.Davey, R.P.Fulss, R.A.Jonquet, C.Laporte, M-A.Larmande, PierrePommier, C.Protonotarios, V.Reverte, C.Shrestha, R.Subirats, I.Venkatesan, A.Whan, A.Quesneville, H.[Developing data interoperability using standards: A wheat community use case]Developing data interoperability using standards: A wheat community use case

Geomorphological and sedimentary records near the confluences of the Tana River and major tributaries draining the eastern slopes of Mt. Kenya and the Nyambeni Range, indicate impacts of Late Quaternary volcanic activity in their fluvial records. The main reconstructed event was triggered by a 36...


Schoorl, J.M.Veldkamp, A.Claessens, L.Wijbrans, J.R.Olago, D.O.Lievens, C.[Late quaternary lahars and lava dams: fluvial responses of the upper Tana river (Kenya)]Late quaternary lahars and lava dams: fluvial responses of the upper Tana river (Kenya)

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