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PLANT JOURNAL, ISSN 0960-7412, 07/2017, Volume 91, Issue 2, pp. 278 - 291
Polyploidization and subsequent sub- and neofunctionalization of duplicated genes represent a major mechanism of plant genome evolution. Capsella... 
homeologs | CONTRIBUTE | DIFFERENTIAL EXPRESSION | MODEL SYSTEM | BRASSICACEAE | genome assembly | TRANSCRIPTOME ATLAS | PLANT SCIENCES | regulatory elements | Capsella bursa-pastoris | polyploidy | RNA-seq | ADAPTATION | GENE-EXPRESSION | ARCHITECTURE | GLYCINE-MAX | TOOLS
Journal Article
Nucleic Acids Research, ISSN 0305-1048, 09/2016, Volume 44, Issue 15, pp. 7228 - 7241
Journal Article
Frontiers in Genetics, ISSN 1664-8021, 10/2019, Volume 10
Many problems of modern genetics and functional genomics require the assessment of functional effects of sequence variants, including gene expression changes.... 
Gene expression | Genomics | Machine learning | saturation mutagenesis massively parallel reporter assay | enhancers | machine learning | promoters | rSNP | regulatory variants
Journal Article
CELLS, ISSN 2073-4409, 05/2019, Volume 8, Issue 5, p. 461
Inorganic polyphosphate (polyP) is crucial for adaptive reactions and stress response in microorganisms. A convenient model to study the role of polyP in yeast... 
PERMEABILITY TRANSITION PORE | COMPLEX | TRANSPORTER | PPN1 | PHM7 | CELL BIOLOGY | polyphosphate | PHOSPHATE | OVEREXPRESSION | METABOLISM | ADAPTATION | manganese adaptation | PHO84 | ACCUMULATION | Saccharomyces cerevisiae | oxidative stress
Journal Article
Data in Brief, ISSN 2352-3409, 04/2019, Volume 23, p. 103701
TMA20 (MCT-1), TMA22 (DENR) and TMA64 (eIF2D) are eukaryotic translation factors involved in ribosome recycling and re-initiation. They operate with P-site... 
Journal Article
Nucleic Acids Research, ISSN 0305-1048, 2016, Volume 44, Issue 1, pp. D116 - D125
Models of transcription factor (TF) binding sites provide a basis for a wide spectrum of studies in regulatory genomics, from reconstruction of regulatory... 
CHIP-SEQ DATA | ELEMENTS | MOTIFS | DNA-BINDING | HUMAN GENOME | DATABASE | SEQUENCES | BIOCHEMISTRY & MOLECULAR BIOLOGY | MUTATIONS | EXPRESSION | DISCOVERY | Transcription Factors - metabolism | Animals | Chromatin Immunoprecipitation | Models, Biological | Regulatory Elements, Transcriptional | Humans | Databases, Genetic | Mice | Binding Sites | Sequence Analysis, DNA | Database Issue
Journal Article
Nucleic Acids Research, ISSN 0305-1048, 01/2018, Volume 46, Issue D1, pp. D252 - D259
Abstract We present a major update of the HOCOMOCO collection that consists of patterns describing DNA binding specificities for human and mouse transcription... 
SITES | MOTIFS | OPEN-ACCESS DATABASE | GENE | BIOCHEMISTRY & MOLECULAR BIOLOGY | EXPANSION | Database Issue
Journal Article
BMC Genomics, ISSN 1471-2164, 03/2014, Volume 15, Issue 1, pp. 119 - 119
Journal Article
by Forrest, Alistair R. R and Kawaji, Hideya and Rehli, Michael and Baillie, J. Kenneth and de Hoon, Michiel J. L and Haberle, Vanja and Lassmann, Timo and Kulakovskiy, Ivan V and Lizio, Marina and Itoh, Masayoshi and Andersson, Robin and Mungall, Christopher J and Meehan, Terrence F and Schmeier, Sebastian and Bertin, Nicolas and Jørgensen, Mette and Dimont, Emmanuel and Arner, Erik and Schmidl, Christian and Schaefer, Ulf and Medvedeva, Yulia A and Plessy, Charles and Vitezic, Morana and Severin, Jessica and Semple, Colin A and Ishizu, Yuri and Young, Robert S and Francescatto, Margherita and Alam, Intikhab and Albanese, Davide and Altschuler, Gabriel M and Arakawa, Takahiro and Archer, John A. C and Arner, Peter and Babina, Magda and Rennie, Sarah and Balwierz, Piotr J and Beckhouse, Anthony G and Pradhan-Bhatt, Swati and Blake, Judith A and Blumenthal, Antje and Bodega, Beatrice and Bonetti, Alessano and Briggs, James and Brombacher, Frank and Burroughs, A. Maxwell and Califano, Anea and Cannistraci, Carlo V and Carbajo, Daniel and Chen, Yun and Chierici, Marco and Ciani, Yari and Clevers, Hans C and Dalla, Emiliano and Davis, Carrie A and Detmar, Michael and Diehl, Alexander D and Dohi, Taeko and bløs, Finn and Edge, Albert S. B and Edinger, Matthias and Ekwall, Karl and Endoh, Mitsuhiro and Enomoto, Hideki and Fagiolini, Michela and Fairbairn, Lynsey and Fang, Hai and Farach-Carson, Mary C and Faulkner, Geoffrey J and Favorov, Alexander V and Fisher, Malcolm E and Frith, Martin C and Fujita, Rie and Fukuda, Shiro and Furlanello, Cesare and Furuno, Masaaki and Furusawa, Jun-ichi and Geijtenbeek, Teunis B and Gibson, Anew P and Gingeras, Thomas and Goldowitz, Daniel and Gough, Julian and Guhl, Sven and Guler, Reto and Gustincich, Stefano and Ha, Thomas J and Hamaguchi, Masahide and Hara, Mitsuko and Harbers, Matthias and Harshbarger, Jayson and Hasegawa, Akira and Hasegawa, Yuki and Hashimoto, Takehiro and Herlyn, Meenhard and Hitchens, Kelly J and Ho Sui, Shannan J and Hofmann, Oliver M and Hoof, Ilka and Hori, Fumi and Huminiecki, Lukasz and ... and FANTOM Consortium and RIKEN PMI CLST DGT and FANTOM Consortium and the RIKEN PMI and CLST (DGT) and The FANTOM Consortium and the RIKEN PMI and CLST (DGT)
Nature, ISSN 0028-0836, 2014, Volume 507, Issue 7493, pp. 462 - +
Journal Article
Nucleic Acids Research, ISSN 0305-1048, 01/2013, Volume 41, Issue 1, pp. D195 - D202
Transcription factor (TF) binding site (TFBS) models are crucial for computational reconstruction of transcription regulatory networks. In existing... 
MOTIF DISCOVERY | ASSOCIATIONS | DATABASE | EFFICIENT | BIOCHEMISTRY & MOLECULAR BIOLOGY | TOOL | Transcription Factors - metabolism | Position-Specific Scoring Matrices | Regulatory Elements, Transcriptional | Humans | Databases, Genetic | Models, Genetic | Internet | Binding Sites
Journal Article