Schmitt, Armin

[["dc.bibliographiccitation.firstpage","464"],["dc.bibliographiccitation.issue","4"],["dc.bibliographiccitation.journal","Genes"],["dc.bibliographiccitation.volume","11"],["dc.contributor.author","Ramzan, Faisal"],["dc.contributor.author","Klees, Selina"],["dc.contributor.author","Schmitt, Armin Otto"],["dc.contributor.author","Cavero, David"],["dc.contributor.author","Gültas, Mehmet"],["dc.date.accessioned","2021-04-14T08:26:24Z"],["dc.date.available","2021-04-14T08:26:24Z"],["dc.date.issued","2020"],["dc.identifier.doi","10.3390/genes11040464"],["dc.identifier.purl","https://resolver.sub.uni-goettingen.de/purl?gs-1/17412"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/81929"],["dc.language.iso","en"],["dc.notes.intern","DOI Import GROB-399"],["dc.notes.intern","Merged from goescholar"],["dc.publisher","MDPI"],["dc.relation.eissn","2073-4425"],["dc.rights","CC BY 4.0"],["dc.rights.uri","http://creativecommons.org/licenses/by/4.0/"],["dc.title","Identification of Age-Specific and Common Key Regulatory Mechanisms Governing Eggshell Strength in Chicken Using Random Forests"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.version","published_version"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","790"],["dc.bibliographiccitation.issue","8"],["dc.bibliographiccitation.journal","Biology"],["dc.bibliographiccitation.volume","10"],["dc.contributor.author","Klees, Selina"],["dc.contributor.author","Heinrich, Felix"],["dc.contributor.author","Schmitt, Armin Otto"],["dc.contributor.author","Gültas, Mehmet"],["dc.date.accessioned","2021-10-01T09:58:22Z"],["dc.date.available","2021-10-01T09:58:22Z"],["dc.date.issued","2021"],["dc.description.abstract","Transcription factors (TFs) govern transcriptional gene regulation by specifically binding to short DNA motifs, known as transcription factor binding sites (TFBSs), in regulatory regions, such as promoters. Today, it is well known that single nucleotide polymorphisms (SNPs) in TFBSs can dramatically affect the level of gene expression, since they can cause a change in the binding affinity of TFs. Such SNPs, referred to as regulatory SNPs (rSNPs), have gained attention in the life sciences due to their causality for specific traits or diseases. In this study, we present agReg-SNPdb, a database comprising rSNP data of seven agricultural and domestic animal species: cattle, pig, chicken, sheep, horse, goat, and dog. To identify the rSNPs, we constructed a bioinformatics pipeline and identified a total of 10,623,512 rSNPs, which are located within TFBSs and affect the binding affinity of putative TFs. Altogether, we implemented the first systematic analysis of SNPs in promoter regions and their impact on the binding affinity of TFs for livestock and made it usable via a web interface."],["dc.description.abstract","Transcription factors (TFs) govern transcriptional gene regulation by specifically binding to short DNA motifs, known as transcription factor binding sites (TFBSs), in regulatory regions, such as promoters. Today, it is well known that single nucleotide polymorphisms (SNPs) in TFBSs can dramatically affect the level of gene expression, since they can cause a change in the binding affinity of TFs. Such SNPs, referred to as regulatory SNPs (rSNPs), have gained attention in the life sciences due to their causality for specific traits or diseases. In this study, we present agReg-SNPdb, a database comprising rSNP data of seven agricultural and domestic animal species: cattle, pig, chicken, sheep, horse, goat, and dog. To identify the rSNPs, we constructed a bioinformatics pipeline and identified a total of 10,623,512 rSNPs, which are located within TFBSs and affect the binding affinity of putative TFs. Altogether, we implemented the first systematic analysis of SNPs in promoter regions and their impact on the binding affinity of TFs for livestock and made it usable via a web interface."],["dc.description.sponsorship","Open-Access-Publikationsfonds 2021"],["dc.identifier.doi","10.3390/biology10080790"],["dc.identifier.pii","biology10080790"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/90048"],["dc.language.iso","en"],["dc.notes.intern","DOI Import GROB-469"],["dc.publisher","MDPI"],["dc.relation.eissn","2079-7737"],["dc.rights","https://creativecommons.org/licenses/by/4.0/"],["dc.title","agReg-SNPdb: A Database of Regulatory SNPs for Agricultural Animal Species"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","742"],["dc.bibliographiccitation.issue","5"],["dc.bibliographiccitation.journal","Biology"],["dc.bibliographiccitation.volume","11"],["dc.contributor.affiliation","Rajavel, Abirami; 1Breeding Informatics Group, Department of Animal Sciences, Georg-August University, Margarethe von Wrangell-Weg 7, 37075 Göttingen, Germany; selina.klees@uni-goettingen.de (S.K.); yuehan.hui@stud.uni-goettingen.de (Y.H.); armin.schmitt@uni-goettingen.de (A.O.S.)"],["dc.contributor.affiliation","Klees, Selina; 1Breeding Informatics Group, Department of Animal Sciences, Georg-August University, Margarethe von Wrangell-Weg 7, 37075 Göttingen, Germany; selina.klees@uni-goettingen.de (S.K.); yuehan.hui@stud.uni-goettingen.de (Y.H.); armin.schmitt@uni-goettingen.de (A.O.S.)"],["dc.contributor.affiliation","Hui, Yuehan; 1Breeding Informatics Group, Department of Animal Sciences, Georg-August University, Margarethe von Wrangell-Weg 7, 37075 Göttingen, Germany; selina.klees@uni-goettingen.de (S.K.); yuehan.hui@stud.uni-goettingen.de (Y.H.); armin.schmitt@uni-goettingen.de (A.O.S.)"],["dc.contributor.affiliation","Schmitt, Armin Otto; 1Breeding Informatics Group, Department of Animal Sciences, Georg-August University, Margarethe von Wrangell-Weg 7, 37075 Göttingen, Germany; selina.klees@uni-goettingen.de (S.K.); yuehan.hui@stud.uni-goettingen.de (Y.H.); armin.schmitt@uni-goettingen.de (A.O.S.)"],["dc.contributor.affiliation","Gültas, Mehmet; 2Center for Integrated Breeding Research (CiBreed), Georg-August University, Carl-Sprengel-Weg 1, 37075 Göttingen, Germany"],["dc.contributor.author","Rajavel, Abirami"],["dc.contributor.author","Klees, Selina"],["dc.contributor.author","Hui, Yuehan"],["dc.contributor.author","Schmitt, Armin Otto"],["dc.contributor.author","Gültas, Mehmet"],["dc.date.accessioned","2022-06-01T09:39:55Z"],["dc.date.available","2022-06-01T09:39:55Z"],["dc.date.issued","2022"],["dc.date.updated","2022-06-05T20:12:10Z"],["dc.description.abstract","African Animal Trypanosomiasis (AAT) is a neglected tropical disease and spreads by the vector tsetse fly, which carries the infectious Trypanosoma sp. in their saliva. Particularly, this parasitic disease affects the health of livestock, thereby imposing economic constraints on farmers, costing billions of dollars every year, especially in sub-Saharan African countries. Mainly considering the AAT disease as a multistage progression process, we previously performed upstream analysis to identify transcription factors (TFs), their co-operations, over-represented pathways and master regulators. However, downstream analysis, including effectors, corresponding gene expression profiles and their association with the regulatory SNPs (rSNPs), has not yet been established. Therefore, in this study, we aim to investigate the complex interplay of rSNPs, corresponding gene expression and downstream effectors with regard to the AAT disease progression based on two cattle breeds: trypanosusceptible Boran and trypanotolerant N’Dama. Our findings provide mechanistic insights into the effectors involved in the regulation of several signal transduction pathways, thereby differentiating the molecular mechanism with regard to the immune responses of the cattle breeds. The effectors and their associated genes (especially MAPKAPK5, CSK, DOK2, RAC1 and DNMT1) could be promising drug candidates as they orchestrate various downstream regulatory cascades in both cattle breeds."],["dc.description.sponsorship","Open-Access-Publikationsfonds 2022"],["dc.identifier.doi","10.3390/biology11050742"],["dc.identifier.pii","biology11050742"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/108595"],["dc.language.iso","en"],["dc.notes.intern","DOI-Import GROB-572"],["dc.relation.eissn","2079-7737"],["dc.rights","CC BY 4.0"],["dc.title","Deciphering the Molecular Mechanism Underlying African Animal Trypanosomiasis by Means of the 1000 Bull Genomes Project Genomic Dataset"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.subtype","original_ja"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","5121"],["dc.bibliographiccitation.issue","9"],["dc.bibliographiccitation.journal","International Journal of Molecular Sciences"],["dc.bibliographiccitation.volume","23"],["dc.contributor.affiliation","Haleem, Ataul; 1Breeding Informatics Group, Department of Animal Sciences, Georg-August University, Margarethe von Wrangell-Weg 7, 37075 Göttingen, Germany; ataul.haleem@uni-goettingen.de (A.H.); selina.klees@uni-goettingen.de (S.K.); armin.schmitt@uni-goettingen.de (A.O.S.)"],["dc.contributor.affiliation","Klees, Selina; 1Breeding Informatics Group, Department of Animal Sciences, Georg-August University, Margarethe von Wrangell-Weg 7, 37075 Göttingen, Germany; ataul.haleem@uni-goettingen.de (A.H.); selina.klees@uni-goettingen.de (S.K.); armin.schmitt@uni-goettingen.de (A.O.S.)"],["dc.contributor.affiliation","Schmitt, Armin Otto; 1Breeding Informatics Group, Department of Animal Sciences, Georg-August University, Margarethe von Wrangell-Weg 7, 37075 Göttingen, Germany; ataul.haleem@uni-goettingen.de (A.H.); selina.klees@uni-goettingen.de (S.K.); armin.schmitt@uni-goettingen.de (A.O.S.)"],["dc.contributor.affiliation","Gültas, Mehmet; 2Faculty of Agriculture, South Westphalia University of Applied Sciences, Lübecker Ring 2, 59494 Soest, Germany"],["dc.contributor.author","Haleem, Ataul"],["dc.contributor.author","Klees, Selina"],["dc.contributor.author","Schmitt, Armin Otto"],["dc.contributor.author","Gültas, Mehmet"],["dc.date.accessioned","2022-06-01T09:39:58Z"],["dc.date.available","2022-06-01T09:39:58Z"],["dc.date.issued","2022"],["dc.date.updated","2022-09-03T15:17:35Z"],["dc.description.abstract","Maize is one of the most widely grown cereals in the world. However, to address the challenges in maize breeding arising from climatic anomalies, there is a need for developing novel strategies to harness the power of multi-omics technologies. In this regard, pleiotropy is an important genetic phenomenon that can be utilized to simultaneously enhance multiple agronomic phenotypes in maize. In addition to pleiotropy, another aspect is the consideration of the regulatory SNPs (rSNPs) that are likely to have causal effects in phenotypic development. By incorporating both aspects in our study, we performed a systematic analysis based on multi-omics data to reveal the novel pleiotropic signatures of rSNPs in a global maize population. For this purpose, we first applied Random Forests and then Markov clustering algorithms to decipher the pleiotropic signatures of rSNPs, based on which hierarchical network models are constructed to elucidate the complex interplay among transcription factors, rSNPs, and phenotypes. The results obtained in our study could help to understand the genetic programs orchestrating multiple phenotypes and thus could provide novel breeding targets for the simultaneous improvement of several agronomic traits."],["dc.description.sponsorship","Open-Access-Publikationsfonds 2022"],["dc.identifier.doi","10.3390/ijms23095121"],["dc.identifier.pii","ijms23095121"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/108604"],["dc.language.iso","en"],["dc.notes.intern","DOI-Import GROB-572"],["dc.relation.eissn","1422-0067"],["dc.rights","CC BY 4.0"],["dc.title","Deciphering Pleiotropic Signatures of Regulatory SNPs in Zea mays L. Using Multi-Omics Data and Machine Learning Algorithms"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.subtype","original_ja"],["dc.type.version","published_version"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.artnumber","789"],["dc.bibliographiccitation.issue","2"],["dc.bibliographiccitation.journal","International Journal of Molecular Sciences"],["dc.bibliographiccitation.volume","22"],["dc.contributor.affiliation","Klees, Selina; \t\t \r\n\t\t Breeding Informatics Group, Department of Animal Sciences, Georg-August University, Margarethe von Wrangell-Weg 7, 37075 Göttingen, Germany, selina.klees@uni-goettingen.de"],["dc.contributor.affiliation","Lange, Thomas Martin; \t\t \r\n\t\t Breeding Informatics Group, Department of Animal Sciences, Georg-August University, Margarethe von Wrangell-Weg 7, 37075 Göttingen, Germany, thomasmartin.lange@stud.uni-goettingen.de"],["dc.contributor.affiliation","Bertram, Hendrik; \t\t \r\n\t\t Breeding Informatics Group, Department of Animal Sciences, Georg-August University, Margarethe von Wrangell-Weg 7, 37075 Göttingen, Germany, hendrik.bertram@stud.uni-goettingen.de"],["dc.contributor.affiliation","Rajavel, Abirami; \t\t \r\n\t\t Breeding Informatics Group, Department of Animal Sciences, Georg-August University, Margarethe von Wrangell-Weg 7, 37075 Göttingen, Germany, abirami.rajavel@uni-goettingen.de"],["dc.contributor.affiliation","Schlüter, Johanna-Sophie; \t\t \r\n\t\t Breeding Informatics Group, Department of Animal Sciences, Georg-August University, Margarethe von Wrangell-Weg 7, 37075 Göttingen, Germany, j.schlueter01@stud.uni-goettingen.de"],["dc.contributor.affiliation","Lu, Kun; \t\t \r\n\t\t College of Agronomy and Biotechnology, Southwest University, Chongqing 400715, China, drlukun@swu.edu.cn\t\t \r\n\t\t Academy of Agricultural Sciences, Southwest University, Chongqing 400715, China, drlukun@swu.edu.cn\t\t \r\n\t\t State Cultivation Base of Crop Stress Biology for Southern Mountainous Land of Southwest University, Chongqing 400715, China, drlukun@swu.edu.cn"],["dc.contributor.affiliation","Schmitt, Armin Otto; \t\t \r\n\t\t Breeding Informatics Group, Department of Animal Sciences, Georg-August University, Margarethe von Wrangell-Weg 7, 37075 Göttingen, Germany, armin.schmitt@uni-goettingen.de\t\t \r\n\t\t Center for Integrated Breeding Research (CiBreed), Albrecht-Thaer-Weg 3, Georg-August University, 37075 Göttingen, Germany, armin.schmitt@uni-goettingen.de"],["dc.contributor.affiliation","Gültas, Mehmet; \t\t \r\n\t\t Breeding Informatics Group, Department of Animal Sciences, Georg-August University, Margarethe von Wrangell-Weg 7, 37075 Göttingen, Germany, gueltas@informatik.uni-goettingen.de\t\t \r\n\t\t Center for Integrated Breeding Research (CiBreed), Albrecht-Thaer-Weg 3, Georg-August University, 37075 Göttingen, Germany, gueltas@informatik.uni-goettingen.de"],["dc.contributor.author","Klees, Selina"],["dc.contributor.author","Lange, Thomas Martin"],["dc.contributor.author","Bertram, Hendrik"],["dc.contributor.author","Rajavel, Abirami"],["dc.contributor.author","Schlüter, Johanna-Sophie"],["dc.contributor.author","Lu, Kun"],["dc.contributor.author","Schmitt, Armin Otto"],["dc.contributor.author","Gültas, Mehmet"],["dc.date.accessioned","2021-04-14T08:29:41Z"],["dc.date.available","2021-04-14T08:29:41Z"],["dc.date.issued","2021"],["dc.date.updated","2022-09-05T09:58:26Z"],["dc.description.sponsorship","Open-Access-Publikationsfonds 2021"],["dc.identifier.doi","10.3390/ijms22020789"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/82965"],["dc.language.iso","en"],["dc.notes.intern","DOI Import GROB-399"],["dc.relation.eissn","1422-0067"],["dc.rights","CC BY 4.0"],["dc.rights.uri","https://creativecommons.org/licenses/by/4.0/"],["dc.title","In Silico Identification of the Complex Interplay between Regulatory SNPs, Transcription Factors, and Their Related Genes in Brassica napus L. Using Multi-Omics Data"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.subtype","original_ja"],["dc.type.version","published_version"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","1033"],["dc.bibliographiccitation.issue","3"],["dc.bibliographiccitation.journal","International Journal of Molecular Sciences"],["dc.bibliographiccitation.volume","22"],["dc.contributor.affiliation","Rajavel, Abirami; \t\t \r\n\t\t Breeding Informatics Group, Department of Animal Sciences, Georg-August University, Margarethe von Wrangell-Weg 7, 37075 Göttingen, Germany, abirami.rajavel@uni-goettingen.de"],["dc.contributor.affiliation","Klees, Selina; \t\t \r\n\t\t Breeding Informatics Group, Department of Animal Sciences, Georg-August University, Margarethe von Wrangell-Weg 7, 37075 Göttingen, Germany, selina.klees@uni-goettingen.de"],["dc.contributor.affiliation","Schlüter, Johanna-Sophie; \t\t \r\n\t\t Breeding Informatics Group, Department of Animal Sciences, Georg-August University, Margarethe von Wrangell-Weg 7, 37075 Göttingen, Germany, j.schlueter01@stud.uni-goettingen.de"],["dc.contributor.affiliation","Bertram, Hendrik; \t\t \r\n\t\t Breeding Informatics Group, Department of Animal Sciences, Georg-August University, Margarethe von Wrangell-Weg 7, 37075 Göttingen, Germany, hendrik.bertram@stud.uni-goettingen.de"],["dc.contributor.affiliation","Lu, Kun; \t\t \r\n\t\t College of Agronomy and Biotechnology, Southwest University, Beibei, Chongqing 400715, China, drlukun@swu.edu.cn\t\t \r\n\t\t Academy of Agricultural Sciences, Southwest University, Beibei, Chongqing 400715, China, drlukun@swu.edu.cn\t\t \r\n\t\t State Cultivation Base of Crop Stress Biology, Southern Mountainous Land of Southwest University, Beibei, Chongqing 400715, China, drlukun@swu.edu.cn"],["dc.contributor.affiliation","Schmitt, Armin Otto; \t\t \r\n\t\t Breeding Informatics Group, Department of Animal Sciences, Georg-August University, Margarethe von Wrangell-Weg 7, 37075 Göttingen, Germany, armin.schmitt@uni-goettingen.de\t\t \r\n\t\t Center for Integrated Breeding Research (CiBreed), Albrecht-Thaer-Weg 3, Georg-August University, 37075 Göttingen, Germany, armin.schmitt@uni-goettingen.de"],["dc.contributor.affiliation","Gültas, Mehmet; \t\t \r\n\t\t Breeding Informatics Group, Department of Animal Sciences, Georg-August University, Margarethe von Wrangell-Weg 7, 37075 Göttingen, Germany, gueltas@informatik.uni-goettingen.de\t\t \r\n\t\t Center for Integrated Breeding Research (CiBreed), Albrecht-Thaer-Weg 3, Georg-August University, 37075 Göttingen, Germany, gueltas@informatik.uni-goettingen.de"],["dc.contributor.author","Rajavel, Abirami"],["dc.contributor.author","Klees, Selina"],["dc.contributor.author","Schlüter, Johanna-Sophie"],["dc.contributor.author","Bertram, Hendrik"],["dc.contributor.author","Lu, Kun"],["dc.contributor.author","Schmitt, Armin Otto"],["dc.contributor.author","Gültas, Mehmet"],["dc.date.accessioned","2021-04-14T08:29:40Z"],["dc.date.available","2021-04-14T08:29:40Z"],["dc.date.issued","2021"],["dc.date.updated","2022-09-05T10:05:28Z"],["dc.description.sponsorship","Open-Access-Publikationsfonds 2021"],["dc.identifier.doi","10.3390/ijms22031033"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/82964"],["dc.language.iso","en"],["dc.notes.intern","DOI Import GROB-399"],["dc.relation.eissn","1422-0067"],["dc.relation.orgunit","Abteilung Züchtungsinformatik"],["dc.rights","CC BY 4.0"],["dc.rights.uri","https://creativecommons.org/licenses/by/4.0/"],["dc.title","Unravelling the Complex Interplay of Transcription Factors Orchestrating Seed Oil Content in Brassica napus L."],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.subtype","original_ja"],["dc.type.version","published_version"],["dspace.entity.type","Publication"]]