Advanced search

Filter By:

Journal Check one or more journals to show results from those journals only.

Choose more journals

Article type Check one or more article types to show results from those article types only.
Subject Check one or more subjects to show results from those subjects only.
Date Choose a date option to show results from those dates only.

Custom date range

Clear all filters
Sort by:
Showing 1–11 of 11 results
Advanced filters: Author: "Uwe Ohler" Clear advanced filters

  • Divergent transcription from promoters and enhancers occurs in many species, but it is unclear if it is a general feature of all eukaryotic cis regulatory elements. Here the authors define cis regulatory elements in worms, flies, and human; and identify several differences in regulatory architecture among metazoans.

    • Mahmoud M. Ibrahim
    • Aslihan Karabacak
    • Uwe Ohler
    ResearchOpen Access
    Nature Communications
    Volume: 9, P: 1-15

  • High-throughput single-cell sequencing data can provide valuable biological insights but are computationally challenging to analyse due to the dimensionality of the data and batch-specific biases. Kopp and colleagues have developed a variational auto-encoder-based method using a novel loss function for simultaneous batch correction and dimensionality reduction.

    • Wolfgang Kopp
    • Altuna Akalin
    • Uwe Ohler
    ResearchOpen Access
    Nature Machine Intelligence
    Volume: 4, P: 162-168

  • Computational analysis of Ribo-seq data with ORFquant allows annotation and quantification of translation at the level of single open reading frames and reveals the extent of gene-specific differences in protein production in diverse human cell lines.

    • Lorenzo Calviello
    • Antje Hirsekorn
    • Uwe Ohler
    Research
    Nature Structural & Molecular Biology
    Volume: 27, P: 717-725

  • RiboTaper quantifies the three-nucleotide periodicity in Ribo-seq data to find translated open reading frames (ORFs). The de novo inferred set of ORFs comprehensively defines the cellular proteome across a wide expression range and comprises few additional translated noncoding regions.

    • Lorenzo Calviello
    • Neelanjan Mukherjee
    • Uwe Ohler
    Research
    Nature Methods
    Volume: 13, P: 165-170

  • RNA-recognition elements are identified for the fragile-X-syndrome-associated RNA-binding protein FMRP, in addition to its target messenger RNAs; although many of FMRP gene targets discovered are involved in brain function and autism spectrum disorder, a proportion are also dysregulated in mouse ovaries, suggesting cross-regulation of signalling pathways in different tissues.

    • Manuel Ascano
    • Neelanjan Mukherjee
    • Thomas Tuschl
    Research
    Nature
    Volume: 492, P: 382-386

  • Control of gene activity through transcriptional regulatory elements is a major driving force in human evolution. A new study measures nascent transcription directly and shows that sequence, activity and three-dimensional organization of transcriptional regulatory elements all contribute to the evolution of gene activity within primate CD4+ T cells.

    • Scott A. Lacadie
    • Uwe Ohler
    News & Views
    Nature Ecology & Evolution
    Volume: 2, P: 418-419

  • Paired-end reads consisting of 5′ transcription start sites and 3′ downstream sequences from transcripts in Drosophila melanogaster reveal distinct initiation patterns at different fly promoters and show that 5′ caps originating in coding regions are added posttranscriptionally.

    • Ting Ni
    • David L Corcoran
    • Jun Zhu
    Research
    Nature Methods
    Volume: 7, P: 521-527

  • The integration of microRNA target sequence features and data from cross-linking and immunoprecipitation of Argonaute proteins, implemented in the hidden Markov model–based framework MUMMIE, provides accurate prediction of microRNA targets.

    • William H Majoros
    • Parawee Lekprasert
    • Uwe Ohler
    Research
    Nature Methods
    Volume: 10, P: 630-633