Gebruikersprofielen voor author:"Schultheiss Sebastian J."

Sebastian J. Schultheiss

computomics.com
Geverifieerd e-mailadres voor computomics.com
Geciteerd door 1431

[HTML][HTML] Multiple reference genomes and transcriptomes for Arabidopsis thaliana

X Gan, O Stegle, J Behr, JG Steffen, P Drewe… - Nature, 2011 - nature.com
Genetic differences between Arabidopsis thaliana accessions underlie the plant's extensive
phenotypic variation, and until now these have been interpreted largely in the context of the
annotated reference accession Col-0. Here we report the sequencing, assembly and …

Hormonal control of the shoot stem-cell niche

Z Zhao, SU Andersen, K Ljung, K Dolezal, A Miotk… - Nature, 2010 - nature.com
The classic phytohormones cytokinin and auxin play essential roles in the maintenance of
stem-cell systems embedded in shoot and root meristems, and exhibit complex functional
interactions 1, 2, 3, 4. Here we show that the activity of both hormones directly converges on …

De novo assembly of the cattle reference genome with single-molecule sequencing

BD Rosen, DM Bickhart, RD Schnabel, S Koren… - …, 2020 - academic.oup.com
Background Major advances in selection progress for cattle have been made following the
introduction of genomic tools over the past 10–12 years. These tools depend upon the Bos
taurus reference genome (UMD3. 1.1), which was created using now-outdated technologies …

[HTML][HTML] Transcriptional control of a plant stem cell niche

W Busch, A Miotk, FD Ariel, Z Zhao, J Forner, G Daum… - Developmental cell, 2010 - Elsevier
Despite the independent evolution of multicellularity in plants and animals, the basic
organization of their stem cell niches is remarkably similar. Here, we report the genome-
wide regulatory potential of WUSCHEL, the key transcription factor for stem cell …

KIRMES: kernel-based identification of regulatory modules in euchromatic sequences

SJ Schultheiss, W Busch, JU Lohmann… - …, 2009 - academic.oup.com
Motivation: Understanding transcriptional regulation is one of the main challenges in
computational biology. An important problem is the identification of transcription factor (TF)
binding sites in promoter regions of potential TF target genes. It is typically approached by …

[HTML][HTML] Persistence and availability of web services in computational biology

SJ Schultheiss, MC Münch, GD Andreeva, G Rätsch - PLoS One, 2011 - journals.plos.org
We have conducted a study on the long-term availability of bioinformatics Web services: an
observation of 927 Web services published in the annual Nucleic Acids Research Web
Server Issues between 2003 and 2009. We found that 72% of Web sites are still available at …

[HTML][HTML] Accurate machine learning-based germination detection, prediction and quality assessment of three grain crops

N Genze, R Bharti, M Grieb… - Plant …, 2020 - plantmethods.biomedcentral.com
Assessment of seed germination is an essential task for seed researchers to measure the
quality and performance of seeds. Usually, seed assessments are done manually, which is a
cumbersome, time consuming and error-prone process. Classical image analyses methods …

Oqtans: the RNA-seq workbench in the cloud for complete and reproducible quantitative transcriptome analysis

VT Sreedharan, SJ Schultheiss, G Jean… - …, 2014 - academic.oup.com
We present Oqtans, an open-source workbench for quantitative transcriptome analysis, that
is integrated in Galaxy. Its distinguishing features include customizable computational
workflows and a modular pipeline architecture that facilitates comparative assessment of …

[HTML][HTML] Ten simple rules for providing a scientific web resource

SJ Schultheiss - PLoS Comput Biol, 2011 - journals.plos.org
Many projects in computational biology lead to the creation of a small application program or
collection of scripts that can be of use to other scientists. A natural progression is to make
this tool available via a Web site or by creating a service for it, from now on collectively …

Oqtans: a Galaxy-integrated workflow for quantitative transcriptome analysis from NGS Data

SJ Schultheiss, G Jean, J Behr, R Bohnert, P Drewe… - BMC …, 2011 - Springer
Background The current revolution in sequencing technologies allows us to obtain a much
more detailed picture of transcriptomes via RNA-Sequencing. We have developed the first
integrative online platform, oqtans, for quantitatively analyzing RNA-Seq experiments. Our …