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List of works by Thomas Girke

A maximum common substructure-based algorithm for searching and predicting drug-like compounds

scientific article published on July 2008

Accelerated similarity searching and clustering of large compound sets by geometric embedding and locality sensitive hashing

scientific article

Alcohol Consumption Modulates Host Defense in Rhesus Macaques by Altering Gene Expression in Circulating Leukocytes

scientific article published on 30 November 2015

AlignGraph: algorithm for secondary de novo genome assembly guided by closely related references

scientific article

Annotating genes of known and unknown function by large-scale coexpression analysis

scientific article published on 19 March 2008

BRANCH: boosting RNA-Seq assemblies with partial or related genomic sequences

scientific article

ChemMine tools: an online service for analyzing and clustering small molecules

scientific article (publication date: 16 May 2011)

ChemMine. A compound mining database for chemical genomics.

scientific article

Cheminformatic analysis of high-throughput compound screens.

scientific article

ChemmineR: a compound mining framework for R.

scientific article

Cloning and characterization of microRNAs from rice

scientific article published in April 2005

Differential mRNA translation contributes to gene regulation under non-stress and dehydration stress conditions in Arabidopsis thaliana

scientific article published in June 2004

Erratum: Large meta-analysis of genome-wide association studies identifies five loci for lean body mass

scientific article

Expression analysis of Arabidopsis vacuolar sorting receptor 3 reveals a putative function in guard cells

scientific article

Gene Expression Analysis of Shoot Apical Meristem Cell Types ⬇️

scientific article published on January 1, 2013

Genome cluster database. A sequence family analysis platform for Arabidopsis and rice

scientific article published on May 2005

Hairy and Groucho mediate the action of juvenile hormone receptor Methoprene-tolerant in gene repression

scientific article

High-throughput small molecule screening reveals Nrf2-dependent and -independent pathways of cellular stress resistance

scientific article published on 02 October 2020

Identification and characterization of endogenous small interfering RNAs from rice

scientific article

Identification of a novel D6‐acyl‐group desaturase by targeted gene disruption in Physcomitrella patens ⬇️

scientific article published on July 1, 1998

In Planta Expression or Delivery of Potato Aphid Macrosiphum euphorbiae Effectors Me10 and Me23 Enhances Aphid Fecundity ⬇️

scientific article published on January 1, 2013

Isolation and analysis of mRNAs from specific cell types of plants by ribosome immunopurification

scientific article published in January 2013

Juvenile hormone and its receptor, methoprene-tolerant, control the dynamics of mosquito gene expression

scientific article published on 30 April 2013

Large meta-analysis of genome-wide association studies identifies five loci for lean body mass

scientific article

Large-scale bioactivity analysis of the small-molecule assayed proteome

scientific article

Linking genes of unknown function with abiotic stress responses by high-throughput phenotype screening

article

MODIFIED VACUOLE PHENOTYPE1 is an Arabidopsis myrosinase-associated protein involved in endomembrane protein trafficking

scientific article published on 30 October 2009

Orchestrating high-throughput genomic analysis with Bioconductor

scientific article

Predicting conserved protein motifs with Sub-HMMs.

scientific article

Profiling translatomes of discrete cell populations resolves altered cellular priorities during hypoxia in Arabidopsis.

scientific article published on 20 October 2009

Regulation of Gene Expression Patterns in Mosquito Reproduction.

scientific article published on 14 August 2015

SEED: efficient clustering of next-generation sequences

scientific article

Sequence analysis of the potato aphid Macrosiphum euphorbiae transcriptome identified two new viruses.

scientific article

Small RNA Profiling Reveals Phosphorus Deficiency as a Contributing Factor in Symptom Expression for Citrus Huanglongbing Disease ⬇️

scientific article published on 05 January 2013

Small RNAs and the regulation of cis-natural antisense transcripts in Arabidopsis. ⬇️

scientific article

The Cell Wall Navigator database. A systems-based approach to organism-unrestricted mining of protein families involved in cell wall metabolism

scientific article published in October 2004

The floral homeotic protein APETALA2 recognizes and acts through an AT-rich sequence element ⬇️

scientific article published on April 18, 2012

The vegetative vacuole proteome of Arabidopsis thaliana reveals predicted and unexpected proteins

scientific article published on 11 November 2004

Towards a modeling infrastructure for studying plant cells

scientific article published on 01 June 2003

Transcriptome-wide microRNA and target dynamics in the fat body during the gonadotrophic cycle of Aedes aegypti

scientific article

Transcriptomes of Eight Arabidopsis thaliana Accessions Reveal Core Conserved, Genotype- and Organ-Specific Responses to Flooding Stress.

scientific article

Translational dynamics revealed by genome-wide profiling of ribosome footprints in Arabidopsis

scientific article

What makes species unique? The contribution of proteins with obscure features

scientific article published on January 2006

bioassayR: Cross-Target Analysis of Small Molecule Bioactivity.

scientific article published on July 2016

fmcsR: mismatch tolerant maximum common substructure searching in R.

scientific article

systemPipeR: NGS workflow and report generation environment

scientific article

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