A5055139301- Polysaccharides and Plant Cell Walls
- Plant nutrient uptake and metabolism
- Plant Molecular Biology Research
- Topic Modeling
- Machine Learning and Data Classification
- Bioinformatics and Genomic Networks
- Biomedical Text Mining and Ontologies
- Advanced Cellulose Research Studies
- Semantic Web and Ontologies
- Natural Language Processing Techniques
- Plant Reproductive Biology
- Light effects on plants
- Gene expression and cancer classification
- Explainable Artificial Intelligence (XAI)
- Service-Oriented Architecture and Web Services
- Tree Root and Stability Studies
- Skin Protection and Aging
- Plant Gene Expression Analysis
- Biofuel production and bioconversion
- Advanced Text Analysis Techniques
- Computational Drug Discovery Methods
- Information Technology Governance and Strategy
- Business Process Modeling and Analysis
- Machine Learning in Bioinformatics
- Neonatal Respiratory Health Research
Stanford University
2013-2021
Max Planck Institute of Molecular Plant Physiology
2009-2013
Max Planck Society
2009-2012
In plants, regulation of cellulose synthesis is fundamental for morphogenesis and plant growth. Cellulose synthesized at the plasma membrane, orientation guided by cortical microtubules; however, guiding mechanism currently unknown. We show that conditional root elongation pom2 mutants are impaired in cell elongation, fertility, microtubule-related functions. Map-based cloning POM-POM2 locus revealed it allelic to CELLULOSE SYNTHASE INTERACTING1 (CSI1). Fluorescently tagged POM2/CSI1s...
Cellulose synthase-interactive protein 1 (CSI1) was identified in a two-hybrid screen for proteins that interact with cellulose synthase (CESA) isoforms involved primary plant cell wall synthesis. CSI1 encodes 2,150-amino acid contains 10 predicted Armadillo repeats and C2 domain. Mutations cause defective elongation hypocotyls roots reduce content. is associated CESA complexes, csi1 mutants affect the distribution movement of complexes plasma membrane.
The actin and microtubule cytoskeletons regulate cell shape across phyla, from bacteria to metazoans. In organisms with walls, the wall acts as a primary constraint of shape, generation specific depends on cytoskeletal organization for deposition and/or expansion. higher plants, cortical microtubules help organize construction by positioning delivery cellulose synthase (CesA) complexes guiding their trajectories orient newly synthesized microfibrils. cytoskeleton is required normal...
Braden Hancock, Paroma Varma, Stephanie Wang, Martin Bringmann, Percy Liang, Christopher Ré. Proceedings of the 56th Annual Meeting Association for Computational Linguistics (Volume 1: Long Papers). 2018.
In plants, the presence of a load-bearing cell wall presents unique challenges during division. Unlike other eukaryotes, which undergo contractile cytokinesis upon completion mitosis, plants instead synthesize and assemble new dividing to separate newly formed daughter cells. Here, we mine transcriptome data from individual types in Arabidopsis thaliana stomatal lineage identify CSLD5, member Cellulose Synthase Like-D family, as biosynthesis enzyme uniquely enriched rapidly populations. We...
In many developmental contexts, cell lineages have variable or flexible potency to self-renew. What drives a exit from proliferative state and begin differentiation, retain the capacity divide days years later is not clear. Here we exploit mixed potential of stomatal lineage ground (SLGC) in
We introduce a biomedical information extraction (IE) pipeline that extracts biological relationships from text and demonstrate its components, such as named entity recognition (NER) relation (RE), outperform state-of-the-art in BioNLP. apply it to tens of millions PubMed abstracts extract protein-protein interactions (PPIs) augment these extractions knowledge graph already contains PPIs extracted STRING, the leading structured PPI database. show that, despite containing an established...
Training accurate classifiers requires many labels, but each label provides only limited information (one bit for binary classification). In this work, we propose BabbleLabble, a framework training in which an annotator natural language explanation labeling decision. A semantic parser converts these explanations into programmatic functions that generate noisy labels arbitrary amount of unlabeled data, is used to train classifier. On three relation extraction tasks, find users are able with...
Identification of disease genes, which are a set genes associated with disease, plays an important role in understanding and curing diseases. In this paper, we present biomedical knowledge graph designed specifically for problem, propose novel machine learning method that identifies on such graphs by leveraging recent advances network biology representation learning, study the effects various relation types prediction performance, empirically demonstrate our algorithms outperform its closest...