An improved yeast transformation method for the generation of very large human antibody libraries

L Benatuil, JM Perez, J Belk… - … Engineering, Design & …, 2010 - academic.oup.com
Antibody library selection by yeast display technology is an efficient and highly sensitive
method to identify binders to target antigens. This powerful selection tool, however, is often …

Cloning and characterization of a sialidase from the filamentous fungus, Aspergillus fumigatus

ML Warwas, JHF Yeung, D Indurugalla… - Glycoconjugate …, 2010 - Springer
A gene encoding a putative sialidase was identified in the genome of the opportunistic
fungal pathogen, Aspergillus fumigatus. Computational analysis showed that this protein …

Maximization of negative correlations in time-course gene expression data for enhancing understanding of molecular pathways

T Zeng, J Li - Nucleic acids research, 2010 - academic.oup.com
Positive correlation can be diversely instantiated as shifting, scaling or geometric pattern,
and it has been extensively explored for time-course gene expression data and pathway …

Correlating Gene Expression Variation with cis-Regulatory Polymorphism in Saccharomyces cerevisiae

K Chen, E Van Nimwegen, N Rajewsky… - Genome biology and …, 2010 - academic.oup.com
Identifying the nucleotides that cause gene expression variation is a critical step in
dissecting the genetic basis of complex traits. Here, we focus on polymorphisms that are …

Clustering of DNA words and biological function: a proof of principle

M Hackenberg, A Rueda, P Carpena… - Journal of theoretical …, 2012 - Elsevier
Relevant words in literary texts (key words) are known to be clustered, while common words
are randomly distributed. Given the clustered distribution of many functional genome …

BayesPI-a new model to study protein-DNA interactions: a case study of condition-specific protein binding parameters for Yeast transcription factors

J Wang, Morigen - BMC bioinformatics, 2009 - Springer
Abstract Background We have incorporated Bayesian model regularization with biophysical
modeling of protein-DNA interactions, and of genome-wide nucleosome positioning to study …

[HTML][HTML] Discovering sequences with potential regulatory characteristics

M Bina, P Wyss, SA Lazarus, SR Shah, W Ren… - Genomics, 2009 - Elsevier
We developed a computational model to explore the hypothesis that regulatory instructions
are context dependent and conveyed through specific 'codes' in human genomic DNA. We …

Investigating the sequence landscape in the Drosophila initiator core promoter element using an enhanced MARZ algorithm

JM Dresch, RD Conrad, D Klonaros, RA Drewell - PeerJ, 2023 - peerj.com
The core promoter elements are important DNA sequences for the regulation of RNA
polymerase II transcription in eukaryotic cells. Despite the broad evolutionary conservation …

Methods for transforming yeast

CM Hsieh, JP Belk, JM Perez, L Benatuil - US Patent 9,200,270, 2015 - Google Patents
US9200270B2 - Methods for transforming yeast - Google Patents US9200270B2 - Methods for
transforming yeast - Google Patents Methods for transforming yeast Download PDF Info …

Common peptides shed light on evolution of Olfactory Receptors

A Gottlieb, T Olender, D Lancet, D Horn - BMC Evolutionary Biology, 2009 - Springer
Abstract Background Olfactory Receptors (ORs) form the largest multigene family in
vertebrates. Their evolution and their expansion in the vertebrate genomes was the subject …