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Transcriptome assemblies 10 vertebrate species
2 types of content: a) Raw RNA-seq files from cell lines of 10 vertebrate species (human, mouse, cow, tasmanian devil, chicken, duck, zebra finch, xenopus, medaka and... -
Defining the Essential Function of Yeast Hsf1 Reveals a Compact Transcription...
We used the conditional chemical genetics approach known as “anchor away” (AA) to rapidly inactivate the essential yeast transcription factor Hsf1. We coupled Hsf1-AA to RNA-seq... -
Nano3P-seq: transcriptome-wide analysis of gene expression and tail dynamics ...
Nano3P-seq is a simple and robust method to accurately estimate transcript levels, tail lengths and tail nucleotide composition information in full-length individual reads, with... -
Project of basal ray-finned fishes
The project is to study the oldest fish lineages in the ray-finned fishes. Although they belong to fish, their body structure and behavior remain highly similar to that of the... -
The mouse intestinal bacterial collection (miBC) represents a unique resource...
The important role of mice as a model in research of microbe host interactions increased the need for determining the limits of such experiments due to host specificity and... -
Evolutionary comparison reveals that diverging CCCTC-binding factor (CTCF) si...
Comparison of conserved TAD boundaries reveals that diverging CTCF sites is an evolutionary conserved signature associated with TAD borders Overall design: 4C-seq samples for... -
Analysis of transcriptomic dynamics during the compatible and incompatible in...
Leptosphaeria maculans (anamorph Phoma lingam), the causal agent of blackleg disease in Brassica napus, poses a continual threat to canola/rapeseed production The overall goal... -
Mus musculus Raw sequence reads
16S rRNA comparative sequence analysis -
Pyricularia oryzae Genome sequencing and assembly
Deciphering the adaptive evolutionary patterns associated with biogeogrpahic diversity in the finger millet blast pathogen Magnaporthe oryzae: Development of a reference genome... -
Metagenomic next-generation sequencing for microbial pathogen
This study aims to detect pathogens in bronchoalveolar lavage fluid (BALF) from SCAP patients using both metagenomics extended-spectrum pathogenic microorganism sequencing... -
Deep sequencing of yeast and mouse tRNAs and tRNA fragments using OTTR
Deep sequencing of tRNAs have historically been nutoriously difficult. Here, we benchmark a newly developed library prep protocol termed OTTR agains intact tRNAs as well as tRNA... -
Toxoplasma gondii Transcriptome or Gene expression
We infected murine bone marrow-derived macrophages with 25 distinct Toxoplasma strains and generated host and parasite gene expression profiles using high-throughput RNA-seq. -
Comparative analysis of genome-scale, base-resolution DNA methylation profile...
We mapped DNA methylation in 580 animal species (535 vertebrates, 45 invertebrates), resulting in 2443 genome-scale, base-resolution DNA methylation profiles of primary tissue... -
Mining microbial metatranscriptomes for expression of antibiotic resistance g...
We use a novel approach (an analysis of metatranscriptomics data) to study antibiotic resistance, a topic that poses major health care concerns. We investigate resistance gene... -
Mus musculus Genome sequencing
kidney disease and gut microbiome -
EXPANDE project
EXPression AloNg Development and Evolution (EXPANDE) project aims to identify gene expression profiles expanded during embryogenesis and evolution. In brief, taking advantages... -
cis-regulatory logic of Shh expression reveals common history of unpaired and...
Despite their evolutionary, developmental, and functional importance the origin of vertebrate paired appendages remains a mystery. Classical ideas center on three hypotheses:... -
TENT5 cytoplasmic non-canonical poly(A) polymerases regulate the innate immun...
In this study, we aimed to identify mRNAs that are polyadenylated by TENT5 non-canonical poly(A) polymerases in Caenorhabditis elegans and murine macrophages using genome-wide... -
Global view on the metabolism of RNA poly(A) tails in yeast Saccharomyces cer...
The polyadenosine tail (poly[A]-tail) is a universal modification of eukaryotic messenger RNAs (mRNAs) and non-coding RNAs (ncRNAs). In budding yeast, Pap1-synthesized mRNA... -
Transcriptome of neurons in hooded seal and mouse
Neuronal gene expression of the visual cortex in hooded seal and mouse to identify the molecular mechanisms underlying hypoxia tolerance of the seal brain