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Fast and sensitive mapping of bisulfite-treated sequencing data
bisulfite  paper  mapping  methylation  software  bioinformatics 
14 days ago
Datavisualization.ch Selected Tools
visualization  tools 
18 days ago
Environmentally Induced Epigenetic Transgenerational Inheritance of Ovarian Disease
paper  methylation  epigenetic  heredity  pesticide  hydrocarbon  ovarian  plastic  environment 
21 days ago
RSS Feeds Directory for Twitter, Facebook, YouTube, etc.
RSS  feeds 
22 days ago
Transposable Elements tools @  Bergman Lab
tools  bioinformatics  transposable  TE  software  fish546 
24 days ago
Data and visualization blogs worth following
data  visualization 
25 days ago
Characterization of DNA methyltransferase specificities using single-molecule, real-time DNA sequencing
methylation  sequencing  bisulfite  pacbio  technique  merv  paper 
28 days ago
Network Analysis of Oyster Transcriptome Revealed a Cascade of Cellular Responses during Recovery after Heat Shock
paper  network  oyster  crassostrea  microarray  R  visualization 
29 days ago
Methods for visual mining of genomic and proteomic data atlases
paper  visualization  proteomic  protein-interactions  genomics 
4 weeks ago
A proteomics approach reveals divergent molecular responses to salinity in populations of European whitefish (Coregonus lavaretus) - PAPAKOSTAS - 2012 - Molecular Ecology - Wiley Online Library
paper  proteomic  ms  salinity 
4 weeks ago
Motif discovery and transcription factor binding sites before and after the next-generation sequencing era
paper  motif  bioinformatics  fish546 
4 weeks ago
Epigenome-Wide Scans Identify Differentially Methylated Regions for Age and Age-Related Phenotypes in a Healthy Ageing Population
aging  senescence  methylation  epigenetic  paper  heredity 
4 weeks ago
All My Tweets - View all your tweets on one page.
twitter  tools 
4 weeks ago
Oases: robust de novo RNA-seq assembly across the dynamic range of expression levels
paper  ngs  software  assembly  commandline  bioinformatics  fish546 
4 weeks ago
Galaxy @ Tubingen
galaxy  gff  genbank  converter  bioinformatics 
5 weeks ago
PRGmatic - Sarah M. Hird
PRGmatic is an efficient pipeline for the collation of homologous loci generated with genome-enriched, next-generation sequencing methodologies.
ngs  bioinformatics  snp  loci  software  pipeline  fish546 
5 weeks ago
matrix2png web application interface
heatmap  webapp  bioinformatics 
5 weeks ago
eulerAPE: Drawing Area-Proportional Euler and Venn Diagrams Using Ellipses
venn  diagrams  figure  software  bioinformatics  java 
5 weeks ago
Arena3D - features
visualization  3d  biological  graphics  network 
5 weeks ago
Easyfig
blast  bioinformatics  prokaryote  bacteria  visualization  genome 
5 weeks ago
Bioconductor - methVisual
analysis  tools  bioinformatics  methylation  bisulfite  R 
6 weeks ago
A tutorial in basic digital normalization — ANGUS v2.0 documentation
tutorial  normalization  ngs  diginorm  assembly  amazon  cloud  howto 
6 weeks ago
Ultra-low-input, tagmentation-based whole genome bisulfite sequencing
paper  methylation  epigenetic  method  ngs  htgs  merv  bisulfite 
7 weeks ago
Epigenetic features are significantly associated with alternative splicing
epigenetic  splicing  paper  merv 
7 weeks ago
Epigenetics: A New Challenge in the Post-Genomic Era of Livestock
paper  methylation  epigenetic  livestock  review 
7 weeks ago
A single pass approach to reducing sampling variation, removing errors, and scaling de novo assembly of shotgun sequences
ngs  bioinformatics  normalization  software  assembly  transcriptomes  paper 
9 weeks ago
Open Source Web Design - Our Favorite Web Design Templates
website  design  template 
9 weeks ago
BioGPS - your Gene Portal System
pathway  gene  annotation  webapp  ontology  bioinformatics 
10 weeks ago
Visualization Tools & Resources | interactive everything
tools  visualization  resource  graphs 
11 weeks ago
Disease Tolerance as a Defense Strategy
paper  immune  tolerance  resistance  host  infection  pathogen  review 
11 weeks ago
PLoS ONE: High-Resolution Analysis of Cytosine Methylation in Ancient DNA
paper  methylation  epigenetic  bisulfite 
11 weeks ago
DataThief
data  graphics  software  calculations  numbers  conversion 
11 weeks ago
Science / Ecology Mobil Apps Bruna Lab Home Page
iphone  science  apps  ecology  data  mobile  teaching  citizenscience 
12 weeks ago
The Open Data Handbook — Open Data Handbook
opendata  openscience  handbook  ons  notebook  openaccess 
12 weeks ago
RNA-seq library prep without poly-A selection - SEQanswers
seqanswers  rna  ribosomal  depletion  technique  ngs  library 
12 weeks ago
Antarctica’s Erratic Climate Shaped Icefish Evolution | Thoughtomics, Scientific American Blog Network
fish441  climate  cold  evolution  fish  antartica 
february 2012
Invertebrate Evolution: Bringing Order to the Molluscan Chaos
paper  mollusc  phylogeney  fish310 
february 2012
Phylogenomics reveals deep molluscan relationships : Nature : Nature Publishing Group
paper  fish310  mollusc  phylogeney 
february 2012
Social Media for Science | Scoop.it
social  socialnetworking  scientist  twitter  sharing  openscience  science2.0 
february 2012
Rapid Microsatellite Identification from Illumina Paired-End Genomic Sequencing in Two Birds and a Snake
paper  ssr  microsatellite  ngs  454  illumina 
february 2012
Draft Genome of the Pearl Oyster Pinctada fucata: A Platform for Understanding Bivalve Biology
paper  oyster  genome  ngs  pinctada  fish310  454  illumina 
february 2012
Evaluation of Three Northern Quahog (=Hard Clam) Mercenaria mercenaria (Linnaeus) Strains Grown in Massachusetts and New Jersey for QPX-Resistance
paper  quahog  qpx 
january 2012
Ontologizer - Computational Biology Group
ontology  go  software  webapp  java  ngs  visualization 
january 2012
High-Resolution Analysis of Cytosine Methylation in Ancient DNA
paper  methylation  epigenetic  dna 
january 2012
Synteny Database
synteny  database  comparison  bioinformatics  software  webapp  fish546 
january 2012
Bioinformatics for Biologists - minicourse
fish546  bioinformatics  course  commandline  lecture  tutorial  perl 
january 2012
Animal Genome Databases and Tools
bioinformatics  fish546  software  aquaculture  genomics  blast  webapp 
january 2012
Transcriptomics of environmental acclimatization and survival in wild adult Pacific sockeye salmon (Oncorhynchus nerka) during spawning migration - EVANS - 2011 - Molecular Ecology - Wiley Online Library
paper  microarray  salmon  acclimatization  sockeye  spawning  migration  fish441 
january 2012
NCBI Genome Workbench
software  bioinformatics  ngs  ncbi  fish546  visualization 
january 2012
DNA Methylation of the Gonadal Aromatase (cyp19a) Promoter Is Involved in Temperature-Dependent Sex Ratio Shifts in the European Sea Bass.
paper  methylation  epigenetic  aromatase  reproduction  fish441  temperature 
january 2012
Differential expression patterns of conserved miRNAs and isomiRs during Atlantic halibut development
paper  epigenetic  microRNA  mirna  halibut  development 
january 2012
Epigenetics and the environment: emerging patterns and implications : Article : Nature Reviews Genetics
paper  review  epigenetic  environment  fish441  plant  animal  methylation 
january 2012
Next-generation genomics: an integrative approach [Nat Rev Genet. 2010] - PubMed - NCBI
paper  review  epigenetic  rna-seq  ngs  gwa  chip-seq  integrative  fish441 
january 2012
RNA Editing Underlies Temperature Adaptation in K+ Channels from Polar Octopuses
paper  epigenetic  RNA  octopus  fish441  fish310  polar  adaptation  temperature 
january 2012
RNA Editing Underlies Temperature Adaptation in K+ Channels from Polar Octopuses
paper  adaptive  octopus  fish546  epigenetic  RNA  environment  ion 
january 2012
Epigenetics and the environment: emerging patterns and implications : Article : Nature Reviews Genetics
paper  epigenetic  methylation  review  environment  fish441  toxicology 
january 2012
Genome Modeling Tools - Main
analysis  bioinformatics  data  genome  library  software  fish546 
january 2012
RNA Deep Sequencing Reveals Differential MicroRNA Expression during Development of Sea Urchin and Sea Star
paper  mirna  microRNA  urchin  illumina  fish546  development  ngs 
january 2012
A pipeline for MeDIP-seq data quality assessment and analysis
pipeline  ngs  medip  methylation  software  bioinformatics  epigenetic 
january 2012
Artemis: Genome Browser - Wellcome Trust Sanger Institute
java  ngs  software  bioinformatics  fish546 
january 2012
Review and perspectives of physiological mechanisms underlying genetically-based resistance of the Pacific oyster Crassostrea gigas to summer mortality
physiology  oyster  crassostrea  resistance  paper  genes  mortality 
december 2011
Jack of all nectars, master of most: DNA methylation and the epigenetic basis of niche width in a flower-living yeast - HERRERA - 2011 - Molecular Ecology - Wiley Online Library
epigenetic  methylation  paper  ecology 
december 2011
In Vivo RNA Interference of a Gonad-Spe - PubMed Mobile
paper  oyster  crassostrea  rnai  gonad 
december 2011
Catching-up but telomere loss: half-opening the black box of growth and ageing trade-off in wild king penguin chicks - GEIGER - 2011 - Molecular Ecology - Wiley Online Library
paper  telomere  aging  senescence  oxidative  growth  bird 
december 2011
The formation and mineralization of mollusk shell
paper  shell  fish310  acidification  prote 
december 2011
SalmonDB
database  salmon  bioinformatics  fish546 
december 2011
PGDSpider
An automated data conversion tool for connecting population genetics and genomics programs
bioinformatics  fish546  ngs  software  java  webapp  genetics  genomics 
november 2011
Wrong for science? « The Bug Geek
gedankenstuecke: Things you'll need for science: Ask lot of questions, make a lot of mistakes, allow yourself being distracted http://t.co/lPAbQ561
from instapaper
november 2011
Methylation changes associated with early maturation stages in the Atlantic salmon
salmon  paper  methylation  epigenetic  aflp  fish441 
november 2011
Tools and collaborative environments for bioinformatics research
paper  social  talk2.0  bioinformatics  fish546  collaboration 
november 2011
UniPathway
pathway  pathways  database  uniprot  GO  ontology  webapp  software  fish546  bioinformatics 
november 2011
PLoS ONE: Big Defensins, a Diverse Family of Antimicrobial Peptides That Follows Different Patterns of Expression in Hemocytes of the Oyster Crassostrea gigas
paper  oyster  crassostrea  immune  defensin 
november 2011
The activity level of a microbial community function can be predicted from its metatranscriptome : The ISME Journal
paper  metagenomics  microbial  rna  ngs  metatranscriptomics 
november 2011
Science Books (free)
books  science  reading  free  downloads  library 
november 2011
Epigenome characterization at single base-pair resolution
paper  epigenetic  methylation  technique 
november 2011
Gene Weaver
Gene Weaver allows users to integrate phenotype centered gene sets across species, tissue and experimental platform. Sets can be stored, shared and compared privately, among user defined groups of investigators, and across all users.
ontology  bioinformatics  fish546  ngs  sequences  software  webapp 
november 2011
If Food Can Overrule Genes, Can It Mess with Evolution? | The Crux | Discover Magazine
from instapaper
november 2011
Bioconductor
Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development.
bioinformatics  opensource  software  statistics  pcr  sequence  fish546 
november 2011
SignNow | Free eSignature & Online Digital Signatures
mobile  security  tools  sign  electronic  signature  software 
november 2011
The Evolution of Grief, Both Biological and Cultural, in the 21st Century | Culturing Science, Scientific American Blog Network
blogs.scientificamerican.com
from instapaper
november 2011
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