Biochemistry, Biophysics and Molecular Biology

Article commentary

Swarm: robust and fast clustering method for amplicon-based studies
184 citations · 13,456 views · 1,924 downloads
Anvi’o: an advanced analysis and visualization platform for ‘omics data
136 citations · 18,091 views · 3,003 downloads
On the reproducibility of science: unique identification of research resources in the biomedical literature
108 citations · 23,422 views · 2,495 downloads
Swarm v2: highly-scalable and high-resolution amplicon clustering
79 citations · 4,112 views · 750 downloads
ezRAD: a simplified method for genomic genotyping in non-model organisms
79 citations · 11,933 views · 2,726 downloads
Characterization of RNA in exosomes secreted by human breast cancer cell lines using next-generation sequencing
75 citations · 13,756 views · 4,210 downloads
dDocent: a RADseq, variant-calling pipeline designed for population genomics of non-model organisms
59 citations · 6,174 views · 1,530 downloads
Sequencing 16S rRNA gene fragments using the PacBio SMRT DNA sequencing system
57 citations · 10,005 views · 1,926 downloads
A large-scale field study examining effects of exposure to clothianidin seed-treated canola on honey bee colony health, development, and overwintering success
61 citations · 8,686 views · 2,618 downloads
Predominant intragenic methylation is associated with gene expression characteristics in a bivalve mollusc
52 citations · 3,601 views · 750 downloads

Discussing these articles

I'm late to the party. Just found another #amplicon #clustering approach - interesting, but already from 2014: "Swarm: robust and fast clustering method for amplicon-based studies" by Mahé et al. https://t.co/58YjrBmc0E

A new tool for OTU table construction, that we are studying for future use: Swarm v2: scalable amplicon clustering https://t.co/1QbZQhUWPp via @thePeerJ

Getting familiar with this great tool to process our RADseq outputs of coral reef fishes in the Indian Ocean! dDocent: a RADseq, variant-calling pipeline designed for population genomics of non-model organisms https://t.co/8BO7rw5sEG via @thePeerJ @LE_group_ETHWSL @ReeFishNews

Our field study on clothianidin seed-treated canola and honeybees was published 3 years ago today! @thePeerJ https://t.co/Vslm4r7Itr

@thosjleeper @joshdeleeuw also see Carp (2012) https://t.co/yGyinvy6lI and Vasilevsky et al. (2013) https://t.co/MdEmsGg0c9

Policy: NIH plans to enhance reproducibility
http://www.nature.com/news/policy-nih-plans-to-enhance-reproducibility-1.14586

Unreliable research: Trouble at the lab
http://www.economist.com/news/briefing/21588057-scientists-think-science-self-correcting-alarming-degree-it-not-trouble

Failure to replicate, spoiled milk and unspilled beans
http://buildingblogsofscience.wordpress.com/2013/09/06/failure-to-replicate-spoiled-milk-and-unspilled-beans/

Many Papers Lack Detailed Methods
http://www.the-scientist.com/?articles.view/articleNo/37382/title/Many-Papers-Lack-Detailed-Methods/