Nature Methods | Methagora

Top downloads for May ’09

Below I’ve posted the rankings of the six most popular papers published in our May issue based on downloads and page-views during May. The most popular paper by a rather large margin was a paper describing mRNA-Seq analysis of single cells. Regular readers of this blog won’t be surprised by this given the high level of interest that next-generation sequencing papers generally receive.

A surprising omission from the list is the paper by Allan Bradley and colleagues describing the use of transposons carrying reprogramming factors to generate iPS cells followed by removal of the transposons from the genome. After analyzing the download stats it looks like the explanation for this is the fact that we express-published the paper online ahead of the other papers from the May issue so it would appear soon after a similar paper in Nature. So although initial downloads were very high, they were trailing off during May. In contrast, downloads of newer papers from the May issue were still at their peak during May.

Discerning readers will note that the last paper in the list is actually a Correspondence. Because Correspondences sometimes contain original data we will now be including these in the rankings with original research papers when appropriate.

Top 6 research papers published in the May issue

1. mRNA-Seq whole-transcriptome analysis of a single cell

2. Universal sample preparation method for proteome analysis

3. Super-resolution video microscopy of live cells by structured illumination

4. Isolation of human iPS cells using EOS lentiviral vectors to select for pluripotency

5. Single molecule–sensitive probes for imaging RNA in live cells

6. Massively parallel exon capture and library-free resequencing across 16 genomes

As in past months, there has been very little movement in the list of most popular papers published in months prior to the issue month being analyzed. The main changes this month are the appearances of two papers from the April issue and an old paper from 2007 describing new far-red fluorescent proteins Katushka and mKate. The only explanation I come come up with for this is the appearance of an article in Science from Roger Tsien that compared the performance of a new fluorescent protein they developed to mKate instead of the more recent improved variant mKate2 published in this paper in The Biochemical Journal.

Top 10 research papers published prior to the May issue

1. Mapping and quantifying mammalian transcriptomes by RNA-Seq

2. Genome-wide analysis of transcription factor binding sites based on ChIP-Seq data

3. Stem cell transcriptome profiling via massive-scale mRNA sequencing

4. Amplification-free Illumina sequencing-library preparation facilitates improved mapping and assembly of (G+C)-biased genomes

5. Photoactivatable mCherry for high-resolution two-color fluorescence microscopy

6. Stable knockdown of microRNA in vivo by lentiviral vectors

7. Bright far-red fluorescent protein for whole-body imaging

8. Global mapping of protein-DNA interactions by digital genomic footprinting

9. Genome-wide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing

10. Lifeact: a versatile marker to visualize F-actin


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