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10.59350/9pq7c-g5073
10.59350/9pq7c-g5073
Screenager: screening times at bioRxiv
2,020
2020-03-30
posted-content
Front Matter
null
null
null
null
null
null
Stephen Royle
1
null
0
0
true
https://creativecommons.org/licenses/by/4.0/legalcode
null
null
https://doi.org/10.59350/9pq7c-g5073
null
When a preprint is uploaded to bioRxiv, it undergoes screening before it appears online. How long does it take for Affiliates to screen preprints at bioRxiv? tl;dr I used R to look at bioRxiv screening times.
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.1101/777284
10.1101/777284
Files removed following a technical error
2,019
2019-10-17
posted-content
openRxiv
null
null
null
null
null
null
bioRxiv
1
null
0
46
true
null
null
null
https://doi.org/10.1101/777284
null
This manuscript was removed because it posted owing to a technical error
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.59350/hp99g-j5r37
10.59350/hp99g-j5r37
ShoRtcut from bioRxiv to GigaScience
2,017
2017-03-23
posted-content
Front Matter
null
null
null
null
null
null
Hans Zauner
1
null
0
0
true
https://creativecommons.org/licenses/by/4.0/legalcode
null
null
https://doi.org/10.59350/hp99g-j5r37
null
<em> <strong> Authors can now submit their bioRxiv preprints directly to GigaScience via the biorXiv platform, at the push of a button. This handy technical integration is another hallmark of biology preprints becoming a normal, accepted, and speedy way of communicating research results. </strong> &lt...
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.59350/v86s3-e7x22
10.59350/v86s3-e7x22
ShoRtcut from bioRxiv to GigaScience
2,017
2017-03-23
posted-content
Front Matter
null
null
null
null
null
null
Hans Zauner
1
null
0
0
true
https://creativecommons.org/licenses/by/4.0/legalcode
null
null
https://doi.org/10.59350/v86s3-e7x22
https://api.rogue-scholar.org/posts/10.59350/v86s3-e7x22.pdf
<em> <strong> Authors can now submit their bioRxiv preprints directly to GigaScience via the biorXiv platform, at the push of a button. This handy technical integration is another hallmark of biology preprints becoming a normal, accepted, and speedy way of communicating research results. </strong> &lt...
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.59350/q8emx-zgr60
10.59350/q8emx-zgr60
Screenager: screening times at bioRxiv
2,020
2020-03-30
posted-content
Front Matter
null
null
null
null
null
null
Stephen Royle
1
null
2
0
true
https://creativecommons.org/licenses/by/4.0/legalcode
null
null
https://doi.org/10.59350/q8emx-zgr60
null
When a preprint is uploaded to bioRxiv, it undergoes screening before it appears online. How long does it take for Affiliates to screen preprints at bioRxiv? tl;dr I used R to look at bioRxiv screening times.
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.59350/xnncd-29243
10.59350/xnncd-29243
White label: the growth of bioRxiv
2,015
2015-12-11
posted-content
Front Matter
null
null
null
null
null
null
Stephen Royle
1
null
0
0
true
https://creativecommons.org/licenses/by/4.0/legalcode
null
null
https://doi.org/10.59350/xnncd-29243
null
bioRxiv, the preprint server for biology, recently turned 2 years old. This seems a good point to take a look at how bioRxiv has developed over this time and to discuss any concerns sceptical people may have about using the service.
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.59350/g47rj-ep603
10.59350/g47rj-ep603
Over and Over: Preprint revisions on bioRxiv
2,021
2021-04-07
posted-content
Front Matter
null
null
null
null
null
null
Stephen Royle
1
null
0
0
true
https://creativecommons.org/licenses/by/4.0/legalcode
null
null
https://doi.org/10.59350/g47rj-ep603
null
The aim of this post is to look at revisions of bioRxiv preprints. I'm interested how long preprint versions exist on bioRxiv. In other words: how long do revisions to preprints take? The data from bioRxiv is a complex dataset with many caveats as I'll explain further down, but some interesting details do emerge.
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.59350/r62d8-b9s16
10.59350/r62d8-b9s16
White label: the growth of bioRxiv
2,015
2015-12-11
posted-content
Front Matter
null
null
null
null
null
null
Stephen Royle
1
null
0
0
true
https://creativecommons.org/licenses/by/4.0/legalcode
null
null
https://doi.org/10.59350/r62d8-b9s16
null
bioRxiv, the preprint server for biology, recently turned 2 years old. This seems a good point to take a look at how bioRxiv has developed over this time and to discuss any concerns sceptical people may have about using the service.
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.59350/xxgtd-nvb53
10.59350/xxgtd-nvb53
Searching medRxiv and bioRxiv Preprint Data
2,020
2020-10-20
posted-content
Front Matter
null
null
null
null
null
null
Luke McGuinness
1
null
0
0
true
https://creativecommons.org/licenses/by/4.0/legalcode
null
null
https://doi.org/10.59350/xxgtd-nvb53
null
Background & motivation medRxiv, as the preprint repository for papers in the medical, clinical, and related health sciences, <sup> 1 </sup> has become a central source of new studies related to the COVID-19 pandemic.
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.59350/14zwp-04124
10.59350/14zwp-04124
Over and Over: Preprint revisions on bioRxiv
2,021
2021-04-07
posted-content
Front Matter
null
null
null
null
null
null
Stephen Royle
1
null
0
0
true
https://creativecommons.org/licenses/by/4.0/legalcode
null
null
https://doi.org/10.59350/14zwp-04124
null
The aim of this post is to look at revisions of bioRxiv preprints. I'm interested how long preprint versions exist on bioRxiv. In other words: how long do revisions to preprints take? The data from bioRxiv is a complex dataset with many caveats as I'll explain further down, but some interesting details do emerge.
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.59350/5av02-39j79
10.59350/5av02-39j79
Searching medRxiv and bioRxiv Preprint Data
2,020
2020-10-20
posted-content
Front Matter
null
null
null
null
null
null
Luke McGuinness
1
null
0
0
true
https://creativecommons.org/licenses/by/4.0/legalcode
null
null
https://doi.org/10.59350/5av02-39j79
https://api.rogue-scholar.org/posts/10.59350/5av02-39j79.pdf
Background & motivation medRxiv, as the preprint repository for papers in the medical, clinical, and related health sciences, <sup> 1 </sup> has become a central source of new studies related to the COVID-19 pandemic.
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.59350/83pea-v6z98
10.59350/83pea-v6z98
Ozymandias: A biodiversity knowledge graph available as a preprint on Biorxiv
2,018
2018-12-05
posted-content
Front Matter
null
null
null
null
null
null
Roderic Page
1
null
0
0
true
https://creativecommons.org/licenses/by/4.0/legalcode
null
null
https://doi.org/10.59350/83pea-v6z98
null
I've written up my entry for the 2018 GBIF Challenge ("Ozymandias") and posted a preprint on Biorxiv (https://www.biorxiv.org/content/early/2018/12/04/485854). The DOI is https://doi.org/10.1101/485854 which, last time I checked, still needs to be registered. The abstract appears below. I'll let the preprint sit there ...
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.59350/y6g6m-f4688
10.59350/y6g6m-f4688
The Rise and Fall: impact of the COVID-19 pandemic on bioRxiv preprints
2,021
2021-03-20
posted-content
Front Matter
null
null
null
null
null
null
Stephen Royle
1
null
0
0
true
https://creativecommons.org/licenses/by/4.0/legalcode
null
null
https://doi.org/10.59350/y6g6m-f4688
null
As the COVID-19 pandemic continues, different countries are experiencing various restrictions including lockdowns. Some of these restrictions alter our ability to do science: by hindering lab access or taking time away from researchers for homeschooling. So, what impact has the pandemic had on scientific output?
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.59350/zar9k-43785
10.59350/zar9k-43785
Exploring the bioRxiv API with R, httr2, rvest, tidytext, and Datawrapper
2,025
2025-02-10
posted-content
Front Matter
null
null
null
null
null
null
Stephen D. Turner
1
null
0
0
true
https://creativecommons.org/licenses/by/4.0/legalcode
null
null
https://doi.org/10.59350/zar9k-43785
null
Collect metadata and publication details for >200k preprints over a 10 year period, investigate trends, and scrape full text for sentiment analysis
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.59350/6q4ez-3kt89
10.59350/6q4ez-3kt89
Exploding, Impacting: looking at bioRxiv preprint view dynamics with R
2,024
2024-09-24
posted-content
Front Matter
null
null
null
null
null
null
Stephen Royle
1
null
0
0
true
https://creativecommons.org/licenses/by/4.0/legalcode
null
null
https://doi.org/10.59350/6q4ez-3kt89
https://api.rogue-scholar.org/posts/10.59350/6q4ez-3kt89.pdf
One of the joys of posting a preprint is seeing that people are viewing, downloading and (hopefully) reading your paper. On bioRxiv you can check out the statistics for your paper in the metrics tab.
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.22541/au.153252412.28244185
10.22541/au.153252412.28244185
PREreview of bioRxiv article “Subfamily-specific functionalization of diversified immune receptors in wild barley”
2,018
2018-07-25
posted-content
Wiley
null
null
null
null
null
null
Sophien Kamoun
1
null
0
0
true
null
null
null
https://doi.org/10.22541/au.153252412.28244185
null
This is a review of Maekawa et al. bioRxiv 293050; doi: https://doi.org/10.1101/352278 posted on June 20, 2018. In this paper, the authors mined the transcriptomes of 50 different accession of wild barley, generating a rich library of natural variants of the MLA immune receptor—a classical nucleotide-binding domain and...
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.59350/yqc0n-gxn10
10.59350/yqc0n-gxn10
Analyzing Preprints: The challenges of working with metadata from bioRxiv
2,019
2019-10-10
posted-content
Front Matter
null
null
null
null
null
null
ScholCommLab
1
null
0
7
true
https://creativecommons.org/licenses/by/4.0/legalcode
null
null
https://doi.org/10.59350/yqc0n-gxn10
null
<strong> By Mario Malički, Maria Janina Sarol, and Juan Pablo Alperin </strong> <em> This blog post is the third in a four part series documenting the methodological challenges we faced during our </em> <em> project </em> <em> investigating preprint growth and uptake. </em&g...
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.1242/prelights.15240
10.1242/prelights.15240
bioRxiv: the preprint server for biology
2,019
2019-11-19
posted-content
The Company of Biologists
null
null
null
null
null
null
Jonny Coates
1
null
0
0
false
null
null
null
https://doi.org/10.1242/prelights.15240
null
null
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.1242/prelights.7905
10.1242/prelights.7905
Tracking the popularity and outcomes of all bioRxiv preprints
2,019
2019-01-30
posted-content
The Company of Biologists
null
null
null
null
null
null
Gautam Dey
1
null
1
0
false
null
null
null
https://doi.org/10.1242/prelights.7905
null
null
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.59350/mq5ye-p7c14
10.59350/mq5ye-p7c14
Llama 3.2 summaries of bioRxiv and medRxiv preprints with biorecap
2,024
2024-09-26
posted-content
Front Matter
null
null
null
null
null
null
Stephen D. Turner
1
null
0
0
true
https://creativecommons.org/licenses/by/4.0/legalcode
null
null
https://doi.org/10.59350/mq5ye-p7c14
https://api.rogue-scholar.org/posts/10.59350/mq5ye-p7c14.pdf
The biorecap package can now summarize bioRxiv and medRxiv preprints, and uses the llama-3.2-3b model by default.
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.59350/7jf02-j3e58
10.59350/7jf02-j3e58
Exploding, Impacting: looking at bioRxiv preprint view dynamics with R
2,024
2024-09-24
posted-content
Front Matter
null
null
null
null
null
null
Stephen Royle
1
null
0
0
true
https://creativecommons.org/licenses/by/4.0/legalcode
null
null
https://doi.org/10.59350/7jf02-j3e58
null
One of the joys of posting a preprint is seeing that people are viewing, downloading and (hopefully) reading your paper. On bioRxiv you can check out the statistics for your paper in the metrics tab.
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.59350/f09fr-rq427
10.59350/f09fr-rq427
Llama 3.2 summaries of bioRxiv and medRxiv preprints with biorecap
2,024
2024-09-26
posted-content
Front Matter
null
null
null
null
null
null
Stephen D. Turner
1
null
0
0
true
https://creativecommons.org/licenses/by/4.0/legalcode
null
null
https://doi.org/10.59350/f09fr-rq427
null
The biorecap package can now summarize bioRxiv and medRxiv preprints, and uses the llama-3.2-3b model by default.
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.22541/au.156460759.93613361
10.22541/au.156460759.93613361
PREreview of bioRxiv article "A generalist pathogen view of diverse host evolutionary histories through polygenic virulence"
2,019
2019-07-31
posted-content
Wiley
null
null
null
null
null
null
Sophien Kamoun
1
null
0
0
true
null
null
null
https://doi.org/10.22541/au.156460759.93613361
null
This is a review of Caseys et al. bioRxiv doi: https://doi.org/10.1101/507491 posted on June 25, 2019. This study aims at addressing whether coevolutionary models of host-pathogen interactions apply to a generalist pathogen that exhibits quantitative virulence across a broad range of plants. They generated an exhaustiv...
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.59350/xnhk1-bq814
10.59350/xnhk1-bq814
The Rise and Fall: impact of the COVID-19 pandemic on bioRxiv preprints
2,021
2021-03-20
posted-content
Front Matter
null
null
null
null
null
null
Stephen Royle
1
null
0
0
true
https://creativecommons.org/licenses/by/4.0/legalcode
null
null
https://doi.org/10.59350/xnhk1-bq814
null
As the COVID-19 pandemic continues, different countries are experiencing various restrictions including lockdowns. Some of these restrictions alter our ability to do science: by hindering lab access or taking time away from researchers for homeschooling. So, what impact has the pandemic had on scientific output?
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.7490/f1000research.1116822.1
10.7490/f1000research.1116822.1
Tracking the popularity and outcomes of all bioRxiv preprints
2,019
2019-06-03
posted-content
F1000 Research Ltd
null
null
null
null
null
null
Richard J. Abdill, Ran Blekhman
2
null
0
0
true
https://creativecommons.org/licenses/by/4.0/
null
null
https://doi.org/10.7490/f1000research.1116822.1
null
(Presented by Richard Abdill.) Researchers in the life sciences are posting work to preprint servers at an unprecedented and increasing rate, sharing papers online before (or instead of) publication in peer-reviewed journals. Though the increasing acceptance of preprints is driving policy changes for journals and funde...
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.59350/ac5v9-9pk08
10.59350/ac5v9-9pk08
Analyzing Preprints: The challenges of working with metadata from bioRxiv
2,019
2019-10-10
posted-content
Front Matter
null
null
null
null
null
null
ScholCommLab
1
null
0
7
true
https://creativecommons.org/licenses/by/4.0/legalcode
null
null
https://doi.org/10.59350/ac5v9-9pk08
null
<strong> By Mario Malički, Maria Janina Sarol, and Juan Pablo Alperin </strong> <em> This blog post is the third in a four part series documenting the methodological challenges we faced during our </em> <em> project </em> <em> investigating preprint growth and uptake. </em&g...
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.59350/a9pcd-7nw25
10.59350/a9pcd-7nw25
biorecap: an R package for summarizing bioRxiv preprints with a local LLM
2,024
2024-08-24
posted-content
Front Matter
null
null
null
null
null
null
Stephen Turner
1
null
0
0
true
https://creativecommons.org/licenses/by/4.0/legalcode
null
null
https://doi.org/10.59350/a9pcd-7nw25
https://api.rogue-scholar.org/posts/10.59350/a9pcd-7nw25.pdf
This is re-posted from my newsletter, where I'll be posting from now on: https://blog.stephenturner.us/p/biorecap-r-package-for-summarizing-biorxiv-preprints-local-llm ---TL;DR I wrote an R package that summarizes recent bioRxiv preprints using a locally running LLM via Ollama+ollamar, and produces a summary HTML repor...
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.59350/jw07y-48b02
10.59350/jw07y-48b02
Ozymandias: A biodiversity knowledge graph available as a preprint on Biorxiv
2,018
2018-12-05
posted-content
Front Matter
null
null
null
null
null
null
Roderic Page
1
null
0
0
true
https://creativecommons.org/licenses/by/4.0/legalcode
null
null
https://doi.org/10.59350/jw07y-48b02
https://api.rogue-scholar.org/posts/10.59350/jw07y-48b02.pdf
I've written up my entry for the 2018 GBIF Challenge ("Ozymandias") and posted a preprint on Biorxiv (https://www.biorxiv.org/content/early/2018/12/04/485854). The DOI is https://doi.org/10.1101/485854 which, last time I checked, still needs to be registered. The abstract appears below. I'll let the preprint sit there ...
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.59350/qbh61-w9c06
10.59350/qbh61-w9c06
biorecap: an R package for summarizing bioRxiv preprints with a local LLM
2,024
2024-08-24
posted-content
Front Matter
null
null
null
null
null
null
Stephen D. Turner
1
null
0
0
true
https://creativecommons.org/licenses/by/4.0/legalcode
null
null
https://doi.org/10.59350/qbh61-w9c06
null
The biorecap package summarizes bioRxiv preprints using a local LLM. I used two LLMs to help me write the package, and two other LLMs to help me write a paper about the package, published on arXiv.
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.22541/au.156173835.50161858
10.22541/au.156173835.50161858
PREreview of bioRxiv article “Convergent evolution of effector protease recognition by Arabidopsis and barley”
2,019
2019-06-28
posted-content
Wiley
null
null
null
null
null
null
Sophien Kamoun
1
null
0
0
true
null
null
null
https://doi.org/10.22541/au.156173835.50161858
null
This is a review of Carter, Helm et al. bioRxiv 374264; doi: https://doi.org/10.1101/374264 posted on July 23, 2018. In this paper, the authors showed that diverse barley cultivars are able to respond to the Pseudomonas syringae effector AvrPphB and they characterized both the effector target (PBS1) and the receptor (P...
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.59350/wztpw-wey45
10.59350/wztpw-wey45
Exploring the bioRxiv API with R, httr2, rvest, tidytext, and Datawrapper
2,025
2025-02-10
posted-content
Front Matter
null
null
null
null
null
null
Stephen D. Turner
1
null
0
0
true
https://creativecommons.org/licenses/by/4.0/legalcode
null
null
https://doi.org/10.59350/wztpw-wey45
https://api.rogue-scholar.org/posts/10.59350/wztpw-wey45.pdf
Collect metadata and publication details for >200k preprints over a 10 year period, investigate trends, and scrape full text for sentiment analysis
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.59350/8vtcm-c5c82
10.59350/8vtcm-c5c82
biorecap: an R package for summarizing bioRxiv preprints with a local LLM
2,024
2024-08-24
posted-content
Front Matter
null
null
null
null
null
null
Stephen D. Turner
1
null
0
0
true
https://creativecommons.org/licenses/by/4.0/legalcode
null
null
https://doi.org/10.59350/8vtcm-c5c82
https://api.rogue-scholar.org/posts/10.59350/8vtcm-c5c82.pdf
The biorecap package summarizes bioRxiv preprints using a local LLM. I used two LLMs to help me write the package, and two other LLMs to help me write a paper about the package, published on arXiv.
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.1242/prelights.12267
10.1242/prelights.12267
The effect of bioRxiv preprints on citations and altmetrics
2,019
2019-07-18
posted-content
The Company of Biologists
null
null
null
null
null
null
Jonny Coates
1
null
0
0
false
null
null
null
https://doi.org/10.1242/prelights.12267
null
null
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.22541/au.156259046.61263831
10.22541/au.156259046.61263831
PREreview of bioRxiv article “Structure-function analysis of ZAR1 immune receptor reveals key molecular interactions for activity”
2,019
2019-07-08
posted-content
Wiley
null
null
null
null
null
null
Sophien Kamoun
1
null
0
0
true
null
null
null
https://doi.org/10.22541/au.156259046.61263831
null
This is a review of Baudin, Schreiber, Martin et al. bioRxiv doi: https://doi.org/10.1101/592824 posted on March 29, 2019. The authors used structural modelling to identify elements required for self-association of the NLR immune receptor ZAR1, specifically its N-terminal CC-domain ZAR1CC. They discovered that the N-te...
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.22541/au.158680337.76671114
10.22541/au.158680337.76671114
PREreview of bioRxiv article “The vesicular trafficking system component MIN7 is required for minimizing Fusarium graminearum infection”
2,020
2020-04-13
posted-content
Wiley
null
null
null
null
null
null
Matthew Helm
1
null
0
0
true
null
null
null
https://doi.org/10.22541/au.158680337.76671114
null
null
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.22541/au.158217227.77505452
10.22541/au.158217227.77505452
Pre-print journal club review of BioRxiv article: Uncovering the hidden antibiotic potential of Cannabis
2,020
2020-02-20
posted-content
Wiley
null
null
null
null
null
null
Craig McCormick
1
null
0
0
true
null
null
null
https://doi.org/10.22541/au.158217227.77505452
null
null
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.22541/au.157530334.44787108
10.22541/au.157530334.44787108
PREreview of bioRxiv article “Roq1 confers resistance to Xanthomonas, Pseudomonas syringae and Ralstonia solanacearum in tomato”
2,019
2019-12-02
posted-content
Wiley
null
null
null
null
null
null
Matthew Helm
1
null
0
0
true
null
null
null
https://doi.org/10.22541/au.157530334.44787108
null
null
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.59350/q35zx-zf568
10.59350/q35zx-zf568
biorecap: an R package for summarizing bioRxiv preprints with a local LLM
2,024
2024-08-24
posted-content
Front Matter
null
null
null
null
null
null
Stephen Turner
1
null
0
0
true
https://creativecommons.org/licenses/by/4.0/legalcode
null
null
https://doi.org/10.59350/q35zx-zf568
null
This is re-posted from my newsletter, where I'll be posting from now on: https://blog.stephenturner.us/p/biorecap-r-package-for-summarizing-biorxiv-preprints-local-llm ---TL;DR I wrote an R package that summarizes recent bioRxiv preprints using a locally running LLM via Ollama+ollamar, and produces a summary HTML repor...
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.1101/673665
10.1101/673665
The effect of bioRxiv preprints on citations and altmetrics
2,019
2019-06-22
posted-content
openRxiv
null
null
null
null
null
null
Nicholas Fraser, Fakhri Momeni, Philipp Mayr, Isabella Peters
4
null
18
45
true
null
null
null
https://doi.org/10.1101/673665
null
1. Abstract A potential motivation for scientists to deposit their scientific work as preprints is to enhance its citation or social impact, an effect which has been empirically observed for preprints in physics, astronomy and mathematics deposited to arXiv. In this study we assessed the citation and altmetric advantag...
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.1101/515643
10.1101/515643
Tracking the popularity and outcomes of all bioRxiv preprints
2,019
2019-01-13
posted-content
openRxiv
null
null
null
null
null
null
Richard J. Abdill, Ran Blekhman
2
null
4
71
true
null
null
null
https://doi.org/10.1101/515643
null
Abstract Researchers in the life sciences are posting work to preprint servers at an unprecedented and increasing rate, sharing papers online before (or instead of) publication in peer-reviewed journals. Though the increasing acceptance of preprints is driving policy changes for journals and funders, there is little in...
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.1101/2021.03.04.433874
10.1101/2021.03.04.433874
Linguistic Analysis of the bioRxiv Preprint Landscape
2,021
2021-03-04
posted-content
openRxiv
null
null
null
null
null
null
David N. Nicholson, Vincent Rubinetti, Dongbo Hu, Marvin Thielk, Lawrence E. Hunter, Casey S. Greene
6
null
4
79
true
http://creativecommons.org/licenses/by/4.0/
null
null
https://doi.org/10.1101/2021.03.04.433874
null
Abstract Preprints allow researchers to make their findings available to the scientific community before they have undergone peer review. Studies on preprints within bioRxiv have been largely focused on article metadata and how often these preprints are downloaded, cited, published, and discussed online. A missing elem...
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.1101/2020.03.06.981589
10.1101/2020.03.06.981589
Quantifying and contextualizing the impact of bioRxiv preprints through automated social media audience segmentation
2,020
2020-03-10
posted-content
openRxiv
null
null
null
null
null
null
Jedidiah Carlson, Kelley Harris
2
null
5
70
true
http://creativecommons.org/licenses/by-nd/4.0/
null
null
https://doi.org/10.1101/2020.03.06.981589
null
Abstract Engagement with scientific manuscripts is frequently facilitated by Twitter and other social media platforms. As such, the demographics of a paper’s social media audience provide a wealth of information about how scholarly research is transmitted, consumed, and interpreted by online communities. By paying atte...
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.1101/2020.04.25.060756
10.1101/2020.04.25.060756
International authorship and collaboration across bioRxiv preprints
2,020
2020-04-25
posted-content
openRxiv
null
null
null
null
null
null
Richard J. Abdill, Elizabeth M. Adamowicz, Ran Blekhman
3
null
1
60
true
http://creativecommons.org/licenses/by/4.0/
null
null
https://doi.org/10.1101/2020.04.25.060756
null
Abstract As preprints become integrated into conventional avenues of scientific communication, it’s critical to understand who is included and who is not. However, little is known about which countries are participating or how they collaborate with each other. Here, we present an analysis of all 67,885 preprints posted...
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.1101/2023.02.14.23285870
10.1101/2023.02.14.23285870
Indian COVID-19 Preprints Submissions in bioRxiv and medRxiv Preprint Servers
2,023
2023-02-16
posted-content
openRxiv
null
null
null
null
null
null
Narayanaswamy Vasantha Raju, Murtala Ismail Adakawa, N.S. Harinarayana, Chandrappa
4
null
0
33
true
null
null
null
https://doi.org/10.1101/2023.02.14.23285870
null
ABSTRACT This research aimed at determining the growth of deposition of preprints on servers by Indian researchers during COVID-19 pandemic. In the pre-pandemic period, the dominant server was arXiv upon which research from physics and other related domains have been the most predominant depositors. When the pandemic e...
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.22541/au.156173836.60281638
10.22541/au.156173836.60281638
PREreview of bioRxiv article "NRG1-mediated recognition of HopQ1 reveals a link between PAMP and Effector-triggered Immunity"
2,019
2019-06-28
posted-content
Wiley
null
null
null
null
null
null
Sophien Kamoun
1
null
0
0
true
null
null
null
https://doi.org/10.22541/au.156173836.60281638
null
This is a review of Brendolise et al. bioRxiv 293050; doi: https://doi.org/10.1101/293050 posted on April 1, 2018. This paper adds to a current body of research detailing the resistance mechanism triggered by the Pseudomonas syringe pv. tomato effector HopQ1 in the model plant Nicotiana benthamiana . This plant can be ...
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.22541/au.157928045.50414963
10.22541/au.157928045.50414963
Pre-print journal club review of BioRxiv article: Discovery of a prevalent picornavirus by visualizing zebrafish immune responses
2,020
2020-01-17
posted-content
Wiley
null
null
null
null
null
null
Craig McCormick
1
null
0
0
true
null
null
null
https://doi.org/10.22541/au.157928045.50414963
null
null
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.1101/2021.09.07.459259
10.1101/2021.09.07.459259
Motivations, concerns and selection biases when posting preprints: a survey of bioRxiv authors
2,021
2021-09-07
posted-content
openRxiv
null
null
null
null
null
null
Nicholas Fraser, Philipp Mayr, Isabella Peters
3
null
4
37
true
null
null
null
https://doi.org/10.1101/2021.09.07.459259
null
Abstract Since 2013, the usage of preprints as a means of sharing research in biology has rapidly grown, in particular via the preprint server bioRxiv. Recent studies have found that journal articles that were previously posted to bioRxiv received a higher number of citations or mentions/shares on other online platform...
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.31219/osf.io/wr6d9
10.31219/osf.io/wr6d9
Một bản thảo về virus corona trên bioRxiv bị rút: Khoảnh khắc quan trọng đối với xuất bản học thuật
2,022
2022-06-01
posted-content
Center for Open Science
null
null
null
null
null
null
Sri Ants
1
null
0
0
true
https://creativecommons.org/licenses/by/4.0/legalcode
null
null
https://doi.org/10.31219/osf.io/wr6d9
null
SSHPA (05-02-2020; Nguyễn Thị Linh) — Bài viết này tóm lược thảo luận quan trọng của hai tác giả Ivan Oransky và Adam Marcus về câu chuyện một bản thảo trên bioRxiv bị rút bỏ và ý nghĩa của nó với xuất bản học thuật hiện nay (nguồn ghi ở mục Tham khảo, dẫn chiếu Retraction Watch và STAT News).
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.22541/au.158567360.08742076
10.22541/au.158567360.08742076
PREreview of bioRxiv article “Ptr1 evolved convergently with RPS2 and Mr5 to mediate recognition of AvrRpt2 in diverse solanaceous species"
2,020
2020-03-31
posted-content
Wiley
null
null
null
null
null
null
Matthew Helm, Morgan E. Carter
2
null
0
0
true
null
null
null
https://doi.org/10.22541/au.158567360.08742076
null
null
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.1101/2023.10.31.565037
10.1101/2023.10.31.565037
VLIB: Unveiling insights through Visual and Linguistic Integration of Biorxiv data relevant to cancer via Multimodal Large Language Model
2,023
2023-11-03
posted-content
openRxiv
null
null
null
null
null
null
Vignesh Prabhakar, Kai Liu
2
null
1
32
true
null
null
null
https://doi.org/10.1101/2023.10.31.565037
null
Abstract The field of cancer research has greatly benefited from the wealth of new knowledge provided by research articles and preprints on platforms like Biorxiv. This study investigates the role of scientific figures and their accompanying captions in enhancing our comprehension of cancer. Leveraging the capabilities...
null
null
ZI3Oirsf5ESNRmwgf
Gd7LJBsgdWbGUR6mv
10.1093/nar/gkh340
10.1093/nar/gkh340
MUSCLE: multiple sequence alignment with high accuracy and high throughput
2,004
2004-03-08
journal-article
Oxford University Press (OUP)
Nucleic Acids Research
32
5
1792-1797
1362-4962
null
R. C. Edgar
1
null
38,137
0
true
null
null
null
https://doi.org/10.1093/nar/gkh340
http://academic.oup.com/nar/article-pdf/32/5/1792/7055030/gkh340.pdf
null
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1038/nmeth.3869
10.1038/nmeth.3869
DADA2: High-resolution sample inference from Illumina amplicon data
2,016
2016-07
journal-article
Springer Science and Business Media LLC
Nature Methods
13
7
581-583
1548-7091, 1548-7105
null
Benjamin J Callahan, Paul J McMurdie, Michael J Rosen, Andrew W Han, Amy Jo A Johnson, Susan P Holmes
6
null
32,805
23
true
http://www.springer.com/tdm
null
null
https://doi.org/10.1038/nmeth.3869
http://www.nature.com/articles/nmeth.3869.pdf
null
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1038/nmeth.f.303
10.1038/nmeth.f.303
QIIME allows analysis of high-throughput community sequencing data
2,010
2010-05
journal-article
Springer Science and Business Media LLC
Nature Methods
7
5
335-336
1548-7091, 1548-7105
null
J Gregory Caporaso, Justin Kuczynski, Jesse Stombaugh, Kyle Bittinger, Frederic D Bushman, Elizabeth K Costello, Noah Fierer, Antonio Gonzalez Peña, Julia K Goodrich, Jeffrey I Gordon, Gavin A Huttley, Scott T Kelley, Dan Knights, Jeremy E Koenig, Ruth E Ley, Catherine A Lozupone, Daniel McDonald, Brian D Muegge, Meg P...
27
null
30,937
6
true
http://www.springer.com/tdm
null
null
https://doi.org/10.1038/nmeth.f.303
http://www.nature.com/articles/nmeth.f.303.pdf
null
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.14806/ej.17.1.200
10.14806/ej.17.1.200
Cutadapt removes adapter sequences from high-throughput sequencing reads
2,011
2011-05-02
journal-article
EMBnet Stichting
EMBnet.journal
17
1
10
2226-6089
null
Marcel Martin
1
null
30,548
0
false
null
null
null
https://doi.org/10.14806/ej.17.1.200
null
null
null
null
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1038/353737a0
10.1038/353737a0
A low-cost, high-efficiency solar cell based on dye-sensitized colloidal TiO2 films
1,991
1991-10
journal-article
Springer Science and Business Media LLC
Nature
353
6346
737-740
0028-0836, 1476-4687
null
Brian O'Regan, Michael Grätzel
2
null
26,519
19
true
http://www.springer.com/tdm
null
null
https://doi.org/10.1038/353737a0
http://www.nature.com/articles/353737a0.pdf
null
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1016/j.softx.2015.06.001
10.1016/j.softx.2015.06.001
GROMACS: High performance molecular simulations through multi-level parallelism from laptops to supercomputers
2,015
2015-09
journal-article
Elsevier BV
SoftwareX
1-2
null
19-25
2352-7110
null
Mark James Abraham, Teemu Murtola, Roland Schulz, Szilárd Páll, Jeremy C. Smith, Berk Hess, Erik Lindahl
7
null
25,268
47
true
https://www.elsevier.com/tdm/userlicense/1.0/
European Research Council, Swedish Research Council, ScalaLife EU infrastructure
10.13039/501100000781, 10.13039/501100004359
https://doi.org/10.1016/j.softx.2015.06.001
null
null
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1001/jama.285.19.2486
10.1001/jama.285.19.2486
Executive Summary of the Third Report of the National Cholesterol Education Program (NCEP) Expert Panel on Detection, Evaluation, and Treatment of High Blood Cholesterol in Adults (Adult Treatment Panel III)
2,001
2001-05-16
journal-article
American Medical Association (AMA)
JAMA: The Journal of the American Medical Association
285
19
2486-2497
0098-7484, 1538-3598
null
Expert Panel on Detection, Evaluation, and Treatment of High Blood Cholesterol in Adults
1
null
23,253
0
true
null
null
null
https://doi.org/10.1001/jama.285.19.2486
null
null
null
null
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1093/bioinformatics/btu638
10.1093/bioinformatics/btu638
HTSeq—a Python framework to work with high-throughput sequencing data
2,015
2015-01-15
journal-article
Oxford University Press (OUP)
Bioinformatics
31
2
166-169
1367-4811, 1367-4803
null
Simon Anders, Paul Theodor Pyl, Wolfgang Huber
3
Genome Biology Unit, European Molecular Biology Laboratory, 69111 Heidelberg, Germany
19,533
14
true
http://creativecommons.org/licenses/by/4.0/
null
null
https://doi.org/10.1093/bioinformatics/btu638
https://academic.oup.com/bioinformatics/article-pdf/31/2/166/49011133/bioinformatics_31_2_166.pdf
Abstract Motivation: A large choice of tools exists for many standard tasks in the analysis of high-throughput sequencing (HTS) data. However, once a project deviates from standard workflows, custom scripts are needed. Results: We present HTSeq, a Python library to facilitate the rapid development of such scripts. HTSe...
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1083/jcb.17.1.208
10.1083/jcb.17.1.208
THE USE OF LEAD CITRATE AT HIGH pH AS AN ELECTRON-OPAQUE STAIN IN ELECTRON MICROSCOPY
1,963
1963-04-01
journal-article
Rockefeller University Press
The Journal of Cell Biology
17
1
208-212
1540-8140, 0021-9525
null
Edward S. Reynolds
1
From the Department of Anatomy, Harvard Medical School, Boston
18,991
0
true
null
null
null
https://doi.org/10.1083/jcb.17.1.208
https://rupress.org/jcb/article-pdf/17/1/208/1534055/208.pdf
null
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1063/1.447334
10.1063/1.447334
A unified formulation of the constant temperature molecular dynamics methods
1,984
1984-07-01
journal-article
AIP Publishing
The Journal of Chemical Physics
81
1
511-519
0021-9606, 1089-7690
null
Shuichi Nosé
1
Division of Chemistry, National Research Council of Canada, Ottawa, Ontario, Canada, K1A OR6
17,988
27
true
null
null
null
https://doi.org/10.1063/1.447334
https://pubs.aip.org/aip/jcp/article-pdf/81/1/511/18949062/511_1_online.pdf
Three recently proposed constant temperature molecular dynamics methods by: (i) Nosé (Mol. Phys., to be published); (ii) Hoover et al. [Phys. Rev. Lett. 48, 1818 (1982)], and Evans and Morriss [Chem. Phys. 77, 63 (1983)]; and (iii) Haile and Gupta [J. Chem. Phys. 79, 3067 (1983)] are examined analytically via calculati...
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1002/joc.1276
10.1002/joc.1276
Very high resolution interpolated climate surfaces for global land areas
2,005
2005-12
journal-article
Wiley
International Journal of Climatology
25
15
1965-1978
0899-8418, 1097-0088
null
Robert J. Hijmans, Susan E. Cameron, Juan L. Parra, Peter G. Jones, Andy Jarvis
5
null
16,639
25
true
http://doi.wiley.com/10.1002/tdm_license_1.1
null
null
https://doi.org/10.1002/joc.1276
null
null
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1086/307221
10.1086/307221
Measurements of Ω and Λ from 42 High‐Redshift Supernovae
1,999
1999-06
journal-article
American Astronomical Society
The Astrophysical Journal
517
2
565-586
0004-637X, 1538-4357
null
S. Perlmutter, G. Aldering, G. Goldhaber, R. A. Knop, P. Nugent, P. G. Castro, S. Deustua, S. Fabbro, A. Goobar, D. E. Groom, I. M. Hook, A. G. Kim, M. Y. Kim, J. C. Lee, N. J. Nunes, R. Pain, C. R. Pennypacker, R. Quimby, C. Lidman, R. S. Ellis, M. Irwin, R. G. McMahon, P. Ruiz‐Lapuente, N. Walton, B. Schaefer, B. J. ...
33
null
15,585
106
true
null
null
null
https://doi.org/10.1086/307221
null
null
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1109/cvpr52688.2022.01042
10.1109/cvpr52688.2022.01042
High-Resolution Image Synthesis with Latent Diffusion Models
2,022
2022-06
proceedings-article
IEEE
2022 IEEE/CVF Conference on Computer Vision and Pattern Recognition (CVPR)
null
null
10674-10685
null
null
Robin Rombach, Andreas Blattmann, Dominik Lorenz, Patrick Esser, Bjorn Ommer
5
Ludwig Maximilian University of Munich & IWR, Heidelberg University,Germany
15,107
105
true
https://doi.org/10.15223/policy-029
German Research Foundation
10.13039/100004807
https://doi.org/10.1109/cvpr52688.2022.01042
null
null
null
null
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1001/jama.289.19.2560
10.1001/jama.289.19.2560
The Seventh Report of the Joint National Committee on Prevention, Detection, Evaluation, and Treatment of High Blood Pressure<SUBTITLE>The JNC 7 Report</SUBTITLE>
2,003
2003-05-21
journal-article
American Medical Association (AMA)
JAMA
289
19
2560
0098-7484
null
Aram V. Chobanian
1
null
14,642
0
true
null
null
null
https://doi.org/10.1001/jama.289.19.2560
null
null
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1038/nbt.1511
10.1038/nbt.1511
MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification
2,008
2008-12
journal-article
Springer Science and Business Media LLC
Nature Biotechnology
26
12
1367-1372
1087-0156, 1546-1696
null
Jürgen Cox, Matthias Mann
2
null
14,587
43
true
http://www.springer.com/tdm
null
null
https://doi.org/10.1038/nbt.1511
http://www.nature.com/articles/nbt.1511.pdf
null
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1016/s0021-9258(19)41496-8
10.1016/s0021-9258(19)41496-8
High resolution two-dimensional electrophoresis of proteins.
1,975
1975-05
journal-article
Elsevier BV
Journal of Biological Chemistry
250
10
4007-4021
0021-9258
null
PH O'Farrell
1
null
14,539
36
true
https://www.elsevier.com/tdm/userlicense/1.0/
null
null
https://doi.org/10.1016/s0021-9258(19)41496-8
null
null
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1002/adem.200300567
10.1002/adem.200300567
Nanostructured High‐Entropy Alloys with Multiple Principal Elements: Novel Alloy Design Concepts and Outcomes
2,004
2004-05
journal-article
Wiley
Advanced Engineering Materials
6
5
299-303
1438-1656, 1527-2648
null
J.‐W. Yeh, S.‐K. Chen, S.‐J. Lin, J.‐Y. Gan, T.‐S. Chin, T.‐T. Shun, C.‐H. Tsau, S.‐Y. Chang
8
null
14,514
26
true
http://onlinelibrary.wiley.com/termsAndConditions#vor
null
null
https://doi.org/10.1002/adem.200300567
null
A new approach for the design of alloys is presented in this study. These “high‐entropy alloys” with multi‐principal elements were synthesized using well‐developed processing technologies. Preliminary results demonstrate examples of the alloys with simple crystal structures, nanostructures, and promising mechanical pro...
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1038/msb.2011.75
10.1038/msb.2011.75
Fast, scalable generation of high‐quality protein multiple sequence alignments using Clustal Omega
2,011
2011-10-11
journal-article
Springer Science and Business Media LLC
Molecular Systems Biology
7
1
null
1744-4292
null
Fabian Sievers, Andreas Wilm, David Dineen, Toby J Gibson, Kevin Karplus, Weizhong Li, Rodrigo Lopez, Hamish McWilliam, Michael Remmert, Johannes Söding, Julie D Thompson, Desmond G Higgins
12
null
14,484
25
true
https://creativecommons.org/licenses/by-nc-sa/3.0/
null
null
https://doi.org/10.1038/msb.2011.75
https://link.springer.com/content/pdf/10.1038/msb.2011.75.pdf
null
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1016/0003-2697(83)90418-9
10.1016/0003-2697(83)90418-9
A technique for radiolabeling DNA restriction endonuclease fragments to high specific activity
1,983
1983-07
journal-article
Elsevier BV
Analytical Biochemistry
132
1
6-13
0003-2697
null
Andrew P. Feinberg, Bert Vogelstein
2
null
14,332
33
true
https://www.elsevier.com/tdm/userlicense/1.0/
null
null
https://doi.org/10.1016/0003-2697(83)90418-9
null
null
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1007/bf00656997
10.1007/bf00656997
Improved patch-clamp techniques for high-resolution current recording from cells and cell-free membrane patches
1,981
1981-08
journal-article
Springer Science and Business Media LLC
Pflügers Archiv - European Journal of Physiology
391
2
85-100
0031-6768, 1432-2013
null
O. P. Hamill, A. Marty, E. Neher, B. Sakmann, F. J. Sigworth
5
null
13,509
23
true
http://www.springer.com/tdm
null
null
https://doi.org/10.1007/bf00656997
http://link.springer.com/content/pdf/10.1007/BF00656997.pdf
null
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1093/nar/gkq603
10.1093/nar/gkq603
ANNOVAR: functional annotation of genetic variants from high-throughput sequencing data
2,010
2010-09-01
journal-article
Oxford University Press (OUP)
Nucleic Acids Research
38
16
e164-e164
0305-1048, 1362-4962
null
K. Wang, M. Li, H. Hakonarson
3
null
13,303
21
true
http://creativecommons.org/licenses/by-nc/2.5
null
null
https://doi.org/10.1093/nar/gkq603
http://academic.oup.com/nar/article-pdf/38/16/e164/7701417/gkq603.pdf
null
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1007/bf01303701
10.1007/bf01303701
Possible highT c superconductivity in the Ba?La?Cu?O system
1,986
1986-06
journal-article
Springer Science and Business Media LLC
Zeitschrift f�r Physik B Condensed Matter
64
2
189-193
0722-3277, 1434-6036
null
J. G. Bednorz, K. A. M�ller
2
null
12,930
24
true
http://www.springer.com/tdm
null
null
https://doi.org/10.1007/bf01303701
http://link.springer.com/content/pdf/10.1007/BF01303701.pdf
null
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1161/circ.106.25.3143
10.1161/circ.106.25.3143
Third Report of the National Cholesterol Education Program (NCEP) Expert Panel on Detection, Evaluation, and Treatment of High Blood Cholesterol in Adults (Adult Treatment Panel III) Final Report
2,002
2002-12-17
journal-article
Ovid Technologies (Wolters Kluwer Health)
Circulation
106
25
3143-3143
0009-7322, 1524-4539
null
null
0
null
11,991
0
true
null
null
null
https://doi.org/10.1161/circ.106.25.3143
null
null
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1021/cr980032t
10.1021/cr980032t
Room-Temperature Ionic Liquids. Solvents for Synthesis and Catalysis
1,999
1999-08-11
journal-article
American Chemical Society (ACS)
Chemical Reviews
99
8
2071-2084
0009-2665, 1520-6890
null
Thomas Welton
1
Department of Chemistry, Imperial College of Science Technology and Medicine, South Kensington, London SW7 2AY, U.K.
11,542
147
true
null
null
null
https://doi.org/10.1021/cr980032t
null
null
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1103/physrev.108.1175
10.1103/physrev.108.1175
Theory of Superconductivity
1,957
1957-12-01
journal-article
American Physical Society (APS)
Physical Review
108
5
1175-1204
0031-899X
null
J. Bardeen, L. N. Cooper, J. R. Schrieffer
3
null
11,070
46
true
http://link.aps.org/licenses/aps-default-license
null
null
https://doi.org/10.1103/physrev.108.1175
null
null
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1126/science.1171245
10.1126/science.1171245
Large-Area Synthesis of High-Quality and Uniform Graphene Films on Copper Foils
2,009
2009-06-05
journal-article
American Association for the Advancement of Science (AAAS)
Science
324
5932
1312-1314
0036-8075, 1095-9203
null
Xuesong Li, Weiwei Cai, Jinho An, Seyoung Kim, Junghyo Nah, Dongxing Yang, Richard Piner, Aruna Velamakanni, Inhwa Jung, Emanuel Tutuc, Sanjay K. Banerjee, Luigi Colombo, Rodney S. Ruoff
13
Department of Mechanical Engineering and the Texas Materials Institute, 1 University Station C2200, The University of Texas at Austin, Austin, TX 78712–0292, USA.
10,397
25
true
null
null
null
https://doi.org/10.1126/science.1171245
null
Growing Graphene The highest quality graphene samples, single-atom-thick layers of carbon, are suspended flakes exfoliated from graphite, but these samples are very small in size (square micrometers). For many electronics applications, larger areas are needed. Li et al. (p. 1312 , published online 7 May) show that grap...
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1161/01.hyp.0000107251.49515.c2
10.1161/01.hyp.0000107251.49515.c2
Seventh Report of the Joint National Committee on Prevention, Detection, Evaluation, and Treatment of High Blood Pressure
2,003
2003-12
journal-article
Ovid Technologies (Wolters Kluwer Health)
Hypertension
42
6
1206-1252
0194-911X, 1524-4563
null
Aram V. Chobanian, George L. Bakris, Henry R. Black, William C. Cushman, Lee A. Green, Joseph L. Izzo, Daniel W. Jones, Barry J. Materson, Suzanne Oparil, Jackson T. Wright, Edward J. Roccella, the National High Blood Pressure Education Program Coordinating Committee
12
From Boston University School of Medicine (A.V.C.), Boston, Mass; Rush University Medical Center (G.L.B., H.R.B.), Chicago, Ill; Veterans Affairs Medical Center (W.C.C.), Memphis, Tenn; University of Michigan (L.A.G.), Ann Arbor, Mich; State University of New York at Buffalo School of Medicine (J.L.I. Jr.), Buffalo, NY...
10,087
386
true
null
null
null
https://doi.org/10.1161/01.hyp.0000107251.49515.c2
null
The National High Blood Pressure Education Program presents the complete Seventh Report of the Joint National Committee on Prevention, Detection, Evaluation, and Treatment of High Blood Pressure. Like its predecessors, the purpose is to provide an evidence-based approach to the prevention and management of hypertension...
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1126/science.1244693
10.1126/science.1244693
High-Resolution Global Maps of 21st-Century Forest Cover Change
2,013
2013-11-15
journal-article
American Association for the Advancement of Science (AAAS)
Science
342
6160
850-853
0036-8075, 1095-9203
null
M. C. Hansen, P. V. Potapov, R. Moore, M. Hancher, S. A. Turubanova, A. Tyukavina, D. Thau, S. V. Stehman, S. J. Goetz, T. R. Loveland, A. Kommareddy, A. Egorov, L. Chini, C. O. Justice, J. R. G. Townshend
15
Department of Geographical Sciences, University of Maryland, College Park, MD 20742, USA.
9,623
40
true
null
null
null
https://doi.org/10.1126/science.1244693
null
Forests in Flux Forests worldwide are in a state of flux, with accelerating losses in some regions and gains in others. Hansen et al. (p. 850 ) examined global Landsat data at a 30-meter spatial resolution to characterize forest extent, loss, and gain from 2000 to 2012. Globally, 2.3 million square kilometers of forest...
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1093/nar/8.19.4321
10.1093/nar/8.19.4321
Rapid isolation of high molecular weight plant DNA
1,980
1980
journal-article
Oxford University Press (OUP)
Nucleic Acids Research
8
19
4321-4326
0305-1048, 1362-4962
null
M.G. Murray, W.F. Thompson
2
null
9,610
0
true
null
null
null
https://doi.org/10.1093/nar/8.19.4321
http://academic.oup.com/nar/article-pdf/8/19/4321/7056145/8-19-4321.pdf
null
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1038/nature12340
10.1038/nature12340
Sequential deposition as a route to high-performance perovskite-sensitized solar cells
2,013
2013-07
journal-article
Springer Science and Business Media LLC
Nature
499
7458
316-319
0028-0836, 1476-4687
null
Julian Burschka, Norman Pellet, Soo-Jin Moon, Robin Humphry-Baker, Peng Gao, Mohammad K. Nazeeruddin, Michael Grätzel
7
null
9,144
25
true
http://www.springer.com/tdm
null
null
https://doi.org/10.1038/nature12340
http://www.nature.com/articles/nature12340.pdf
null
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1038/nmat3191
10.1038/nmat3191
Li–O2 and Li–S batteries with high energy storage
2,012
2012-01
journal-article
Springer Science and Business Media LLC
Nature Materials
11
1
19-29
1476-1122, 1476-4660
null
Peter G. Bruce, Stefan A. Freunberger, Laurence J. Hardwick, Jean-Marie Tarascon
4
null
9,118
137
true
https://www.springer.com/tdm
null
null
https://doi.org/10.1038/nmat3191
https://www.nature.com/articles/nmat3191.pdf
null
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1029/2002jd002670
10.1029/2002jd002670
Global analyses of sea surface temperature, sea ice, and night marine air temperature since the late nineteenth century
2,003
2003-07-27
journal-article
American Geophysical Union (AGU)
Journal of Geophysical Research: Atmospheres
108
D14
null
0148-0227
null
N. A. Rayner, D. E. Parker, E. B. Horton, C. K. Folland, L. V. Alexander, D. P. Rowell, E. C. Kent, A. Kaplan
8
Hadley Centre for Climate Prediction and Research Met Office Bracknell UK
9,100
84
true
http://onlinelibrary.wiley.com/termsAndConditions#vor
null
null
https://doi.org/10.1029/2002jd002670
null
We present the Met Office Hadley Centre's sea ice and sea surface temperature (SST) data set, HadISST1, and the nighttime marine air temperature (NMAT) data set, HadMAT1. HadISST1 replaces the global sea ice and sea surface temperature (GISST) data sets and is a unique combination of monthly globally complete fields of...
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1093/biostatistics/4.2.249
10.1093/biostatistics/4.2.249
Exploration, normalization, and summaries of high density oligonucleotide array probe level data
2,003
2003-04-01
journal-article
Oxford University Press (OUP)
Biostatistics
4
2
249-264
1465-4644, 1468-4357
null
R. A. Irizarry
1
null
8,667
0
true
null
null
null
https://doi.org/10.1093/biostatistics/4.2.249
http://academic.oup.com/biostatistics/article-pdf/4/2/249/677018/040249.pdf
null
null
null
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1016/j.actamat.2016.08.081
10.1016/j.actamat.2016.08.081
A critical review of high entropy alloys and related concepts
2,017
2017-01
journal-article
Elsevier BV
Acta Materialia
122
null
448-511
1359-6454
null
D.B. Miracle, O.N. Senkov
2
null
8,610
352
true
https://www.elsevier.com/tdm/userlicense/1.0/
Air Force
null
https://doi.org/10.1016/j.actamat.2016.08.081
null
null
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1038/s41591-018-0300-7
10.1038/s41591-018-0300-7
High-performance medicine: the convergence of human and artificial intelligence
2,019
2019-01
journal-article
Springer Science and Business Media LLC
Nature Medicine
25
1
44-56
1078-8956, 1546-170X
null
Eric J. Topol
1
null
8,441
216
true
http://www.springer.com/tdm
null
null
https://doi.org/10.1038/s41591-018-0300-7
http://www.nature.com/articles/s41591-018-0300-7.pdf
null
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1126/science.1060367
10.1126/science.1060367
Room-Temperature Ultraviolet Nanowire Nanolasers
2,001
2001-06-08
journal-article
American Association for the Advancement of Science (AAAS)
Science
292
5523
1897-1899
0036-8075, 1095-9203
null
Michael H. Huang, Samuel Mao, Henning Feick, Haoquan Yan, Yiying Wu, Hannes Kind, Eicke Weber, Richard Russo, Peidong Yang
9
Department of Chemistry, University of California,
8,388
19
true
null
null
null
https://doi.org/10.1126/science.1060367
null
Room-temperature ultraviolet lasing in semiconductor nanowire arrays has been demonstrated. The self-organized, <0001> oriented zinc oxide nanowires grown on sapphire substrates were synthesized with a simple vapor transport and condensation process. These wide band-gap semiconductor nanowires form natural laser ...
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1093/bib/bbs017
10.1093/bib/bbs017
Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration
2,013
2013-03-01
journal-article
Oxford University Press (OUP)
Briefings in Bioinformatics
14
2
178-192
1467-5463, 1477-4054
null
H. Thorvaldsdottir, J. T. Robinson, J. P. Mesirov
3
null
8,354
17
true
null
null
null
https://doi.org/10.1093/bib/bbs017
http://academic.oup.com/bib/article-pdf/14/2/178/546734/bbs017.pdf
null
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1038/s42256-019-0048-x
10.1038/s42256-019-0048-x
Stop explaining black box machine learning models for high stakes decisions and use interpretable models instead
2,019
2019-05-13
journal-article
Springer Science and Business Media LLC
Nature Machine Intelligence
1
5
206-215
2522-5839
null
Cynthia Rudin
1
null
8,316
52
true
https://www.springernature.com/gp/researchers/text-and-data-mining
null
null
https://doi.org/10.1038/s42256-019-0048-x
https://www.nature.com/articles/s42256-019-0048-x.pdf
null
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1038/ismej.2012.8
10.1038/ismej.2012.8
Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms
2,012
2012-08-01
journal-article
Oxford University Press (OUP)
The ISME Journal
6
8
1621-1624
1751-7362, 1751-7370
null
J Gregory Caporaso, Christian L Lauber, William A Walters, Donna Berg-Lyons, James Huntley, Noah Fierer, Sarah M Owens, Jason Betley, Louise Fraser, Markus Bauer, Niall Gormley, Jack A Gilbert, Geoff Smith, Rob Knight
14
Department of Computer Science, Northern Arizona University , Flagstaff, AZ , USA
8,047
9
true
https://creativecommons.org/licenses/by-nc-sa/3.0/
null
null
https://doi.org/10.1038/ismej.2012.8
http://www.nature.com/articles/ismej20128.pdf
Abstract DNA sequencing continues to decrease in cost with the Illumina HiSeq2000 generating up to 600 Gb of paired-end 100 base reads in a ten-day run. Here we present a protocol for community amplicon sequencing on the HiSeq2000 and MiSeq Illumina platforms, and apply that protocol to sequence 24 microbial communitie...
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1016/0022-2836(77)90052-3
10.1016/0022-2836(77)90052-3
Labeling deoxyribonucleic acid to high specific activity in vitro by nick translation with DNA polymerase I
1,977
1977-06
journal-article
Elsevier BV
Journal of Molecular Biology
113
1
237-251
0022-2836
null
Peter W.J. Rigby, Marianne Dieckmann, Carl Rhodes, Paul Berg
4
null
7,911
46
true
https://www.elsevier.com/tdm/userlicense/1.0/
American Cancer Society, U.S. Public Health Service
10.13039/100000048, 10.13039/100007197
https://doi.org/10.1016/0022-2836(77)90052-3
null
null
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1093/nar/gkab1061
10.1093/nar/gkab1061
AlphaFold Protein Structure Database: massively expanding the structural coverage of protein-sequence space with high-accuracy models
2,022
2022-01-07
journal-article
Oxford University Press (OUP)
Nucleic Acids Research
50
D1
D439-D444
0305-1048, 1362-4962
null
Mihaly Varadi, Stephen Anyango, Mandar Deshpande, Sreenath Nair, Cindy Natassia, Galabina Yordanova, David Yuan, Oana Stroe, Gemma Wood, Agata Laydon, Augustin Žídek, Tim Green, Kathryn Tunyasuvunakool, Stig Petersen, John Jumper, Ellen Clancy, Richard Green, Ankur Vora, Mira Lutfi, Michael Figurnov, Andrew Cowie, Nico...
27
European Molecular Biology Laboratory, European Bioinformatics Institute, Hinxton, UK
7,854
21
true
https://creativecommons.org/licenses/by/4.0/
DeepMind
10.13039/100017149
https://doi.org/10.1093/nar/gkab1061
https://academic.oup.com/nar/article-pdf/50/D1/D439/43502749/gkab1061.pdf
Abstract The AlphaFold Protein Structure Database (AlphaFold DB, https://alphafold.ebi.ac.uk) is an openly accessible, extensive database of high-accuracy protein-structure predictions. Powered by AlphaFold v2.0 of DeepMind, it has enabled an unprecedented expansion of the structural coverage of the known protein-seque...
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1145/37402.37422
10.1145/37402.37422
Marching cubes: A high resolution 3D surface construction algorithm
1,987
1987-08
journal-article
Association for Computing Machinery (ACM)
ACM SIGGRAPH Computer Graphics
21
4
163-169
0097-8930
null
William E. Lorensen, Harvey E. Cline
2
General Electric Company, Schenectady, NY
7,853
32
true
https://www.acm.org/publications/policies/copyright_policy#Background
null
null
https://doi.org/10.1145/37402.37422
null
We present a new algorithm, called marching cubes , that creates triangle models of constant density surfaces from 3D medical data. Using a divide-and-conquer approach to generate inter-slice connectivity, we create a case table that defines triangle topology. The algorithm processes the 3D medical data in scan-line or...
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
10.1177/1745691610393980
10.1177/1745691610393980
Amazon's Mechanical Turk
2,011
2011-01
journal-article
SAGE Publications
Perspectives on Psychological Science
6
1
3-5
1745-6916, 1745-6924
null
Michael Buhrmester, Tracy Kwang, Samuel D. Gosling
3
Department of Psychology, University of Texas at Austin
7,764
5
true
https://journals.sagepub.com/page/policies/text-and-data-mining-license
null
null
https://doi.org/10.1177/1745691610393980
https://journals.sagepub.com/doi/pdf/10.1177/1745691610393980
Amazon’s Mechanical Turk (MTurk) is a relatively new website that contains the major elements required to conduct research: an integrated participant compensation system; a large participant pool; and a streamlined process of study design, participant recruitment, and data collection. In this article, we describe and e...
null
en
9WddRhkpMxzPxbohI
ht85FQO4K7dxTUpo9
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10.1103/physrevb.40.3616
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10.1109/tcsvt.2012.2221191
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10.1016/j.cpc.2021.108033
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10.1126/science.235.4793.1196
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The oxide superconductors, particularly those recently discovered that are based on La 2 CuO 4 , have a set of peculiarities that suggest a common, unique mechanism: they tend in every case to occur near a metal-insulator transition into an odd-electron insulator with peculiar magnetic properties. This insulating phase...
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10.1038/nature03090
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Springer Science and Business Media LLC
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