Evaluated articles

Showing page 13 of 21 pages of list content

DrivAER: Identification of driving transcriptional programs in single-cell RNA sequencing data

This article has 3 authors:
1. Lukas M Simon
2. Fangfang Yan
3. Zhongming Zhao
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Dec 1, 2020Latest activity Jan 24, 2022
iGenomics: Comprehensive DNA sequence analysis on your Smartphone

This article has 4 authors:
1. Aspyn Palatnick
2. Bin Zhou
3. Elodie Ghedin
4. Michael C Schatz
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Dec 1, 2020Latest activity Jan 24, 2022
Accurate assembly of the olive baboon ( Papio anubis ) genome using long-read and Hi-C data

This article has 11 authors:
1. Sanjit Singh Batra
2. Michal Levy-Sakin
3. Jacqueline Robinson
4. Joseph Guillory
5. Steffen Durinck
6. Tauras P Vilgalys
7. Pui-Yan Kwok
8. Laura A Cox
9. Somasekar Seshagiri
10. Yun S Song
11. Jeffrey D Wall
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Dec 1, 2020Latest activity Jan 24, 2022
Dadasnake, a Snakemake implementation of DADA2 to process amplicon sequencing data for microbial ecology

This article has 3 authors:
1. Christina Weißbecker
2. Beatrix Schnabel
3. Anna Heintz-Buschart
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Nov 30, 2020Latest activity Jan 24, 2022
GigaSOM.jl: High-performance clustering and visualization of huge cytometry datasets

This article has 9 authors:
1. Miroslav Kratochvíl
2. Oliver Hunewald
3. Laurent Heirendt
4. Vasco Verissimo
5. Jiří Vondrášek
6. Venkata P Satagopam
7. Reinhard Schneider
8. Christophe Trefois
9. Markus Ollert
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Nov 1, 2020Latest activity Jan 24, 2022
Correcting for experiment-specific variability in expression compendia can remove underlying signals

This article has 5 authors:
1. Alexandra J Lee
2. YoSon Park
3. Georgia Doing
4. Deborah A Hogan
5. Casey S Greene
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Nov 1, 2020Latest activity Jan 24, 2022
A single-cell RNA-sequencing training and analysis suite using the Galaxy framework

This article has 23 authors:
1. Mehmet Tekman
2. Bérénice Batut
3. Alexander Ostrovsky
4. Christophe Antoniewski
5. Dave Clements
6. Fidel Ramirez
7. Graham J Etherington
8. Hans-Rudolf Hotz
9. Jelle Scholtalbers
10. Jonathan R Manning
11. Lea Bellenger
12. Maria A Doyle
13. Mohammad Heydarian
14. Ni Huang
15. Nicola Soranzo
16. Pablo Moreno
17. Stefan Mautner
18. Irene Papatheodorou
19. Anton Nekrutenko
20. James Taylor
21. Daniel Blankenberg
22. Rolf Backofen
23. Björn Grüning
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Oct 1, 2020Latest activity Jan 24, 2022
A map of tumor–host interactions in glioma at single-cell resolution

This article has 16 authors:
1. Francesca Pia Caruso
2. Luciano Garofano
3. Fulvio D'Angelo
4. Kai Yu
5. Fuchou Tang
6. Jinzhou Yuan
7. Jing Zhang
8. Luigi Cerulo
9. Stefano M Pagnotta
10. Davide Bedognetti
11. Peter A Sims
12. Mario Suvà
13. Xiao-Dong Su
14. Anna Lasorella
15. Antonio Iavarone
16. Michele Ceccarelli
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Oct 1, 2020Latest activity Jan 24, 2022
Gene-set Enrichment with Mathematical Biology (GEMB)

This article has 5 authors:
1. Amy L Cochran
2. Kenneth J Nieser
3. Daniel B Forger
4. Sebastian Zöllner
5. Melvin G McInnis
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Oct 1, 2020Latest activity Jan 24, 2022
Long-read only assembly of Drechmeria coniospora genomes reveals widespread chromosome plasticity and illustrates the limitations of current nanopore methods

This article has 6 authors:
1. Damien Courtine
2. Jan Provaznik
3. Jerome Reboul
4. Guillaume Blanc
5. Vladimir Benes
6. Jonathan J Ewbank
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Sep 1, 2020Latest activity Jan 24, 2022
A haplotype-resolved, de novo genome assembly for the wood tiger moth ( Arctia plantaginis ) through trio binning

This article has 11 authors:
1. Eugenie C Yen
2. Shane A McCarthy
3. Juan A Galarza
4. Tomas N Generalovic
5. Sarah Pelan
6. Petr Nguyen
7. Joana I Meier
8. Ian A Warren
9. Johanna Mappes
10. Richard Durbin
11. Chris D Jiggins
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Aug 1, 2020Latest activity Jan 24, 2022
Scientometric trends for coronaviruses and other emerging viral infections

This article has 3 authors:
1. Dima Kagan
2. Jacob Moran-Gilad
3. Michael Fire
Reviewed by GigaScience, ScreenIT

This article has 2 evaluationsAppears in 2 listsLatest version Aug 1, 2020Latest activity Jan 24, 2022
Imputing missing RNA-sequencing data from DNA methylation by using a transfer learning–based neural network

This article has 5 authors:
1. Xiang Zhou
2. Hua Chai
3. Huiying Zhao
4. Ching-Hsing Luo
5. Yuedong Yang
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Jul 1, 2020Latest activity Jan 24, 2022
Sequence Compression Benchmark (SCB) database—A comprehensive evaluation of reference-free compressors for FASTA-formatted sequences

This article has 4 authors:
1. Kirill Kryukov
2. Mahoko Takahashi Ueda
3. So Nakagawa
4. Tadashi Imanishi
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Jul 1, 2020Latest activity Jan 24, 2022
Reduced chromatin accessibility underlies gene expression differences in homologous chromosome arms of diploid Aegilops tauschii and hexaploid wheat

This article has 6 authors:
1. Fu-Hao Lu
2. Neil McKenzie
3. Laura-Jayne Gardiner
4. Ming-Cheng Luo
5. Anthony Hall
6. Michael W Bevan
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Jun 1, 2020Latest activity Jan 24, 2022
Draft genome assemblies using sequencing reads from Oxford Nanopore Technology and Illumina platforms for four species of North American Fundulus killifish

This article has 7 authors:
1. Lisa K Johnson
2. Ruta Sahasrabudhe
3. James Anthony Gill
4. Jennifer L Roach
5. Lutz Froenicke
6. C Titus Brown
7. Andrew Whitehead
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Jun 1, 2020Latest activity Jan 24, 2022
CRISPRcasIdentifier: Machine learning for accurate identification and classification of CRISPR-Cas systems

This article has 5 authors:
1. Victor A Padilha
2. Omer S Alkhnbashi
3. Shiraz A Shah
4. André C P L F de Carvalho
5. Rolf Backofen
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Jun 1, 2020Latest activity Jan 24, 2022
An improved pig reference genome sequence to enable pig genetics and genomics research

This article has 40 authors:
1. Amanda Warr
2. Nabeel Affara
3. Bronwen Aken
4. Hamid Beiki
5. Derek M Bickhart
6. Konstantinos Billis
7. William Chow
8. Lel Eory
9. Heather A Finlayson
10. Paul Flicek
11. Carlos G Girón
12. Darren K Griffin
13. Richard Hall
14. Greg Hannum
15. Thibaut Hourlier
16. Kerstin Howe
17. David A Hume
18. Osagie Izuogu
19. Kristi Kim
20. Sergey Koren
21. Haibou Liu
22. Nancy Manchanda
23. Fergal J Martin
24. Dan J Nonneman
25. Rebecca E O'Connor
26. Adam M Phillippy
27. Gary A Rohrer
28. Benjamin D Rosen
29. Laurie A Rund
30. Carole A Sargent
31. Lawrence B Schook
32. Steven G Schroeder
33. Ariel S Schwartz
34. Ben M Skinner
35. Richard Talbot
36. Elizabeth Tseng
37. Christopher K Tuggle
38. Mick Watson
39. Timothy P L Smith
40. Alan L Archibald
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Jun 1, 2020Latest activity Jan 24, 2022
Trans-NanoSim characterizes and simulates nanopore RNA-sequencing data

This article has 6 authors:
1. Saber Hafezqorani
2. Chen Yang
3. Theodora Lo
4. Ka Ming Nip
5. René L Warren
6. Inanc Birol
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Jun 1, 2020Latest activity Jan 24, 2022
SnpHub: an easy-to-set-up web server framework for exploring large-scale genomic variation data in the post-genomic era with applications in wheat

This article has 10 authors:
1. Wenxi Wang
2. Zihao Wang
3. Xintong Li
4. Zhongfu Ni
5. Zhaorong Hu
6. Mingming Xin
7. Huiru Peng
8. Yingyin Yao
9. Qixin Sun
10. Weilong Guo
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Jun 1, 2020Latest activity Jan 24, 2022

Evaluated articles

DrivAER: Identification of driving transcriptional programs in single-cell RNA sequencing data

iGenomics: Comprehensive DNA sequence analysis on your Smartphone

Accurate assembly of the olive baboon ( Papio anubis ) genome using long-read and Hi-C data

Dadasnake, a Snakemake implementation of DADA2 to process amplicon sequencing data for microbial ecology

GigaSOM.jl: High-performance clustering and visualization of huge cytometry datasets

Correcting for experiment-specific variability in expression compendia can remove underlying signals

A single-cell RNA-sequencing training and analysis suite using the Galaxy framework

A map of tumor–host interactions in glioma at single-cell resolution

Gene-set Enrichment with Mathematical Biology (GEMB)

Long-read only assembly of Drechmeria coniospora genomes reveals widespread chromosome plasticity and illustrates the limitations of current nanopore methods

A haplotype-resolved, de novo genome assembly for the wood tiger moth ( Arctia plantaginis ) through trio binning

Scientometric trends for coronaviruses and other emerging viral infections

Imputing missing RNA-sequencing data from DNA methylation by using a transfer learning–based neural network

Sequence Compression Benchmark (SCB) database—A comprehensive evaluation of reference-free compressors for FASTA-formatted sequences

Reduced chromatin accessibility underlies gene expression differences in homologous chromosome arms of diploid Aegilops tauschii and hexaploid wheat

Draft genome assemblies using sequencing reads from Oxford Nanopore Technology and Illumina platforms for four species of North American Fundulus killifish

CRISPRcasIdentifier: Machine learning for accurate identification and classification of CRISPR-Cas systems

An improved pig reference genome sequence to enable pig genetics and genomics research

Trans-NanoSim characterizes and simulates nanopore RNA-sequencing data

SnpHub: an easy-to-set-up web server framework for exploring large-scale genomic variation data in the post-genomic era with applications in wheat