Evaluated articles

Showing page 4 of 21 pages of list content

Exploring polymorphic interspecies structural variants in Eucalyptus: Unravelling Their Role in Reproductive Isolation and Adaptive Divergence

This article has 7 authors:
1. Scott Ferguson
2. Ashley Jones
3. Kevin Murray
4. Rose L. Andrew
5. Helen Bothwell
6. Benjamin Schwessinger
7. Justin Borevitz
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Oct 21, 2023Latest activity Jul 1, 2024
LRTK: a platform agnostic toolkit for linked-read analysis of both human genome and metagenome

This article has 10 authors:
1. Chao Yang
2. Zhenmiao Zhang
3. Yufen Huang
4. Xuefeng Xie
5. Herui Liao
6. Jin Xiao
7. Werner Pieter Veldsman
8. Kejing Yin
9. Xiaodong Fang
10. Lu Zhang
Reviewed by GigaScience

This article has 3 evaluationsAppears in 1 listLatest version Jan 1, 2024Latest activity Jul 1, 2024
Hecatomb: An End-to-End Research Platform for Viral Metagenomics

This article has 10 authors:
1. Michael J. Roach
2. Sarah J. Beecroft
3. Kathie A. Mihindukulasuriya
4. Leran Wang
5. Anne Paredes
6. Kara Henry-Cocks
7. Lais Farias Oliveira Lima
8. Elizabeth A. Dinsdale
9. Robert A. Edwards
10. Scott A. Handley
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version May 16, 2022Latest activity Jul 1, 2024
IPEV: identification of prokaryotic and eukaryotic virus-derived sequences in virome using deep learning

This article has 9 authors:
1. Hengchuang Yin
2. Shufang Wu
3. Jie Tan
4. Qian Guo
5. Mo Li
6. Jinyuan Guo
7. Yaqi Wang
8. Xiaoqing Jiang
9. Huaiqiu Zhu
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Jan 1, 2024Latest activity May 13, 2024
Korea4K: whole genome sequences of 4,157 Koreans with 107 phenotypes derived from extensive health check-ups

This article has 30 authors:
1. Sungwon Jeon
2. Hansol Choi
3. Yeonsu Jeon
4. Whan-Hyuk Choi
5. Hyunjoo Choi
6. Kyungwhan An
7. Hyojung Ryu
8. Jihun Bhak
9. Hyeonjae Lee
10. Yoonsung Kwon
11. Sukyeon Ha
12. Yeo Jin Kim
13. Asta Blazyte
14. Changjae Kim
15. Yeonkyung Kim
16. Younghui Kang
17. Yeong Ju Woo
18. Chanyoung Lee
19. Jeongwoo Seo
20. Changhan Yoon
21. Dan Bolser
22. Orsolya Biro
23. Eun-Seok Shin
24. Byung Chul Kim
25. Seon-Young Kim
26. Ji-Hwan Park
27. Jongbum Jeon
28. Dooyoung Jung
29. Semin Lee
30. Jong Bhak
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Jan 1, 2024Latest activity May 13, 2024
SRY: An Effective Method for Sorting Long Reads of Sex-limited Chromosome

This article has 4 authors:
1. Xiao-Bo Wang
2. Qing-You Liu
3. A-Lun Li
4. Jue Ruan
Reviewed by GigaScience

This article has 3 evaluationsAppears in 1 listLatest version May 28, 2020Latest activity May 13, 2024
Streamlining remote nanopore data access with slow5curl

This article has 4 authors:
1. Bonson Wong
2. James M. Ferguson
3. Hasindu Gamaarachchi
4. Ira W. Deveson
Reviewed by GigaScience

This article has 3 evaluationsAppears in 1 listLatest version Nov 30, 2023Latest activity May 13, 2024
On the variability of dynamic functional connectivity assessment methods

This article has 3 authors:
1. Mohammad Torabi
2. Georgios D Mitsis
3. Jean-Baptiste Poline
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Jan 1, 2024Latest activity May 13, 2024
Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data

This article has 2 authors:
1. Michael B Hall
2. Lachlan J M Coin
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Jan 1, 2024Latest activity May 13, 2024
Improved integration of single cell transcriptome data demonstrated on heart failure in mice and men

This article has 10 authors:
1. Mariano Ruz Jurado
2. Lukas Stefan Tombor
3. Mani Arsalan
4. Thomas Holubec
5. Fabian Emrich
6. Thomas Walther
7. Andreas M. Zeiher
8. Marcel H. Schulz
9. Stefanie Dimmeler
10. David John
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Mar 15, 2023Latest activity May 12, 2024
Multi-omic dataset of patient-derived tumor organoids of neuroendocrine neoplasms

This article has 8 authors:
1. Nicolas Alcala
2. Catherine Voegele
3. Lise Mangiante
4. Alexandra Sexton-Oates
5. Hans Clevers
6. Lynnette Fernandez-Cuesta
7. Talya L Dayton
8. Matthieu Foll
Reviewed by GigaScience

This article has 3 evaluationsAppears in 1 listLatest version Jan 1, 2024Latest activity Apr 8, 2024
The probability of edge existence due to node degree: a baseline for network-based predictions

This article has 6 authors:
1. Michael Zietz
2. Daniel S Himmelstein
3. Kyle Kloster
4. Christopher Williams
5. Michael W Nagle
6. Casey S Greene
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Jan 1, 2024Latest activity Mar 4, 2024
spatiAlign: an unsupervised contrastive learning model for data integration of spatially resolved transcriptomics

This article has 10 authors:
1. Chao Zhang
2. Lin Liu
3. Ying Zhang
4. Mei Li
5. Shuangsang Fang
6. Qiang Kang
7. Ao Chen
8. Xun Xu
9. Yong Zhang
10. Yuxiang Li
Reviewed by GigaScience

This article has 3 evaluationsAppears in 1 listLatest version Jan 1, 2024Latest activity Nov 23, 2024
Machine Learning Made Easy (MLme): a comprehensive toolkit for machine learning–driven data analysis

This article has 9 authors:
1. Akshay Akshay
2. Mitali Katoch
3. Navid Shekarchizadeh
4. Masoud Abedi
5. Ankush Sharma
6. Fiona C Burkhard
7. Rosalyn M Adam
8. Katia Monastyrskaya
9. Ali Hashemi Gheinani
Reviewed by GigaScience

This article has 5 evaluationsAppears in 1 listLatest version Jan 1, 2024Latest activity Feb 11, 2024
A Multi-omics Data Analysis Workflow Packaged as a FAIR Digital Object

This article has 13 authors:
1. Anna Niehues
2. Casper de Visser
3. Fiona A. Hagenbeek
4. Purva Kulkarni
5. Rene Pool
6. Naama Karu
7. Alida S. D. Kindt
8. Gurnoor Singh
9. Robert R. J. M. Vermeiren
10. Dorret I. Boomsma
11. Jenny van Dongen
12. Peter A. C. 't Hoen
13. Alain J. van Gool
Reviewed by GigaScience

This article has 3 evaluationsAppears in 2 listsLatest version Jun 9, 2023Latest activity Feb 11, 2024
Vulture: cloud-enabled scalable mining of microbial reads in public scRNA-seq data

This article has 6 authors:
1. Junyi Chen
2. Danqing Yin
3. Harris Y H Wong
4. Xin Duan
5. Ken H O Yu
6. Joshua W K Ho
Reviewed by GigaScience

This article has 4 evaluationsAppears in 1 listLatest version Jan 1, 2024Latest activity Feb 11, 2024
A high-quality pseudo-phased genome for Melaleuca quinquenervia shows allelic diversity of NLR-type resistance genes

This article has 9 authors:
1. Stephanie H Chen
2. Alyssa M Martino
3. Zhenyan Luo
4. Benjamin Schwessinger
5. Ashley Jones
6. Tamene Tolessa
7. Jason G Bragg
8. Peri A Tobias
9. Richard J Edwards
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Apr 28, 2023Latest activity Jan 22, 2024
Variance Analysis of LC-MS Experimental Factors and Their Impact on Machine Learning

This article has 7 authors:
1. Tobias Greisager Rehfeldt
2. Konrad Krawczyk
3. Simon Gregersen Echers
4. Paolo Marcatili
5. Pawel Palczynski
6. Richard Röttger
7. Veit Schwämmle
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version May 2, 2023Latest activity Jan 2, 2024
Finding the LMA needle in the wheat proteome haystack

This article has 11 authors:
1. Delphine Vincent
2. AnhDuyen Bui
3. Vilnis Ezernieks
4. Saleh Shahinfar
5. Timothy Luke
6. Doris Ram
7. Nicholas Rigas
8. Joe Panozzo
9. Simone Rochfort
10. Hans Daetwyler
11. Matthew Hayden
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Jan 23, 2023Latest activity Jan 2, 2024
When do longer reads matter? A benchmark of long read de novo assembly tools for eukaryotic genomes

This article has 7 authors:
1. Bianca-Maria Cosma
2. Ramin Shirali Hossein Zade
3. Erin Noel Jordan
4. Paul van Lent
5. Chengyao Peng
6. Stephanie Pillay
7. Thomas Abeel
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Feb 2, 2023Latest activity Jan 2, 2024

Evaluated articles

Exploring polymorphic interspecies structural variants in Eucalyptus: Unravelling Their Role in Reproductive Isolation and Adaptive Divergence

LRTK: a platform agnostic toolkit for linked-read analysis of both human genome and metagenome

Hecatomb: An End-to-End Research Platform for Viral Metagenomics

IPEV: identification of prokaryotic and eukaryotic virus-derived sequences in virome using deep learning

Korea4K: whole genome sequences of 4,157 Koreans with 107 phenotypes derived from extensive health check-ups

SRY: An Effective Method for Sorting Long Reads of Sex-limited Chromosome

Streamlining remote nanopore data access with slow5curl

On the variability of dynamic functional connectivity assessment methods

Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data

Improved integration of single cell transcriptome data demonstrated on heart failure in mice and men

Multi-omic dataset of patient-derived tumor organoids of neuroendocrine neoplasms

The probability of edge existence due to node degree: a baseline for network-based predictions

spatiAlign: an unsupervised contrastive learning model for data integration of spatially resolved transcriptomics

Machine Learning Made Easy (MLme): a comprehensive toolkit for machine learning–driven data analysis

A Multi-omics Data Analysis Workflow Packaged as a FAIR Digital Object

Vulture: cloud-enabled scalable mining of microbial reads in public scRNA-seq data

A high-quality pseudo-phased genome for Melaleuca quinquenervia shows allelic diversity of NLR-type resistance genes

Variance Analysis of LC-MS Experimental Factors and Their Impact on Machine Learning

Finding the LMA needle in the wheat proteome haystack

When do longer reads matter? A benchmark of long read de novo assembly tools for eukaryotic genomes