Evaluated articles

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CellBinDB: A Large-Scale Multimodal Annotated Dataset for Cell Segmentation with Benchmarking of Universal Models

This article has 13 authors:
1. Can Shi
2. Jinghong Fan
3. Zhonghan Deng
4. Huanlin Liu
5. Qiang Kang
6. Yumei Li
7. Jing Guo
8. Jingwen Wang
9. Jinjiang Gong
10. Sha Liao
11. Ao Chen
12. Ying Zhang
13. Mei Li
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Dec 12, 2024Latest activity Jul 8, 2025
Extraction of biological terms using large language models enhances the usability of metadata in the BioSample database

This article has 8 authors:
1. Shuya Ikeda
2. Zhaonan Zou
3. Hidemasa Bono
4. Yuki Moriya
5. Shuichi Kawashima
6. Toshiaki Katayama
7. Shinya Oki
8. Tazro Ohta
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Feb 22, 2025Latest activity Jul 8, 2025
The FIP 1.0 Data Set: Highly Resolved Annotated Image Time Series of 4,000 Wheat Plots Grown in Six Years

This article has 28 authors:
1. Lukas Roth
2. Mike Boss
3. Norbert Kirchgessner
4. Helge Aasen
5. Brenda Patricia Aguirre-Cuellar
6. Price Pius Atuah Akiina
7. Jonas Anderegg
8. Joaquin Gajardo Castillo
9. Xiaoran Chen
10. Simon Corrado
11. Krzysztof Cybulski
12. Beat Keller
13. Stefan Göbel Kortstee
14. Lukas Kronenberg
15. Frank Liebisch
16. Paraskevi Nousi
17. Corina Oppliger
18. Gregor Perich
19. Johannes Pfeifer
20. Kang Yu
21. Nicola Storni
22. Flavian Tschurr
23. Simon Treier
24. Michele Volpi
25. Hansueli Zellweger
26. Olivia Zumsteg
27. Andreas Hund
28. Achim Walter
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Mar 11, 2025Latest activity Jul 8, 2025
CODARFE: Unlocking the prediction of continuous environmental variables based on microbiome

This article has 5 authors:
1. Murilo Caminotto Barbosa
2. João Fernando Marques da Silva
3. Leonardo Cardoso Alves
4. Robert D Finn
5. Alexandre Rossi Paschoal
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Jul 19, 2024Latest activity Jul 8, 2025
Chromosome-level genome assembly and methylome profile enables insights for the conservation of endangered loggerhead sea turtles

This article has 10 authors:
1. Eugenie C. Yen
2. James D. Gilbert
3. Alice Balard
4. Albert Taxonera
5. Kirsten Fairweather
6. Heather L. Ford
7. Doko-Miles J. Thorburn
8. Stephen J. Rossiter
9. José M. Martín-Durán
10. Christophe Eizaguirre
Reviewed by GigaScience

This article has 3 evaluationsAppears in 1 listLatest version Aug 28, 2024Latest activity Jul 8, 2025
Health Data Nexus: An Open Data Platform for AI Research and Education in Medicine

This article has 12 authors:
1. January Adams
2. Rafal Cymerys
3. Karol Szuster
4. Daniel Hekman
5. Zoryana Salo
6. Rutvik Solanki
7. Muhammad Mamdani
8. Alistair Johnson
9. Katarzyna Ryniak
10. Tom Pollard
11. David Rotenberg
12. Benjamin Haibe-Kains
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Apr 17, 2025Latest activity Jul 8, 2025
Chromosome-level reference genome for the medically important Arabian horned viper ( Cerastes gasperettii )

This article has 15 authors:
1. Gabriel Mochales-Riaño
2. Samuel R. Hirst
3. Adrián Talavera
4. Bernat Burriel-Carranza
5. Viviana Pagone
6. Maria Estarellas
7. Theo Busschau
8. Stéphane Boissinot
9. Michael P. Hogan
10. Jordi Tena-Garcés
11. Davinia Pla
12. Juan J. Calvete
13. Johannes Els
14. Mark J. Margres
15. Salvador Carranza
Reviewed by GigaScience

This article has 3 evaluationsAppears in 1 listLatest version Jul 29, 2024Latest activity Jul 8, 2025
Analysis-ready VCF at Biobank scale using Zarr

This article has 16 authors:
1. Eric Czech
2. Timothy R. Millar
3. Will Tyler
4. Tom White
5. Benjamin Elsworth
6. Jérémy Guez
7. Jonny Hancox
8. Ben Jeffery
9. Konrad J. Karczewski
10. Alistair Miles
11. Sam Tallman
12. Per Unneberg
13. Rafal Wojdyla
14. Shadi Zabad
15. Jeff Hammerbacher
16. Jerome Kelleher
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Feb 6, 2025Latest activity Jul 8, 2025
The first near-complete genome assembly of pig: enabling more accurate genetic research

This article has 13 authors:
1. Caiyun Cao
2. Jian Miao
3. Qinqin Xie
4. Jiabao Sun
5. Hong Cheng
6. Zhenyang Zhang
7. Fen Wu
8. Shuang Liu
9. Xiaowei Ye
10. Zhe Zhang
11. Qishan Wang
12. Yuchun Pan
13. Zhen Wang
Reviewed by GigaScience

This article has 3 evaluationsAppears in 1 listLatest version Oct 15, 2024Latest activity Jun 3, 2025
Spatial Integration of Multi-Omics Data using the novel Multi-Omics Imaging Integration Toolset

This article has 9 authors:
1. Maximillian Wess
2. Maria K. Andersen
3. Elise Midtbust
4. Juan Carlos Cabellos Guillem
5. Trond Viset
6. Øystein Størkersen
7. Sebastian Krossa
8. Morten Beck Rye
9. May-Britt Tessem
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Jun 12, 2024Latest activity Jun 3, 2025
External validation of machine learning models—registered models and adaptive sample splitting

This article has 8 authors:
1. Giuseppe Gallitto
2. Robert Englert
3. Balint Kincses
4. Raviteja Kotikalapudi
5. Jialin Li
6. Kevin Hoffschlag
7. Ulrike Bingel
8. Tamas Spisak
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Jan 1, 2025Latest activity Jun 3, 2025
Defining the limits of plant chemical space: challenges and estimations

This article has 10 authors:
1. Chloe Engler Hart
2. Yojana Gadiya
3. Tobias Kind
4. Christoph A. Krettler
5. Matthew Gaetz
6. Biswapriya B. Misra
7. David Healey
8. August Allen
9. Viswa Colluru
10. Daniel Domingo-Fernández
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Jan 13, 2025Latest activity May 6, 2025
RWRtoolkit: multi-omic network analysis using random walks on multiplex networks in any species

This article has 23 authors:
1. David Kainer
2. Matthew Lane
3. Kyle A Sullivan
4. J Izaak Miller
5. Mikaela Cashman
6. Mallory Morgan
7. Ashley Cliff
8. Jonathon Romero
9. Angelica Walker
10. D Dakota Blair
11. Hari Chhetri
12. Yongqin Wang
13. Mirko Pavicic
14. Anna Furches
15. Jaclyn Noshay
16. Meghan Drake
17. A J Ireland
18. Ali Missaoui
19. Yun Kang
20. John C Sedbrook
21. Paramvir Dehal
22. Shane Canon
23. Daniel Jacobson
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Jan 1, 2025Latest activity May 6, 2025
Network-based anomaly detection algorithm reveals proteins with major roles in human tissues

This article has 4 authors:
1. Dima Kagan
2. Juman Jubran
3. Esti Yeger-Lotem
4. Michael Fire
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Jan 1, 2025Latest activity Apr 28, 2025
Healthy microbiome—moving towards functional interpretation

This article has 5 authors:
1. Kinga Zielińska
2. Klas I Udekwu
3. Witold Rudnicki
4. Alina Frolova
5. Paweł P Łabaj
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Jan 1, 2025Latest activity Apr 3, 2025
Genomic and transcriptomic analyses of Heteropoda venatoria reveal the expansion of P450 family for starvation resistance in spider

This article has 4 authors:
1. Guoqing Zhang
2. Yiru Wang
3. Hongcen Jiang
4. Yi Wang
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Jul 31, 2024Latest activity Apr 3, 2025
Genomic evidence for hybridization and introgression between blue peafowl and green peafowl and selection for white plumage

This article has 18 authors:
1. Gang Wang
2. Liping Ban
3. Xinye Zhang
4. Xiurong Zhao
5. Xufang Ren
6. Anqi Chen
7. Li Zhang
8. Yan Lu
9. Zhihua Jiang
10. Xiaoyu Zhao
11. Junhui Wen
12. Yalan Zhang
13. Xue Cheng
14. Huie Wang
15. Wenting Dai
16. Yong Liu
17. Zhonghua Ning
18. Lujiang Qu
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Dec 27, 2023Latest activity Mar 3, 2025
xRead: a coverage-guided approach for scalable construction of read overlapping graph

This article has 3 authors:
1. Tangchao Kong
2. Yadong Wang
3. Bo Liu
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Jan 1, 2025Latest activity Mar 3, 2025
TransHLA: A Hybrid Transformer Model for HLA-Presented Epitope Detection

This article has 5 authors:
1. Tianchi Lu
2. Xueying Wang
3. Wan Nie
4. Miaozhe Huo
5. Shuaicheng Li
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Jan 24, 2025Latest activity Mar 3, 2025
A chromosome-level, haplotype-resolved genome assembly and annotation for the Eurasian minnow (Leuciscidae: Phoxinus phoxinus ) provide evidence of haplotype diversity

This article has 9 authors:
1. Temitope Opeyemi Oriowo
2. Ioannis Chrysostomakis
3. Sebastian Martin
4. Sandra Kukowka
5. Thomas Brown
6. Sylke Winkler
7. Eugene W Myers
8. Astrid Böhne
9. Madlen Stange
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Jan 1, 2025Latest activity Feb 10, 2025

Evaluated articles

CellBinDB: A Large-Scale Multimodal Annotated Dataset for Cell Segmentation with Benchmarking of Universal Models

Extraction of biological terms using large language models enhances the usability of metadata in the BioSample database

The FIP 1.0 Data Set: Highly Resolved Annotated Image Time Series of 4,000 Wheat Plots Grown in Six Years

CODARFE: Unlocking the prediction of continuous environmental variables based on microbiome

Chromosome-level genome assembly and methylome profile enables insights for the conservation of endangered loggerhead sea turtles

Health Data Nexus: An Open Data Platform for AI Research and Education in Medicine

Chromosome-level reference genome for the medically important Arabian horned viper ( Cerastes gasperettii )

Analysis-ready VCF at Biobank scale using Zarr

The first near-complete genome assembly of pig: enabling more accurate genetic research

Spatial Integration of Multi-Omics Data using the novel Multi-Omics Imaging Integration Toolset

External validation of machine learning models—registered models and adaptive sample splitting

Defining the limits of plant chemical space: challenges and estimations

RWRtoolkit: multi-omic network analysis using random walks on multiplex networks in any species

Network-based anomaly detection algorithm reveals proteins with major roles in human tissues

Healthy microbiome—moving towards functional interpretation

Genomic and transcriptomic analyses of Heteropoda venatoria reveal the expansion of P450 family for starvation resistance in spider

Genomic evidence for hybridization and introgression between blue peafowl and green peafowl and selection for white plumage

xRead: a coverage-guided approach for scalable construction of read overlapping graph

TransHLA: A Hybrid Transformer Model for HLA-Presented Epitope Detection

A chromosome-level, haplotype-resolved genome assembly and annotation for the Eurasian minnow (Leuciscidae: Phoxinus phoxinus ) provide evidence of haplotype diversity