Evaluated articles

Showing page 7 of 21 pages of list content

FAIR data station for lightweight metadata management and validation of omics studies

This article has 3 authors:
1. Bart Nijsse
2. Peter J Schaap
3. Jasper J Koehorst
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Dec 28, 2022Latest activity Apr 10, 2023
3D-Beacons: Decreasing the gap between protein sequences and structures through a federated network of protein structure data resources

This article has 32 authors:
1. Mihaly Varadi
2. Sreenath Nair
3. Ian Sillitoe
4. Gerardo Tauriello
5. Stephen Anyango
6. Stefan Bienert
7. Clemente Borges
8. Mandar Deshpande
9. Tim Green
10. Demis Hassabis
11. Andras Hatos
12. Tamas Hegedus
13. Maarten L Hekkelman
14. Robbie Joosten
15. John Jumper
16. Agata Laydon
17. Dmitry Molodenskiy
18. Damiano Piovesan
19. Edoardo Salladini
20. Steven L. Salzberg
21. Markus J Sommer
22. Martin Steinegger
23. Erzsebet Suhajda
24. Dmitri Svergun
25. Luiggi Tenorio-Ku
26. Silvio Tosatto
27. Kathryn Tunyasuvunakool
28. Andrew Mark Waterhouse
29. Augustin Žídek
30. Torsten Schwede
31. Christine Orengo
32. Sameer Velankar
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Aug 3, 2022Latest activity Mar 24, 2023
Making Common Fund data more findable: catalyzing a data ecosystem

This article has 42 authors:
1. Amanda L Charbonneau
2. Arthur Brady
3. Karl Czajkowski
4. Jain Aluvathingal
5. Saranya Canchi
6. Robert Carter
7. Kyle Chard
8. Daniel J B Clarke
9. Jonathan Crabtree
10. Heather H Creasy
11. Mike D'Arcy
12. Victor Felix
13. Michelle Giglio
14. Alicia Gingrich
15. Rayna M Harris
16. Theresa K Hodges
17. Olukemi Ifeonu
18. Minji Jeon
19. Eryk Kropiwnicki
20. Marisa C W Lim
21. R Lee Liming
22. Jessica Lumian
23. Anup A Mahurkar
24. Meisha Mandal
25. James B Munro
26. Suvarna Nadendla
27. Rudyard Richter
28. Cia Romano
29. Philippe Rocca-Serra
30. Michael Schor
31. Robert E Schuler
32. Hongsuda Tangmunarunkit
33. Alex Waldrop
34. Cris Williams
35. Karen Word
36. Susanna-Assunta Sansone
37. Avi Ma'ayan
38. Rick Wagner
39. Ian Foster
40. Carl Kesselman
41. C Titus Brown
42. Owen White
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Jan 1, 2022Latest activity Mar 24, 2023
Utilizing artificial intelligence system to build the digital structural proteome of reef-building corals

This article has 6 authors:
1. Yunchi Zhu
2. Xin Liao
3. Tingyu Han
4. J.-Y. Chen
5. Chunpeng He
6. Zuhong Lu
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Jun 30, 2022Latest activity Mar 24, 2023
What the Phage: a scalable workflow for the identification and analysis of phage sequences

This article has 7 authors:
1. Mike Marquet
2. Martin Hölzer
3. Mathias W Pletz
4. Adrian Viehweger
5. Oliwia Makarewicz
6. Ralf Ehricht
7. Christian Brandt
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Jan 1, 2022Latest activity Mar 24, 2023
Defining the Characteristics of Type I Interferon Stimulated Genes: Insight from Expression Data and Machine Learning

This article has 4 authors:
1. Haiting Chai
2. Quan Gu
3. Joseph Hughes
4. David L. Robertson
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Oct 9, 2021Latest activity Mar 24, 2023
Whole-genome sequencing of Chinese native goat offers biological insights into cashmere fiber formation

This article has 21 authors:
1. Hu Han
2. Man-Man Yang
3. Jiang Dan
4. Xing-Ju Zhang
5. Qiang Wei
6. Tao Chen
7. Qi-Ju Wang
8. Cheng-Ye Yang
9. Bater Wulan
10. Ting-Ting Zhang
11. Gang Gen
12. Mengkedala
13. Bin Li
14. Wei-Dong Deng
15. Ze-Pu Miao
16. Ran Wang
17. Qing-Feng Zhang
18. Lin Li
19. Sheng-Yu Chao
20. Ming Fang
21. Yong Li
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Nov 6, 2021Latest activity Mar 24, 2023
TAMPA: interpretable analysis and visualization of metagenomics-based taxon abundance profiles

This article has 4 authors:
1. Varuni Sarwal
2. Jaqueline Brito
3. Serghei Mangul
4. David Koslicki
Reviewed by GigaScience

This article has 3 evaluationsAppears in 1 listLatest version Apr 29, 2022Latest activity Mar 5, 2023
Contrast Subgraphs Allow Comparing Homogeneous and Heterogeneous Networks Derived from Omics Data

This article has 6 authors:
1. Tommaso Lanciano
2. Aurora Savino
3. Francesca Porcu
4. Davide Cittaro
5. Francesco Bonchi
6. Paolo Provero
Reviewed by GigaScience

This article has 5 evaluationsAppears in 1 listLatest version Jul 27, 2022Latest activity Mar 5, 2023
Workflow sharing with automated metadata validation and test execution to improve the reusability of published workflows

This article has 4 authors:
1. Hirotaka Suetake
2. Tsukasa Fukusato
3. Takeo Igarashi
4. Tazro Ohta
Reviewed by Arcadia Science, GigaScience

This article has 22 evaluationsAppears in 2 listsLatest version Dec 28, 2022Latest activity Apr 14, 2023
Chromosome-level genome and the identification of sex chromosomes in Uloborus diversus

This article has 3 authors:
1. Jeremiah Miller
2. Aleksey V Zimin
3. Andrew Gordus
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Dec 28, 2022Latest activity Mar 4, 2023
A molecular phenotypic map of malignant pleural mesothelioma

This article has 7 authors:
1. Alex Di Genova
2. Lise Mangiante
3. Alexandra Sexton-Oates
4. Catherine Voegele
5. Lynnette Fernandez-Cuesta
6. Nicolas Alcala
7. Matthieu Foll
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Dec 28, 2022Latest activity Mar 4, 2023
scShapes: a statistical framework for identifying distribution shapes in single-cell RNA-sequencing data

This article has 4 authors:
1. Malindrie Dharmaratne
2. Ameya S Kulkarni
3. Atefeh Taherian Fard
4. Jessica C Mar
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Dec 28, 2022Latest activity Mar 4, 2023
xAtlas: scalable small variant calling across heterogeneous next-generation sequencing experiments

This article has 14 authors:
1. Jesse Farek
2. Daniel Hughes
3. William Salerno
4. Yiming Zhu
5. Aishwarya Pisupati
6. Adam Mansfield
7. Olga Krasheninina
8. Adam C English
9. Ginger Metcalf
10. Eric Boerwinkle
11. Donna M Muzny
12. Richard Gibbs
13. Ziad Khan
14. Fritz J Sedlazeck
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Dec 28, 2022Latest activity Mar 4, 2023
Near-chromosomal de novo assembly of Bengal tiger genome reveals genetic hallmarks of apex predation

This article has 15 authors:
1. Harsh Shukla
2. Kushal Suryamohan
3. Anubhab Khan
4. Krishna Mohan
5. Rajadurai C Perumal
6. Oommen K Mathew
7. Ramesh Menon
8. Mandumpala Davis Dixon
9. Megha Muraleedharan
10. Boney Kuriakose
11. Saju Michael
12. Sajesh P Krishnankutty
13. Arun Zachariah
14. Somasekar Seshagiri
15. Uma Ramakrishnan
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Dec 28, 2022Latest activity Mar 4, 2023
Accurate and Fast Clade Assignment via Deep Learning and Frequency Chaos Game Representation

This article has 5 authors:
1. Jorge Avila Cartes
2. Santosh Anand
3. Simone Ciccolella
4. Paola Bonizzoni
5. Gianluca Della Vedova
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Jun 13, 2022Latest activity Mar 4, 2023
A Chromosome-level Assembly of the Japanese Eel Genome, Insights into Gene Duplication and Chromosomal Reorganization

This article has 13 authors:
1. Hongbo Wang
2. Hin Ting Wan
3. Bin Wu
4. Jianbo Jian
5. Alice HM Ng
6. Claire Yik-Lok Chung
7. Eugene Yui-Ching Chow
8. Jizhou Zhang
9. Anderson OL Wong
10. Keng Po Lai
11. Ting Fung Chan
12. Eric Lu Zhang
13. Chris Kong-Chu Wong
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Jul 1, 2022Latest activity Mar 4, 2023
DeePVP: Identification and classification of phage virion proteins using deep learning

This article has 4 authors:
1. Zhencheng Fang
2. Tao Feng
3. Hongwei Zhou
4. Muxuan Chen
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Jan 1, 2022Latest activity Mar 1, 2023
Benchmarking ultra-high molecular weight DNA preservation methods for long-read and long-range sequencing

This article has 22 authors:
1. Hollis A Dahn
2. Jacquelyn Mountcastle
3. Jennifer Balacco
4. Sylke Winkler
5. Iliana Bista
6. Anthony D Schmitt
7. Olga Vinnere Pettersson
8. Giulio Formenti
9. Karen Oliver
10. Michelle Smith
11. Wenhua Tan
12. Anne Kraus
13. Stephen Mac
14. Lisa M Komoroske
15. Tanya Lama
16. Andrew J Crawford
17. Robert W Murphy
18. Samara Brown
19. Alan F Scott
20. Phillip A Morin
21. Erich D Jarvis
22. Olivier Fedrigo
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Jan 1, 2022Latest activity Mar 1, 2023
Stardust: improving spatial transcriptomics data analysis through space aware modularity optimization based clustering

This article has 8 authors:
1. Simone Avesani
2. Eva Viesi
3. Luca Alessandrì
4. Giovanni Motterle
5. Vincenzo Bonnici
6. Marco Beccuti
7. Raffaele Calogero
8. Rosalba Giugno
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Apr 28, 2022Latest activity Mar 1, 2023

Evaluated articles

FAIR data station for lightweight metadata management and validation of omics studies

3D-Beacons: Decreasing the gap between protein sequences and structures through a federated network of protein structure data resources

Making Common Fund data more findable: catalyzing a data ecosystem

Utilizing artificial intelligence system to build the digital structural proteome of reef-building corals

What the Phage: a scalable workflow for the identification and analysis of phage sequences

Defining the Characteristics of Type I Interferon Stimulated Genes: Insight from Expression Data and Machine Learning

Whole-genome sequencing of Chinese native goat offers biological insights into cashmere fiber formation

TAMPA: interpretable analysis and visualization of metagenomics-based taxon abundance profiles

Contrast Subgraphs Allow Comparing Homogeneous and Heterogeneous Networks Derived from Omics Data

Workflow sharing with automated metadata validation and test execution to improve the reusability of published workflows

Chromosome-level genome and the identification of sex chromosomes in Uloborus diversus

A molecular phenotypic map of malignant pleural mesothelioma

scShapes: a statistical framework for identifying distribution shapes in single-cell RNA-sequencing data

xAtlas: scalable small variant calling across heterogeneous next-generation sequencing experiments

Near-chromosomal de novo assembly of Bengal tiger genome reveals genetic hallmarks of apex predation

Accurate and Fast Clade Assignment via Deep Learning and Frequency Chaos Game Representation

A Chromosome-level Assembly of the Japanese Eel Genome, Insights into Gene Duplication and Chromosomal Reorganization

DeePVP: Identification and classification of phage virion proteins using deep learning

Benchmarking ultra-high molecular weight DNA preservation methods for long-read and long-range sequencing

Stardust: improving spatial transcriptomics data analysis through space aware modularity optimization based clustering