GigaScience Journal
@gigascience.bsky.social
The #OpenScience journal from BGI & OUP publishing articles using/generating large datasets. And linked to GigaDB #opendata hosting/analysis repository.
Website: http://gigasciencejournal.com
Website: http://gigasciencejournal.com
Dear Authors, Readers, Editorial Board Members and Colleagues in the Academic Community, we are delighted to announce that Dr. Xun Xu has officially been appointed as Editor-in-Chief of GigaScience. See the announcement here: gigasciencejournal.com/blog/dr-xun-...
Dr. Xun Xu has been appointed as Editor-in-Chief of GigaScience |
gigasciencejournal.com
October 13, 2025 at 3:09 AM
Dear Authors, Readers, Editorial Board Members and Colleagues in the Academic Community, we are delighted to announce that Dr. Xun Xu has officially been appointed as Editor-in-Chief of GigaScience. See the announcement here: gigasciencejournal.com/blog/dr-xun-...
And it’s goodbye from me. Final GigaBlog from outgoing EiC @scedmunds.bsky.social on the major changes at GigaScience Press gigasciencejournal.com/blog/and-its...
September 17, 2025 at 4:36 PM
And it’s goodbye from me. Final GigaBlog from outgoing EiC @scedmunds.bsky.social on the major changes at GigaScience Press gigasciencejournal.com/blog/and-its...
Happy #PeerReviewWeek: To celebrate we have a proposal in GigaBlog: Why we need a FAIR Principles for Peer Review? gigasciencejournal.com/blog/peerrev... #PRW2025
September 16, 2025 at 7:01 AM
Happy #PeerReviewWeek: To celebrate we have a proposal in GigaBlog: Why we need a FAIR Principles for Peer Review? gigasciencejournal.com/blog/peerrev... #PRW2025
A novel deep learning model for accurate and rapid prediction of IAV subtypes and host source
WaveSeekerNet: accurate prediction of influenza A virus subtypes and host source using attention-based deep learning doi.org/10.1093/giga...
WaveSeekerNet: accurate prediction of influenza A virus subtypes and host source using attention-based deep learning doi.org/10.1093/giga...
WaveSeekerNet: accurate prediction of influenza A virus subtypes and host source using attention-based deep learning
AbstractBackground. Influenza A virus (IAV) poses a significant threat to animal health globally, with its ability to overcome species barriers and cause p
doi.org
September 14, 2025 at 3:51 AM
A novel deep learning model for accurate and rapid prediction of IAV subtypes and host source
WaveSeekerNet: accurate prediction of influenza A virus subtypes and host source using attention-based deep learning doi.org/10.1093/giga...
WaveSeekerNet: accurate prediction of influenza A virus subtypes and host source using attention-based deep learning doi.org/10.1093/giga...
The Return of Asia Nature Challenge #ANC2025
gigasciencejournal.com/blog/the-ret... #AsiaNatureChallenge #ANC2025 #CitizenScience
gigasciencejournal.com/blog/the-ret... #AsiaNatureChallenge #ANC2025 #CitizenScience
September 12, 2025 at 10:08 AM
The Return of Asia Nature Challenge #ANC2025
gigasciencejournal.com/blog/the-ret... #AsiaNatureChallenge #ANC2025 #CitizenScience
gigasciencejournal.com/blog/the-ret... #AsiaNatureChallenge #ANC2025 #CitizenScience
A new #opensource interpretable genomic selection model designed for phenotype prediction.
DeepAnnotation: A novel interpretable deep learning–based genomic selection model that integrates comprehensive functional annotations doi.org/10.1093/giga...
DeepAnnotation: A novel interpretable deep learning–based genomic selection model that integrates comprehensive functional annotations doi.org/10.1093/giga...
DeepAnnotation: A novel interpretable deep learning–based genomic selection model that integrates comprehensive functional annotations
AbstractBackground. Genomic selection, which leverages genomic information to predict the breeding value of individuals, has dramatically accelerated the i
doi.org
September 12, 2025 at 8:25 AM
A new #opensource interpretable genomic selection model designed for phenotype prediction.
DeepAnnotation: A novel interpretable deep learning–based genomic selection model that integrates comprehensive functional annotations doi.org/10.1093/giga...
DeepAnnotation: A novel interpretable deep learning–based genomic selection model that integrates comprehensive functional annotations doi.org/10.1093/giga...
Presenting new avenues for white matter abnormality-related classification of heterogeneous MRI data
HeteroMRI: Robust white matter abnormality classification across multi-scanner MRI data doi.org/10.1093/giga...
HeteroMRI: Robust white matter abnormality classification across multi-scanner MRI data doi.org/10.1093/giga...
HeteroMRI: Robust white matter abnormality classification across multi-scanner MRI data
AbstractBackground. Magnetic resonance imaging (MRI) is commonly used for analyzing white matter abnormalities in the human brain. Integrating machine lear
doi.org
September 11, 2025 at 3:36 PM
Presenting new avenues for white matter abnormality-related classification of heterogeneous MRI data
HeteroMRI: Robust white matter abnormality classification across multi-scanner MRI data doi.org/10.1093/giga...
HeteroMRI: Robust white matter abnormality classification across multi-scanner MRI data doi.org/10.1093/giga...
Reposted by GigaScience Journal
📣Another publication from our amazing researchers and colleagues: The Earth Hologenome Initiative: Data Release 1
@ehologenome.bsky.social 🦠💡
Find it in
@gigascience.bsky.social
👇
@ehologenome.bsky.social 🦠💡
Find it in
@gigascience.bsky.social
👇
The Earth Hologenome Initiative: Data Release 1
AbstractBackground. The Earth Hologenome Initiative (EHI) is a global endeavor dedicated to revisit fundamental ecological and evolutionary questions from
academic.oup.com
September 11, 2025 at 10:18 AM
📣Another publication from our amazing researchers and colleagues: The Earth Hologenome Initiative: Data Release 1
@ehologenome.bsky.social 🦠💡
Find it in
@gigascience.bsky.social
👇
@ehologenome.bsky.social 🦠💡
Find it in
@gigascience.bsky.social
👇
New in our T2T series, and the first published plant (and T2T) genome using CycloneSeq nanopore reads.
Telomere-to-telomere African wild rice (Oryza longistaminata) reference genome reveals segmental and structural variation doi.org/10.1093/giga...
Telomere-to-telomere African wild rice (Oryza longistaminata) reference genome reveals segmental and structural variation doi.org/10.1093/giga...
September 10, 2025 at 1:12 PM
New in our T2T series, and the first published plant (and T2T) genome using CycloneSeq nanopore reads.
Telomere-to-telomere African wild rice (Oryza longistaminata) reference genome reveals segmental and structural variation doi.org/10.1093/giga...
Telomere-to-telomere African wild rice (Oryza longistaminata) reference genome reveals segmental and structural variation doi.org/10.1093/giga...
Presenting metagenomic data from the analysis of microbial communities in mangrove sediments across Southeast China
A holistic genome dataset of bacteria and archaea of mangrove sediments doi.org/10.1093/giga...
A holistic genome dataset of bacteria and archaea of mangrove sediments doi.org/10.1093/giga...
A holistic genome dataset of bacteria and archaea of mangrove sediments
AbstractBackground. Mangroves are one of the most productive marine ecosystems with high ecosystem service value. The sediment microbial communities contri
doi.org
September 8, 2025 at 9:54 AM
Presenting metagenomic data from the analysis of microbial communities in mangrove sediments across Southeast China
A holistic genome dataset of bacteria and archaea of mangrove sediments doi.org/10.1093/giga...
A holistic genome dataset of bacteria and archaea of mangrove sediments doi.org/10.1093/giga...
A new platform for discovering new bioactive peptides and family-specific analogues, accelerating both natural product discovery and evolutionary research.
PeptideMiner—neuropeptide discovery across the animal kingdom doi.org/10.1093/giga...
PeptideMiner—neuropeptide discovery across the animal kingdom doi.org/10.1093/giga...
PeptideMiner—neuropeptide discovery across the animal kingdom
Abstract. Neuropeptides represent the largest and most diverse class of cell-to-cell signaling molecules, holding important roles in animal physiology and
doi.org
September 6, 2025 at 9:27 AM
A new platform for discovering new bioactive peptides and family-specific analogues, accelerating both natural product discovery and evolutionary research.
PeptideMiner—neuropeptide discovery across the animal kingdom doi.org/10.1093/giga...
PeptideMiner—neuropeptide discovery across the animal kingdom doi.org/10.1093/giga...
A new GNN+DNN model, which combines molecular graphs and fingerprints through a graph attention network architecture.
SynProtX: a large-scale proteomics-based deep learning model for predicting synergistic anticancer drug combinations doi.org/10.1093/giga...
SynProtX: a large-scale proteomics-based deep learning model for predicting synergistic anticancer drug combinations doi.org/10.1093/giga...
SynProtX: a large-scale proteomics-based deep learning model for predicting synergistic anticancer drug combinations
AbstractMotivation. Drug combination therapy plays a pivotal role in addressing the molecular heterogeneity of cancer, improving treatment efficacy, minimi
doi.org
September 5, 2025 at 3:45 AM
A new GNN+DNN model, which combines molecular graphs and fingerprints through a graph attention network architecture.
SynProtX: a large-scale proteomics-based deep learning model for predicting synergistic anticancer drug combinations doi.org/10.1093/giga...
SynProtX: a large-scale proteomics-based deep learning model for predicting synergistic anticancer drug combinations doi.org/10.1093/giga...
Old MacDonald had animal-associated microbiome contamination, E-I-E-I-O
Reducing skin microbiome exposure impacts through swine farm biosecurity doi.org/10.1093/giga...
Reducing skin microbiome exposure impacts through swine farm biosecurity doi.org/10.1093/giga...
Reducing skin microbiome exposure impacts through swine farm biosecurity
AbstractBackground. Livestock work is unique due to worker exposure to animal-associated microbiomes within the workplace. Swine workers are a unique cohor
doi.org
September 3, 2025 at 4:16 AM
Old MacDonald had animal-associated microbiome contamination, E-I-E-I-O
Reducing skin microbiome exposure impacts through swine farm biosecurity doi.org/10.1093/giga...
Reducing skin microbiome exposure impacts through swine farm biosecurity doi.org/10.1093/giga...
A new #opensource #metabolomics platform dedicated to the selection, integration, and secure (controlled access) sharing of quantitative metabolomics data
MetaboSERV—a platform for selecting, exchanging, and visualizing metabolomics data with controlled data access doi.org/10.1093/giga...
MetaboSERV—a platform for selecting, exchanging, and visualizing metabolomics data with controlled data access doi.org/10.1093/giga...
MetaboSERV—a platform for selecting, exchanging, and visualizing metabolomics data with controlled data access
AbstractBackground. The growing number of metabolomics studies, based on high-dimensional data measured by hyphenated mass spectrometry (MS) and/or nuclear
doi.org
September 2, 2025 at 4:24 AM
A new #opensource #metabolomics platform dedicated to the selection, integration, and secure (controlled access) sharing of quantitative metabolomics data
MetaboSERV—a platform for selecting, exchanging, and visualizing metabolomics data with controlled data access doi.org/10.1093/giga...
MetaboSERV—a platform for selecting, exchanging, and visualizing metabolomics data with controlled data access doi.org/10.1093/giga...
New in our T2T series: Telomere-to-telomere chromosome-scale genome assemblies of black and golden koi carp variants support construction of an ancient karyotype of Cypriniformes doi.org/10.1093/giga...
Telomere-to-telomere chromosome-scale genome assemblies of black and golden koi carp variants support construction of an ancient karyotype of Cypriniformes
AbstractBackground. Koi carp, a variant of the common carp, is one of the most popular ornamental fish. Its genomic resources can help us better understand
doi.org
September 2, 2025 at 4:19 AM
New in our T2T series: Telomere-to-telomere chromosome-scale genome assemblies of black and golden koi carp variants support construction of an ancient karyotype of Cypriniformes doi.org/10.1093/giga...
Watch this new explainer video from @eugeniecyen.bsky.social on her labs work on on conservation #genomics and #epigenomics of endangered Loggerhead Turtles youtu.be/3C4D43mEBBk?...
Charley Yen on Conservation Genomics and Epigenomics of Loggerhead Turtles
YouTube video by GigaScience Press
youtu.be
August 29, 2025 at 3:13 PM
Watch this new explainer video from @eugeniecyen.bsky.social on her labs work on on conservation #genomics and #epigenomics of endangered Loggerhead Turtles youtu.be/3C4D43mEBBk?...
If you missed our cracking Cassyni webinar yesterday with Arthur Georges and Qiye Li talking about reptile sex-determination and CycloneSeq, the Q&A was a treat as we had many of the worlds top sex chromosome researchers join the discussion. You can watch it here cassyni.com/events/SWHRe...
August 27, 2025 at 2:58 PM
If you missed our cracking Cassyni webinar yesterday with Arthur Georges and Qiye Li talking about reptile sex-determination and CycloneSeq, the Q&A was a treat as we had many of the worlds top sex chromosome researchers join the discussion. You can watch it here cassyni.com/events/SWHRe...
Tune it to our amazing sex changing reptile genomics webinar starting in about an hour...
Sign up for our webinar on Tuesday 26th August on how new long read technologies (including the first CycloneSeq vertebrate genomes) are helping elucidate the sex determination of sex-changing reptiles cassyni.com/events/SWHRe...
August 26, 2025 at 9:06 AM
Tune it to our amazing sex changing reptile genomics webinar starting in about an hour...
The long-bodied mandarin fish joins the T2T genome club (and our T2T genomes thematic series)
The telomere-to-telomere gap-free reference genome and taxonomic reassessment of Siniperca roulei doi.org/10.1093/giga...
The telomere-to-telomere gap-free reference genome and taxonomic reassessment of Siniperca roulei doi.org/10.1093/giga...
The telomere-to-telomere gap-free reference genome and taxonomic reassessment of Siniperca roulei
Abstract. Siniperca roulei is primarily distributed in the eastern waters of China, with its population being both scarce and vulnerable. Research on this
doi.org
August 24, 2025 at 10:21 PM
The long-bodied mandarin fish joins the T2T genome club (and our T2T genomes thematic series)
The telomere-to-telomere gap-free reference genome and taxonomic reassessment of Siniperca roulei doi.org/10.1093/giga...
The telomere-to-telomere gap-free reference genome and taxonomic reassessment of Siniperca roulei doi.org/10.1093/giga...
See also this video where you can see the loss of eyes during development of the olm from 3D imaging data we published youtu.be/OJYafv5lzSk?...
August 24, 2025 at 4:37 AM
See also this video where you can see the loss of eyes during development of the olm from 3D imaging data we published youtu.be/OJYafv5lzSk?...
Sign up for our webinar on Tuesday 26th August on how new long read technologies (including the first CycloneSeq vertebrate genomes) are helping elucidate the sex determination of sex-changing reptiles cassyni.com/events/SWHRe...
August 22, 2025 at 11:56 AM
Sign up for our webinar on Tuesday 26th August on how new long read technologies (including the first CycloneSeq vertebrate genomes) are helping elucidate the sex determination of sex-changing reptiles cassyni.com/events/SWHRe...
New work providing an improved understanding of the epigenomic basis of turbot immune response to mimics of viral and bacterial stimuli
Multiomics uncovers the epigenomic and transcriptomic response to viral and bacterial stimulation in turbot doi.org/10.1093/giga...
Multiomics uncovers the epigenomic and transcriptomic response to viral and bacterial stimulation in turbot doi.org/10.1093/giga...
Multiomics uncovers the epigenomic and transcriptomic response to viral and bacterial stimulation in turbot
AbstractBackground. Uncovering the epigenomic regulation of immune response is essential for a comprehensive understanding of host defense mechanisms, thou
doi.org
August 21, 2025 at 3:27 PM
New work providing an improved understanding of the epigenomic basis of turbot immune response to mimics of viral and bacterial stimuli
Multiomics uncovers the epigenomic and transcriptomic response to viral and bacterial stimulation in turbot doi.org/10.1093/giga...
Multiomics uncovers the epigenomic and transcriptomic response to viral and bacterial stimulation in turbot doi.org/10.1093/giga...
Reposted by GigaScience Journal
🎉 Another exciting contribution from our lab this summer!
🧬 Nearly complete, gapless genome of the sex-changing central bearded dragon (Pogona vitticeps) shed new light on the mystery of reptile sex determination.
Proud to be part of this collaborative effort!
academic.oup.com/gigascience/...
🧬 Nearly complete, gapless genome of the sex-changing central bearded dragon (Pogona vitticeps) shed new light on the mystery of reptile sex determination.
Proud to be part of this collaborative effort!
academic.oup.com/gigascience/...
A near telomere-to-telomere phased genome assembly and annotation for the Australian central bearded dragon Pogona vitticeps
AbstractBackground. The central bearded dragon (Pogona vitticeps) is widely distributed in central eastern Australia and adapts readily to captivity. Among
academic.oup.com
August 19, 2025 at 11:21 PM
🎉 Another exciting contribution from our lab this summer!
🧬 Nearly complete, gapless genome of the sex-changing central bearded dragon (Pogona vitticeps) shed new light on the mystery of reptile sex determination.
Proud to be part of this collaborative effort!
academic.oup.com/gigascience/...
🧬 Nearly complete, gapless genome of the sex-changing central bearded dragon (Pogona vitticeps) shed new light on the mystery of reptile sex determination.
Proud to be part of this collaborative effort!
academic.oup.com/gigascience/...
Double Dragon Genomes Helping Explain Sex Determination of Reptiles. Two almost complete and gapless genomes of the sex-changing central bearded dragon (Pogona vitticeps) have just been published back-to-back in GigaScience gigasciencejournal.com/blog/double-...
August 19, 2025 at 12:19 PM
Double Dragon Genomes Helping Explain Sex Determination of Reptiles. Two almost complete and gapless genomes of the sex-changing central bearded dragon (Pogona vitticeps) have just been published back-to-back in GigaScience gigasciencejournal.com/blog/double-...
New tool extending upon the popular Seurat framework to harness the full potential of scRNA-seq data, making complex analyses accessible to a wider audience.
SeuratExtend: streamlining single-cell RNA-seq analysis through an integrated and intuitive framework doi.org/10.1093/giga...
SeuratExtend: streamlining single-cell RNA-seq analysis through an integrated and intuitive framework doi.org/10.1093/giga...
SeuratExtend: streamlining single-cell RNA-seq analysis through an integrated and intuitive framework
Abstract. Single-cell RNA sequencing (scRNA-seq) has revolutionized the study of cellular heterogeneity, but the rapid expansion of analytical tools has pr
doi.org
August 15, 2025 at 5:03 AM
New tool extending upon the popular Seurat framework to harness the full potential of scRNA-seq data, making complex analyses accessible to a wider audience.
SeuratExtend: streamlining single-cell RNA-seq analysis through an integrated and intuitive framework doi.org/10.1093/giga...
SeuratExtend: streamlining single-cell RNA-seq analysis through an integrated and intuitive framework doi.org/10.1093/giga...