RRIDs were included in this in GigaScience paper. Thanks for making your methods matter! #accelerateopenscience #reproducibility #OpenResearch
Epitope Generation Gateway (EGG): A biological context-dependent approach to cancer vaccine development
Read the full paper: Epitope Generation Gateway (EGG): A biological context-dependent approach to cancer vaccine development
doi.org
October 30, 2026 at 7:08 AM
RRIDs were included in this in GigaScience paper. Thanks for making your methods matter! #accelerateopenscience #reproducibility #OpenResearch
Genomic in vitro transcription and Nanopore direct RNA sequencing of a human B-Lymphocyte cell line
GigaScience · Tzadikario et al.
doi.org/10.1093/gigascience/giag098
#RNAsky #RNAmods
GigaScience · Tzadikario et al.
doi.org/10.1093/gigascience/giag098
#RNAsky #RNAmods
Genomic in vitro transcription and Nanopore direct RNA sequencing of a human B-Lymphocyte cell line
GigaScience · Tzadikario T, Akeson S, Dorer S, Esfahani NG, Stein AJ, Kakhaki PD, Choudhary U, Amar K, Jain M.
doi.org
October 28, 2026 at 12:11 AM
Genomic in vitro transcription and Nanopore direct RNA sequencing of a human B-Lymphocyte cell line
GigaScience · Tzadikario et al.
doi.org/10.1093/gigascience/giag098
#RNAsky #RNAmods
GigaScience · Tzadikario et al.
doi.org/10.1093/gigascience/giag098
#RNAsky #RNAmods
*
The 2021 paper by Oleksyk et al. he mentions is here:
https://academic.oup.com/gigascience/article/10/1/giaa159/6079618
The 2021 paper by Oleksyk et al. he mentions is here:
https://academic.oup.com/gigascience/article/10/1/giaa159/6079618
October 24, 2026 at 1:10 PM
*
The 2021 paper by Oleksyk et al. he mentions is here:
https://academic.oup.com/gigascience/article/10/1/giaa159/6079618
The 2021 paper by Oleksyk et al. he mentions is here:
https://academic.oup.com/gigascience/article/10/1/giaa159/6079618
RRIDs were included in this in GigaScience paper. We value the author's support of reproducibility. #RRID #reproducibility #OpenResearch
Programmatic access to ICTV virus taxonomy through a public ontology API
Read the full paper: Programmatic access to ICTV virus taxonomy through a public ontology API
doi.org
September 29, 2026 at 7:00 AM
RRIDs were included in this in GigaScience paper. We value the author's support of reproducibility. #RRID #reproducibility #OpenResearch
RRIDs were included in this in GigaScience paper. We value the author's support of reproducibility. #BetterScience #RRID #ReproducibleResearch
Concordance of genetic determinants of acute coronary artery disease between European and Chinese populations
Read the full paper: Concordance of genetic determinants of acute coronary artery disease between European and Chinese populations
doi.org
September 16, 2026 at 7:34 PM
RRIDs were included in this in GigaScience paper. We value the author's support of reproducibility. #BetterScience #RRID #ReproducibleResearch
Thankfully @gigabytejournal.bsky.social still maintains that open and FAIR peer review policy. So I hope that #openscience ethos at least continues there youtu.be/Ov_X5eYJhe4?...
Open Science Peer Review with GigaByte
YouTube video by GigaScience Press
youtu.be
September 16, 2026 at 9:51 AM
Thankfully @gigabytejournal.bsky.social still maintains that open and FAIR peer review policy. So I hope that #openscience ethos at least continues there youtu.be/Ov_X5eYJhe4?...
I still strongly believe in #openpeerreview, so its a shame that @gigascience.bsky.social have removed that policy without any announcement. We brought this in to reduce COIs (see doi.org/10.1186/2047...), which reduces trust when they now publish so many BGI papers with obfuscated reviewer names
Peering into peer-review at GigaScience
Abstract. Fostering and promoting more open and transparent science is one of the goals of GigaScience. One of the ways we have been doing this is by throw
doi.org
September 16, 2026 at 9:49 AM
I still strongly believe in #openpeerreview, so its a shame that @gigascience.bsky.social have removed that policy without any announcement. We brought this in to reduce COIs (see doi.org/10.1186/2047...), which reduces trust when they now publish so many BGI papers with obfuscated reviewer names
Our KG-Microbe paper is out in GigaScience—a milestone project introducing the first comprehensive, standardized knowledge graph for the microbiology of bacteria and archaea!
doi.org/10.1093/giga...
doi.org/10.1093/giga...
September 15, 2026 at 3:16 AM
Our KG-Microbe paper is out in GigaScience—a milestone project introducing the first comprehensive, standardized knowledge graph for the microbiology of bacteria and archaea!
doi.org/10.1093/giga...
doi.org/10.1093/giga...
#ERGAReads | MicroFinder: conserved gene-set mapping and assembly ordering for manual curation of bird dot microchromosomes 🐤🧩 academic.oup.com/gigascience/... #genomes #genomeassembly #curation #birds #bioinformatics
@tom-mathers.bsky.social @sangerinstitute.bsky.social
@tom-mathers.bsky.social @sangerinstitute.bsky.social
MicroFinder: conserved gene-set mapping and assembly ordering for manual curation of bird dot microchromosomes
AbstractBackground. Obtaining chromosomally complete genome assemblies across the tree of life is an important goal of biodiversity genomics. However, some
academic.oup.com
September 9, 2026 at 7:30 AM
#ERGAReads | MicroFinder: conserved gene-set mapping and assembly ordering for manual curation of bird dot microchromosomes 🐤🧩 academic.oup.com/gigascience/... #genomes #genomeassembly #curation #birds #bioinformatics
@tom-mathers.bsky.social @sangerinstitute.bsky.social
@tom-mathers.bsky.social @sangerinstitute.bsky.social
The authors included RRIDs in their in GigaScience paper! We value the author's support of reproducibility. #BetterScience #OpenResearch #STMpublishing
KG-Microbe - Building Modular and Scalable Knowledge Graphs for Microbiome and Microbial Sciences
Read the full paper: KG-Microbe - Building Modular and Scalable Knowledge Graphs for Microbiome and Microbial Sciences
doi.org
September 9, 2026 at 7:01 AM
The authors included RRIDs in their in GigaScience paper! We value the author's support of reproducibility. #BetterScience #OpenResearch #STMpublishing
"Jupyter notebooks associated with papers are using software versions beyond their support window[s]...This contributes to reproducibility issues...Similar issues arise with datasets"
A paper's a permanent scientific record. If dependencies aren't, it isn't. 1/2 academic.oup.com/gigascience/...
A paper's a permanent scientific record. If dependencies aren't, it isn't. 1/2 academic.oup.com/gigascience/...
Validate User
academic.oup.com
August 25, 2026 at 7:34 PM
"Jupyter notebooks associated with papers are using software versions beyond their support window[s]...This contributes to reproducibility issues...Similar issues arise with datasets"
A paper's a permanent scientific record. If dependencies aren't, it isn't. 1/2 academic.oup.com/gigascience/...
A paper's a permanent scientific record. If dependencies aren't, it isn't. 1/2 academic.oup.com/gigascience/...
RRIDs were included in this in GigaScience paper. RRIDs improve reproducibility in scientific research. #OpenScience #ReproducibleResearch #reproducibility
Extending protein language models to a viral genomic scale using biologically induced sparse attention
Read the full paper: Extending protein language models to a viral genomic scale using biologically induced sparse attention
doi.org
August 25, 2026 at 7:00 AM
RRIDs were included in this in GigaScience paper. RRIDs improve reproducibility in scientific research. #OpenScience #ReproducibleResearch #reproducibility
As part of the #B10K project, a gull-billed tern from Neufelderkoog is one of the birds of 350 species that has recently had its genome assembled. These genomes have now been released in Gigascience:
doi.org/10.1093/giga...
doi.org/10.1093/giga...
August 24, 2026 at 1:28 PM
As part of the #B10K project, a gull-billed tern from Neufelderkoog is one of the birds of 350 species that has recently had its genome assembled. These genomes have now been released in Gigascience:
doi.org/10.1093/giga...
doi.org/10.1093/giga...
The authors included RRIDs in their in GigaScience paper! RRIDs improve reproducibility in scientific research. #ReproducibleResearch #OpenResearch #OpenScience
xgt: a command-line interface for the Genome Taxonomy Database with cross-release taxonomic comparison
Read the full paper: xgt: a command-line interface for the Genome Taxonomy Database with cross-release taxonomic comparison
doi.org
August 21, 2026 at 7:01 AM
The authors included RRIDs in their in GigaScience paper! RRIDs improve reproducibility in scientific research. #ReproducibleResearch #OpenResearch #OpenScience
#ERGAReads | Chromosome-level echidna genome illuminates evolution of multiple sex chromosome system in monotremes: academic.oup.com/gigascience/...
#genomes #monotremes #evolution #sexchromosomes @gigascience.bsky.social @vertebrategenomes.bsky.social
#genomes #monotremes #evolution #sexchromosomes @gigascience.bsky.social @vertebrategenomes.bsky.social
Validate User
academic.oup.com
June 17, 2026 at 7:30 AM
#ERGAReads | Chromosome-level echidna genome illuminates evolution of multiple sex chromosome system in monotremes: academic.oup.com/gigascience/...
#genomes #monotremes #evolution #sexchromosomes @gigascience.bsky.social @vertebrategenomes.bsky.social
#genomes #monotremes #evolution #sexchromosomes @gigascience.bsky.social @vertebrategenomes.bsky.social
#ERGAReads | On the path to reference genomes for all biodiversity: laboratory protocols and lessons learned from processing over 2,000 species in the Sanger Tree of Life 🌳 🧬
academic.oup.com/gigascience/...
@sangerinstitute.bsky.social @gigascience.bsky.social
#genomes #biodiversitygenomics
academic.oup.com/gigascience/...
@sangerinstitute.bsky.social @gigascience.bsky.social
#genomes #biodiversitygenomics
Validate User
academic.oup.com
March 25, 2026 at 8:15 AM
#ERGAReads | On the path to reference genomes for all biodiversity: laboratory protocols and lessons learned from processing over 2,000 species in the Sanger Tree of Life 🌳 🧬
academic.oup.com/gigascience/...
@sangerinstitute.bsky.social @gigascience.bsky.social
#genomes #biodiversitygenomics
academic.oup.com/gigascience/...
@sangerinstitute.bsky.social @gigascience.bsky.social
#genomes #biodiversitygenomics
#ERGAReads | On the path to reference genomes for all biodiversity: laboratory protocols & lessons learned from processing over 2,000 species in the Sanger Tree of Life
🔗 academic.oup.com/gigascience/... @sangerinstitute.bsky.social @ebpgenome.bsky.social
🔗 academic.oup.com/gigascience/... @sangerinstitute.bsky.social @ebpgenome.bsky.social
On the path to reference genomes for all biodiversity: laboratory protocols and lessons learned from processing over 2,000 species in the Sanger Tree of Life
Abstract. Since its inception in 2019, the Tree of Life programme at the Wellcome Sanger Institute has released high-quality, chromosomally resolved refere
academic.oup.com
January 21, 2026 at 8:15 AM
#ERGAReads | On the path to reference genomes for all biodiversity: laboratory protocols & lessons learned from processing over 2,000 species in the Sanger Tree of Life
🔗 academic.oup.com/gigascience/... @sangerinstitute.bsky.social @ebpgenome.bsky.social
🔗 academic.oup.com/gigascience/... @sangerinstitute.bsky.social @ebpgenome.bsky.social
Programme TDR : appel à communications pour des data papers autour des vecteurs de maladies humaines
https://www.gbif.org/news/70AuWTs68FiGEZEyALB1TV/third-call-for-data-papers-describing-datasets-on-vectors-of-human-diseases
#datapaper
https://www.gbif.org/news/70AuWTs68FiGEZEyALB1TV/third-call-for-data-papers-describing-datasets-on-vectors-of-human-diseases
#datapaper
Third call for data papers describing datasets on vectors of human diseases
TDR, GigaScience Press and GBIF renew their partnership for a special journal issue focused on publishing new datasets that present biodiversity data for research on vectors of human diseases. **Deadline 4 April 2025**
www.gbif.org
January 17, 2025 at 11:08 AM
Programme TDR : appel à communications pour des data papers autour des vecteurs de maladies humaines
https://www.gbif.org/news/70AuWTs68FiGEZEyALB1TV/third-call-for-data-papers-describing-datasets-on-vectors-of-human-diseases
#datapaper
https://www.gbif.org/news/70AuWTs68FiGEZEyALB1TV/third-call-for-data-papers-describing-datasets-on-vectors-of-human-diseases
#datapaper
Bientôt toutes nos données sur le Web, et sans notre consentement : www.inrae.fr/actualites/i...
IA générative : une nouvelle étape franchie dans la simulation de données génétiques
Des chercheurs INRAE et partenaires publient dans la revue GigaScience une étude montrant que des modèles d’intelligence artificielle générative (IAg) peuvent reproduire fidèlement les structures de d...
www.inrae.fr
June 23, 2026 at 9:28 AM
Bientôt toutes nos données sur le Web, et sans notre consentement : www.inrae.fr/actualites/i...
We started building the Visual Physiology Opsin Database, bringing together opsins and measured visual pigment sensitivities, giving us training data for machine learning. Published with collaborators from GW who built deepBreaks, the engine that powers OPTICS
academic.oup.com/gigascience/...
academic.oup.com/gigascience/...
Discovering genotype–phenotype relationships with machine learning and the Visual Physiology Opsin Database (VPOD)
AbstractBackground. Predicting phenotypes from genetic variation is foundational for fields as diverse as bioengineering and global change biology, highlig
academic.oup.com
June 17, 2026 at 4:29 AM
We started building the Visual Physiology Opsin Database, bringing together opsins and measured visual pigment sensitivities, giving us training data for machine learning. Published with collaborators from GW who built deepBreaks, the engine that powers OPTICS
academic.oup.com/gigascience/...
academic.oup.com/gigascience/...
I am thrilled to announce publication of a new paper led by Seth Frazer, showing we can accurately predict opsin phenotypes from their gene sequences
academic.oup.com/gigascience/... 🧪
academic.oup.com/gigascience/... 🧪
academic.oup.com
October 28, 2024 at 3:32 PM
I am thrilled to announce publication of a new paper led by Seth Frazer, showing we can accurately predict opsin phenotypes from their gene sequences
academic.oup.com/gigascience/... 🧪
academic.oup.com/gigascience/... 🧪
We are submitting this to Gigascience, and we are working on a super easy online tool to predict lambda-max from an opsin sequence. Stay tuned for that before too long!
February 15, 2024 at 4:21 PM
We are submitting this to Gigascience, and we are working on a super easy online tool to predict lambda-max from an opsin sequence. Stay tuned for that before too long!
Cool! Though we recently published a microbial functional genomics browser with the same name: academic.oup.com/gigascience/...
Micromix: web infrastructure for visualizing and remixing microbial ‘omics data
Abstract. Micromix is a flexible web platform for sharing and integrating microbial omics data, including RNA sequencing and transposon-insertion sequencin
academic.oup.com
April 8, 2025 at 4:31 PM
Cool! Though we recently published a microbial functional genomics browser with the same name: academic.oup.com/gigascience/...
Interested in collecting, sharing, and interacting with large collections of bacterial functional genomics data (RNA-seq, Tn-seq/TraDIS, etc.)? Check out our new web platform, Micromix, with case studies for Salmonella and Bacteroides! 🧫🧬🖥️🧪 Thread 1/n
academic.oup.com/gigascience/...
academic.oup.com/gigascience/...
Micromix: web infrastructure for visualizing and remixing microbial ‘omics data
Abstract. Micromix is a flexible web platform for sharing and integrating microbial omics data, including RNA sequencing and transposon-insertion sequencin
academic.oup.com
February 4, 2025 at 8:22 PM
Interested in collecting, sharing, and interacting with large collections of bacterial functional genomics data (RNA-seq, Tn-seq/TraDIS, etc.)? Check out our new web platform, Micromix, with case studies for Salmonella and Bacteroides! 🧫🧬🖥️🧪 Thread 1/n
academic.oup.com/gigascience/...
academic.oup.com/gigascience/...
This might work... https://academic.oup.com/gigascience/article/8/6/giz077/5524261
November 16, 2024 at 3:51 PM
This might work... https://academic.oup.com/gigascience/article/8/6/giz077/5524261