Genome of Culex laticinctus

⬇️🏷️ Download all the metadata for Genome of Culex laticinctus in JSON-LD format

Genome of Culex laticinctus

@id ./
name [?] Genome of Culex laticinctus
@type Dataset
description [?] Genome of Culex laticinctus created by ERGA-BGE
datePublished [?] 2025-08-11T11:47:17+00:00
about [?] Culex laticinctus
hasPart [?]
identifier [?]
license [?] TODO license
mentions [?]
scientificName Culex laticinctus
taxonomicRange Culex laticinctus
Items that reference this one
about [?] ro-crate-metadata.json


Go to: Culex laticinctus



#sample-collection

@id #sample-collection
@type Collection
hasPart [?]
identifier [?] EBD_I-002382
Items that reference this one
hasPart [?] Genome of Culex laticinctus


#sequencing-collection

@id #sequencing-collection
@type Collection
hasPart [?]
Items that reference this one
hasPart [?] Genome of Culex laticinctus


⬇️ Download: Illumina NovaSeq X paired end sequencing: ERR13148263_1.fastq.gz

@id ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR131/063/ERR13148263/ERR13148263_1.fastq.gz
name [?] Illumina NovaSeq X paired end sequencing: ERR13148263_1.fastq.gz
@type File
description [?] example: PacBio sequencing of library ERGA_PI14589222, constructed from sample accession SAMEA114402090 for study accession PRJEB75413.
encodingFormat [?] TODO file type for FASTA
contentSize [?] 1784967592
sdDatePublished [?] 2025-08-11 12:47:18.243209
Items that reference this one
hasPart [?]
result [?] Genome sequencing process (ERX12519568)


⬇️ Download: Illumina NovaSeq X paired end sequencing: ERR13148263_2.fastq.gz

@id ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR131/063/ERR13148263/ERR13148263_2.fastq.gz
name [?] Illumina NovaSeq X paired end sequencing: ERR13148263_2.fastq.gz
@type File
description [?] example: PacBio sequencing of library ERGA_PI14589222, constructed from sample accession SAMEA114402090 for study accession PRJEB75413.
encodingFormat [?] TODO file type for FASTA
contentSize [?] 1785456385
sdDatePublished [?] 2025-08-11 12:47:18.243257
Items that reference this one
hasPart [?]
result [?] Genome sequencing process (ERX12519568)


⬇️ Download: Illumina NovaSeq X paired end sequencing: ERR13063103_1.fastq.gz

@id ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR130/003/ERR13063103/ERR13063103_1.fastq.gz
name [?] Illumina NovaSeq X paired end sequencing: ERR13063103_1.fastq.gz
@type File
description [?] example: PacBio sequencing of library ERGA_PI14589222, constructed from sample accession SAMEA114402090 for study accession PRJEB75413.
encodingFormat [?] TODO file type for FASTA
contentSize [?] 35205876558
sdDatePublished [?] 2025-08-11 12:47:18.309836
Items that reference this one
hasPart [?]
result [?] Genome sequencing process (ERX12433627)


⬇️ Download: Illumina NovaSeq X paired end sequencing: ERR13063103_2.fastq.gz

@id ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR130/003/ERR13063103/ERR13063103_2.fastq.gz
name [?] Illumina NovaSeq X paired end sequencing: ERR13063103_2.fastq.gz
@type File
description [?] example: PacBio sequencing of library ERGA_PI14589222, constructed from sample accession SAMEA114402090 for study accession PRJEB75413.
encodingFormat [?] TODO file type for FASTA
contentSize [?] 37216018924
sdDatePublished [?] 2025-08-11 12:47:18.309868
Items that reference this one
hasPart [?]
result [?] Genome sequencing process (ERX12433627)


⬇️ Download: Revio sequencing: ERR13033463.fastq.gz

@id ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR130/063/ERR13033463/ERR13033463.fastq.gz
name [?] Revio sequencing: ERR13033463.fastq.gz
@type File
description [?] example: PacBio sequencing of library ERGA_PI14589222, constructed from sample accession SAMEA114402090 for study accession PRJEB75413.
encodingFormat [?] TODO file type for FASTA
contentSize [?] 4777637893
sdDatePublished [?] 2025-08-11 12:47:18.401137
Items that reference this one
hasPart [?]
result [?] Genome sequencing process (ERX12405204)


⬇️ Download: Revio sequencing: ERR13033464.fastq.gz

@id ftp://ftp.sra.ebi.ac.uk/vol1/fastq/ERR130/064/ERR13033464/ERR13033464.fastq.gz
name [?] Revio sequencing: ERR13033464.fastq.gz
@type File
description [?] example: PacBio sequencing of library ERGA_PI14589222, constructed from sample accession SAMEA114402090 for study accession PRJEB75413.
encodingFormat [?] TODO file type for FASTA
contentSize [?] 6598837469
sdDatePublished [?] 2025-08-11 12:47:18.488266
Items that reference this one
hasPart [?]
result [?] Genome sequencing process (ERX12405205)


⬇️ Download: Assembly workflow (placeholder)

@id %23assembly-workflow-622e38e3-bdd1-42ab-9cdf-9950863e4802
name [?] Assembly workflow (placeholder)
@type
  • File
  • SoftwareSourceCode
  • ComputationalWorkflow
description [?] A placeholder for a workflow that could exist on WorkflowHub (etc) or be directly contained within the crate
programmingLanguage [?] Common Workflow Language
sdDatePublished [?] 2025-08-11 12:47:18.488491
Items that reference this one
hasPart [?] Genome of Culex laticinctus
mentions [?]
instrument [?]


#analysis-collection

@id #analysis-collection
@type Collection
hasPart [?]
Items that reference this one
hasPart [?] Genome of Culex laticinctus


⬇️ Download: Culex laticinctus genome assembly

@id ftp://ftp.ebi.ac.uk/pub/databases/ena/wgs/public/cax/CAXLNB01.fasta.gz
name [?] Culex laticinctus genome assembly
@type File
encodingFormat [?] TODO file type for FASTA
identifier [?] https://identifiers.org/ena.embl:CAXLNB01
sdDatePublished [?] 2025-08-11 12:47:18.893588
Items that reference this one
hasPart [?]


Go to: idCulLati1.1 assembly for Culex laticinctus

@id https://www.ebi.ac.uk/ena/browser/view/GCA_964187845.1/
name [?] idCulLati1.1 assembly for Culex laticinctus
@type Dataset
description [?] The assembly idCulLati1.1 is based on 51x PacBio data and Arima2 Hi-C data generated as part of the European Reference Genome Atlas (ERGA, https://www.erga-biodiversity.eu/) via the Biodiversity Genomics Europe project (BGE, https://biodiversitygenomics.eu/). The assembly process included the following sequence of steps: initial PacBio assembly generation with Hifiasm, and Hi-C based scaffolding with YaHS. The mitochondrial genome was assembled using MitoHiFi. A manually phased assembly (based on HiC signal) was generated from a jointly curated primary and alt assembly. Finally, the primary assembly was analysed and manually improved using TreeVal. Chromosome-scale scaffolds confirmed by the Hi-C data have been named in order of size.
hasPart [?] Culex laticinctus genome assembly
mentions [?]
sdDatePublished [?] 2025-08-11T11:47:19+00:00
Items that reference this one
hasPart [?]
result [?] Genome assembly process (GCA_964187845.1)


⬇️ Download: Culex laticinctus genome assembly

@id ftp://ftp.ebi.ac.uk/pub/databases/ena/wgs/public/cax/CAXLNG01.fasta.gz
name [?] Culex laticinctus genome assembly
@type File
encodingFormat [?] TODO file type for FASTA
identifier [?] https://identifiers.org/ena.embl:CAXLNG01
sdDatePublished [?] 2025-08-11 12:47:19.275457
Items that reference this one
hasPart [?]


Go to: idCulLati1.1 alternate haplotype assembly for Culex laticinctus

@id https://www.ebi.ac.uk/ena/browser/view/GCA_964187835.1/
name [?] idCulLati1.1 alternate haplotype assembly for Culex laticinctus
@type Dataset
description [?] The assembly idCulLati1.1 is based on 51x PacBio data and Arima2 Hi-C data generated as part of the European Reference Genome Atlas (ERGA, https://www.erga-biodiversity.eu/) via the Biodiversity Genomics Europe project (BGE, https://biodiversitygenomics.eu/). The assembly process included the following sequence of steps: initial PacBio assembly generation with Hifiasm, and Hi-C based scaffolding with YaHS. The mitochondrial genome was assembled using MitoHiFi. A manually phased assembly (based on HiC signal) was generated from a jointly curated primary and alt assembly. Finally, the primary assembly was analysed and manually improved using TreeVal.
hasPart [?] Culex laticinctus genome assembly
mentions [?]
sdDatePublished [?] 2025-08-11T11:47:19+00:00
Items that reference this one
hasPart [?]
result [?] Genome assembly process (GCA_964187835.1)


DNA/RNA extraction process (ERX12519568)

@id #wet-lab-process-32bf3b28-e978-4921-9c85-6533bb61846f
name [?] DNA/RNA extraction process (ERX12519568)
@type LabProcess
agent [?] TODO wet lab contributors
executesLabProtocol Sanger Tree of Life Wet Laboratory Protocol Collection V.1
instrument [?] Sanger Tree of Life Wet Laboratory Protocol Collection V.1
location [?] Cambridge, UK
object [?] Sample SAMEA114402094
provider [?] Wellcome Sanger Institute
result [?] Processed DNA/RNA (ERX12519568)
Items that reference this one
mentions [?]


Genome sequencing process (ERX12519568)

@id #sequencing-process-e7ae0f72-75af-4a25-9e05-765d281462e1
name [?] Genome sequencing process (ERX12519568)
@type LabProcess
agent [?] TODO wet lab contributors
executesLabProtocol Sequencing protocol
instrument [?] Sequencing protocol
location [?] Cambridge, UK
object [?] Processed DNA/RNA (ERX12519568)
provider [?] Wellcome Sanger Institute
result [?]
Items that reference this one
mentions [?]


DNA/RNA extraction process (ERX12433627)

@id #wet-lab-process-34268000-727b-4bcd-b8da-cf89458ddb78
name [?] DNA/RNA extraction process (ERX12433627)
@type LabProcess
agent [?] TODO wet lab contributors
executesLabProtocol Sanger Tree of Life Wet Laboratory Protocol Collection V.1
instrument [?] Sanger Tree of Life Wet Laboratory Protocol Collection V.1
location [?] Cambridge, UK
object [?] Sample SAMEA114402091
provider [?] Wellcome Sanger Institute
result [?] Processed DNA/RNA (ERX12433627)
Items that reference this one
mentions [?]


Genome sequencing process (ERX12433627)

@id #sequencing-process-d4c98415-6ae2-4f8b-98e6-95492d2a178b
name [?] Genome sequencing process (ERX12433627)
@type LabProcess
agent [?] TODO wet lab contributors
executesLabProtocol Sequencing protocol
instrument [?] Sequencing protocol
location [?] Cambridge, UK
object [?] Processed DNA/RNA (ERX12433627)
provider [?] Wellcome Sanger Institute
result [?]
Items that reference this one
mentions [?]


DNA/RNA extraction process (ERX12405204)

@id #wet-lab-process-5e639682-5fae-4fe5-8596-997e3b7da2fa
name [?] DNA/RNA extraction process (ERX12405204)
@type LabProcess
agent [?] TODO wet lab contributors
executesLabProtocol Sanger Tree of Life Wet Laboratory Protocol Collection V.1
instrument [?] Sanger Tree of Life Wet Laboratory Protocol Collection V.1
location [?] Cambridge, UK
object [?] Sample SAMEA114402090
provider [?] Wellcome Sanger Institute
result [?] Processed DNA/RNA (ERX12405204)
Items that reference this one
mentions [?]


Genome sequencing process (ERX12405204)

@id #sequencing-process-0cc1d8b3-0e0d-47eb-9e86-70488626d870
name [?] Genome sequencing process (ERX12405204)
@type LabProcess
agent [?] TODO wet lab contributors
executesLabProtocol Sequencing protocol
instrument [?] Sequencing protocol
location [?] Cambridge, UK
object [?] Processed DNA/RNA (ERX12405204)
provider [?] Wellcome Sanger Institute
result [?] Revio sequencing: ERR13033463.fastq.gz
Items that reference this one
mentions [?]


DNA/RNA extraction process (ERX12405205)

@id #wet-lab-process-9b4b1412-7111-4725-be92-90f7f6ee8d7a
name [?] DNA/RNA extraction process (ERX12405205)
@type LabProcess
agent [?] TODO wet lab contributors
executesLabProtocol Sanger Tree of Life Wet Laboratory Protocol Collection V.1
instrument [?] Sanger Tree of Life Wet Laboratory Protocol Collection V.1
location [?] Cambridge, UK
object [?] Sample SAMEA114402090
provider [?] Wellcome Sanger Institute
result [?] Processed DNA/RNA (ERX12405205)
Items that reference this one
mentions [?]


Genome sequencing process (ERX12405205)

@id #sequencing-process-c18bfde4-ec11-4936-8958-11e15ac780fe
name [?] Genome sequencing process (ERX12405205)
@type LabProcess
agent [?] TODO wet lab contributors
executesLabProtocol Sequencing protocol
instrument [?] Sequencing protocol
location [?] Cambridge, UK
object [?] Processed DNA/RNA (ERX12405205)
provider [?] Wellcome Sanger Institute
result [?] Revio sequencing: ERR13033464.fastq.gz
Items that reference this one
mentions [?]


Genome assembly process (GCA_964187845.1)

@id #assembly-process-d481ceb9-0e65-45d8-8e5d-bdc9c4a16b09
name [?] Genome assembly process (GCA_964187845.1)
@type CreateAction
agent [?] TODO assembly contributors
instrument [?] Assembly workflow (placeholder)
object [?]
result [?] idCulLati1.1 assembly for Culex laticinctus
Items that reference this one
mentions [?]


Genome assembly process (GCA_964187835.1)

@id #assembly-process-eb843f18-7a9c-47b6-bb0f-f65d306fe435
name [?] Genome assembly process (GCA_964187835.1)
@type CreateAction
agent [?] TODO assembly contributors
instrument [?] Assembly workflow (placeholder)
object [?]
result [?] idCulLati1.1 alternate haplotype assembly for Culex laticinctus
Items that reference this one
mentions [?]