المؤلفون: Raquel Linheiro (11747717), John Archer (235004)

مصطلحات موضوعية: Genetics, Molecular Biology, Ecology, Inorganic Chemistry, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, related side study, div >< p, differentially expression genes, de bruijn based, cdna transcripts represented, ambiguous paths exist, mapped read counts, serinus canaria <, rattus norvegicus <, panthera pardus <, de novo <, underlying graph structure, similar classification systems, representing two adult, drosophila melanogaster <, within reference sets, assembling read data, sequence information stored, chimeric contigs based, assembled using cstone, melanogaster <, read data, underlying graphs, sequence identity

Relation: https://figshare.com/articles/journal_contribution/Virus_reference_genomes_from_NCBI_that_matched_with_contigs_representing_whole-adult_1_using_megablast_/17071718

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009631.s006

المؤلفون: Raquel Linheiro (11747717), John Archer (235004)

مصطلحات موضوعية: Genetics, Molecular Biology, Ecology, Inorganic Chemistry, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, related side study, div >< p, differentially expression genes, de bruijn based, cdna transcripts represented, ambiguous paths exist, mapped read counts, serinus canaria <, rattus norvegicus <, panthera pardus <, de novo <, underlying graph structure, similar classification systems, representing two adult, drosophila melanogaster <, within reference sets, assembling read data, sequence information stored, chimeric contigs based, assembled using cstone, melanogaster <, read data, underlying graphs, sequence identity

Relation: https://figshare.com/articles/journal_contribution/Demonstrating_the_effects_of_chimerism_on_differential_expression_analysis_/17071721

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009631.s007

المؤلفون: Raquel Linheiro (11747717), John Archer (235004)

مصطلحات موضوعية: Genetics, Molecular Biology, Ecology, Inorganic Chemistry, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, related side study, div >< p, differentially expression genes, de bruijn based, cdna transcripts represented, ambiguous paths exist, mapped read counts, serinus canaria <, rattus norvegicus <, panthera pardus <, de novo <, underlying graph structure, similar classification systems, representing two adult, drosophila melanogaster <, within reference sets, assembling read data, sequence information stored, chimeric contigs based, assembled using cstone, melanogaster <, read data, underlying graphs, sequence identity

Relation: https://figshare.com/articles/figure/Mapping_reads_back_to_the_cDNA_transcripts_from_which_they_were_simulated_/17071709

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009631.s003

المؤلفون: Raquel Linheiro (11747717), John Archer (235004)

مصطلحات موضوعية: Genetics, Molecular Biology, Ecology, Inorganic Chemistry, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, related side study, div >< p, differentially expression genes, de bruijn based, cdna transcripts represented, ambiguous paths exist, mapped read counts, serinus canaria <, rattus norvegicus <, panthera pardus <, de novo <, underlying graph structure, similar classification systems, representing two adult, drosophila melanogaster <, within reference sets, assembling read data, sequence information stored, chimeric contigs based, assembled using cstone, melanogaster <, read data, underlying graphs, sequence identity

Relation: https://figshare.com/articles/figure/An_illustrative_example_of_a_single_graph_of_many_identified_following_edge_connection_/17071724

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009631.g001

المؤلفون: Raquel Linheiro (11747717), John Archer (235004)

مصطلحات موضوعية: Genetics, Molecular Biology, Ecology, Inorganic Chemistry, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, related side study, div >< p, differentially expression genes, de bruijn based, cdna transcripts represented, ambiguous paths exist, mapped read counts, serinus canaria <, rattus norvegicus <, panthera pardus <, de novo <, underlying graph structure, similar classification systems, representing two adult, drosophila melanogaster <, within reference sets, assembling read data, sequence information stored, chimeric contigs based, assembled using cstone, melanogaster <, read data, underlying graphs, sequence identity

Relation: https://figshare.com/articles/figure/Unique_kmer_counts_y-axis_of_specified_length_x-axis_extracted_from_simulated_reads_/17071703

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009631.s001

المؤلفون: Raquel Linheiro (11747717), John Archer (235004)

مصطلحات موضوعية: Genetics, Molecular Biology, Ecology, Inorganic Chemistry, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, related side study, div >< p, differentially expression genes, de bruijn based, cdna transcripts represented, ambiguous paths exist, mapped read counts, serinus canaria <, rattus norvegicus <, panthera pardus <, de novo <, underlying graph structure, similar classification systems, representing two adult, drosophila melanogaster <, within reference sets, assembling read data, sequence information stored, chimeric contigs based, assembled using cstone, melanogaster <, read data, underlying graphs, sequence identity

Relation: https://figshare.com/articles/figure/Graph_sizes_within_CStone_/17071706

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009631.s002

المؤلفون: Raquel Linheiro (11747717), John Archer (235004)

مصطلحات موضوعية: Genetics, Molecular Biology, Ecology, Inorganic Chemistry, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, related side study, div >< p, differentially expression genes, de bruijn based, cdna transcripts represented, ambiguous paths exist, mapped read counts, serinus canaria <, rattus norvegicus <, panthera pardus <, de novo <, underlying graph structure, similar classification systems, representing two adult, drosophila melanogaster <, within reference sets, assembling read data, sequence information stored, chimeric contigs based, assembled using cstone, melanogaster <, read data, underlying graphs, sequence identity

Relation: https://figshare.com/articles/figure/Percent_sequence_identity_within_regions_aligned_between_contigs_and_cDNA_reference_transcripts_/17071712

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009631.s004

المؤلفون: Raquel Linheiro (11747717), John Archer (235004)

مصطلحات موضوعية: Genetics, Molecular Biology, Ecology, Inorganic Chemistry, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, related side study, div >< p, differentially expression genes, de bruijn based, cdna transcripts represented, ambiguous paths exist, mapped read counts, serinus canaria <, rattus norvegicus <, panthera pardus <, de novo <, underlying graph structure, similar classification systems, representing two adult, drosophila melanogaster <, within reference sets, assembling read data, sequence information stored, chimeric contigs based, assembled using cstone, melanogaster <, read data, underlying graphs, sequence identity

Relation: https://figshare.com/articles/figure/Three_levels_of_graph_classification_implemented_within_CStone_/17071736

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009631.g003

المؤلفون: Raquel Linheiro (11747717), John Archer (235004)

مصطلحات موضوعية: Genetics, Molecular Biology, Ecology, Inorganic Chemistry, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, related side study, div >< p, differentially expression genes, de bruijn based, cdna transcripts represented, ambiguous paths exist, mapped read counts, serinus canaria <, rattus norvegicus <, panthera pardus <, de novo <, underlying graph structure, similar classification systems, representing two adult, drosophila melanogaster <, within reference sets, assembling read data, sequence information stored, chimeric contigs based, assembled using cstone, melanogaster <, read data, underlying graphs, sequence identity

Relation: https://figshare.com/articles/figure/Identification_of_the_cornerstone_node_and_population_of_sets_E1_and_E2_/17071730

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009631.g002

المؤلفون: Raquel Linheiro (11747717), John Archer (235004)

مصطلحات موضوعية: Genetics, Molecular Biology, Ecology, Inorganic Chemistry, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, related side study, div >< p, differentially expression genes, de bruijn based, cdna transcripts represented, ambiguous paths exist, mapped read counts, serinus canaria <, rattus norvegicus <, panthera pardus <, de novo <, underlying graph structure, similar classification systems, representing two adult, drosophila melanogaster <, within reference sets, assembling read data, sequence information stored, chimeric contigs based, assembled using cstone, melanogaster <, read data, underlying graphs, sequence identity

Relation: https://figshare.com/articles/figure/Lengths_of_contigs_versus_the_number_of_reads_mapping_to_them_/17071751

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009631.g005

المؤلفون: Raquel Linheiro (11747717), John Archer (235004)

مصطلحات موضوعية: Genetics, Molecular Biology, Ecology, Inorganic Chemistry, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, related side study, div >< p, differentially expression genes, de bruijn based, cdna transcripts represented, ambiguous paths exist, mapped read counts, serinus canaria <, rattus norvegicus <, panthera pardus <, de novo <, underlying graph structure, similar classification systems, representing two adult, drosophila melanogaster <, within reference sets, assembling read data, sequence information stored, chimeric contigs based, assembled using cstone, melanogaster <, read data, underlying graphs, sequence identity

Relation: https://figshare.com/articles/figure/Overall_length_of_contigs_and_the_cDNA_reference_transcripts_from_which_the_reads_were_simulated_/17071745

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009631.g004

المؤلفون: Raquel Linheiro (11747717), John Archer (235004)

مصطلحات موضوعية: Genetics, Molecular Biology, Ecology, Inorganic Chemistry, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, related side study, div >< p, differentially expression genes, de bruijn based, cdna transcripts represented, ambiguous paths exist, mapped read counts, serinus canaria <, rattus norvegicus <, panthera pardus <, de novo <, underlying graph structure, similar classification systems, representing two adult, drosophila melanogaster <, within reference sets, assembling read data, sequence information stored, chimeric contigs based, assembled using cstone, melanogaster <, read data, underlying graphs, sequence identity

Relation: https://figshare.com/articles/figure/CStone_graph_categories_/17071757

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009631.g006

المؤلفون: Raquel Linheiro (11747717), John Archer (235004)

مصطلحات موضوعية: Genetics, Molecular Biology, Ecology, Inorganic Chemistry, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, related side study, div >< p, differentially expression genes, de bruijn based, cdna transcripts represented, ambiguous paths exist, mapped read counts, serinus canaria <, rattus norvegicus <, panthera pardus <, de novo <, underlying graph structure, similar classification systems, representing two adult, drosophila melanogaster <, within reference sets, assembling read data, sequence information stored, chimeric contigs based, assembled using cstone, melanogaster <, read data, underlying graphs, sequence identity

Relation: https://figshare.com/articles/figure/Length_of_contigs_versus_length_of_reference_transcript_/17071763

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009631.g007

المؤلفون: Raquel Linheiro (11747717), John Archer (235004)

مصطلحات موضوعية: Genetics, Molecular Biology, Ecology, Inorganic Chemistry, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, related side study, div >< p, differentially expression genes, de bruijn based, cdna transcripts represented, ambiguous paths exist, mapped read counts, serinus canaria <, rattus norvegicus <, panthera pardus <, de novo <, underlying graph structure, similar classification systems, representing two adult, drosophila melanogaster <, within reference sets, assembling read data, sequence information stored, chimeric contigs based, assembled using cstone, melanogaster <, read data, underlying graphs, sequence identity

Relation: https://figshare.com/articles/figure/Length_of_aligned_region_versus_length_of_contig_/17071769

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009631.g008

المؤلفون: Raquel Linheiro (11747717), John Archer (235004)

مصطلحات موضوعية: Genetics, Molecular Biology, Ecology, Inorganic Chemistry, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, related side study, div >< p, differentially expression genes, de bruijn based, cdna transcripts represented, ambiguous paths exist, mapped read counts, serinus canaria <, rattus norvegicus <, panthera pardus <, de novo <, underlying graph structure, similar classification systems, representing two adult, drosophila melanogaster <, within reference sets, assembling read data, sequence information stored, chimeric contigs based, assembled using cstone, melanogaster <, read data, underlying graphs, sequence identity

Relation: https://figshare.com/articles/figure/Agreeability_between_assemblers_/17071775

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009631.g009

المؤلفون: Raquel Linheiro (11747717), John Archer (235004)

مصطلحات موضوعية: Genetics, Molecular Biology, Ecology, Inorganic Chemistry, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, related side study, div >< p, differentially expression genes, de bruijn based, cdna transcripts represented, ambiguous paths exist, mapped read counts, serinus canaria <, rattus norvegicus <, panthera pardus <, de novo <, underlying graph structure, similar classification systems, representing two adult, drosophila melanogaster <, within reference sets, assembling read data, sequence information stored, chimeric contigs based, assembled using cstone, melanogaster <, read data, underlying graphs, sequence identity

Relation: https://figshare.com/articles/figure/Overall_length_of_contigs_produced_on_real_data_/17071781

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009631.g010

المؤلفون: Raquel Linheiro (11747717), John Archer (235004)

مصطلحات موضوعية: Genetics, Molecular Biology, Ecology, Inorganic Chemistry, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, related side study, div >< p, differentially expression genes, de bruijn based, cdna transcripts represented, ambiguous paths exist, mapped read counts, serinus canaria <, rattus norvegicus <, panthera pardus <, de novo <, underlying graph structure, similar classification systems, representing two adult, drosophila melanogaster <, within reference sets, assembling read data, sequence information stored, chimeric contigs based, assembled using cstone, melanogaster <, read data, underlying graphs, sequence identity

Relation: https://figshare.com/articles/figure/Detection_of_differentially_expressed_genes_in_the_presence_of_chimerism_/17071805

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009631.g014

المؤلفون: Raquel Linheiro (11747717), John Archer (235004)

مصطلحات موضوعية: Genetics, Molecular Biology, Ecology, Inorganic Chemistry, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, related side study, div >< p, differentially expression genes, de bruijn based, cdna transcripts represented, ambiguous paths exist, mapped read counts, serinus canaria <, rattus norvegicus <, panthera pardus <, de novo <, underlying graph structure, similar classification systems, representing two adult, drosophila melanogaster <, within reference sets, assembling read data, sequence information stored, chimeric contigs based, assembled using cstone, melanogaster <, read data, underlying graphs, sequence identity

Relation: https://figshare.com/articles/figure/Proportions_of_each_contig_aligned_/17071793

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009631.g012

المؤلفون: Raquel Linheiro (11747717), John Archer (235004)

مصطلحات موضوعية: Genetics, Molecular Biology, Ecology, Inorganic Chemistry, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, related side study, div >< p, differentially expression genes, de bruijn based, cdna transcripts represented, ambiguous paths exist, mapped read counts, serinus canaria <, rattus norvegicus <, panthera pardus <, de novo <, underlying graph structure, similar classification systems, representing two adult, drosophila melanogaster <, within reference sets, assembling read data, sequence information stored, chimeric contigs based, assembled using cstone, melanogaster <, read data, underlying graphs, sequence identity

Relation: https://figshare.com/articles/dataset/Summary_of_the_lengths_of_assembled_contigs_relative_to_the_cDNA_reference_transcripts_based_on_real_data_/17071832

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009631.t005

المؤلفون: Raquel Linheiro (11747717), John Archer (235004)

مصطلحات موضوعية: Genetics, Molecular Biology, Ecology, Inorganic Chemistry, Environmental Sciences not elsewhere classified, Biological Sciences not elsewhere classified, related side study, div >< p, differentially expression genes, de bruijn based, cdna transcripts represented, ambiguous paths exist, mapped read counts, serinus canaria <, rattus norvegicus <, panthera pardus <, de novo <, underlying graph structure, similar classification systems, representing two adult, drosophila melanogaster <, within reference sets, assembling read data, sequence information stored, chimeric contigs based, assembled using cstone, melanogaster <, read data, underlying graphs, sequence identity

Relation: https://figshare.com/articles/dataset/Summary_of_simulated_datasets_/17071811

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009631.t001