Construction, De-Novo Assembly and Analysis of Transcriptome for Identification of Reproduction-Related Genes and Pathways from Rohu, Labeo rohita (Hamilton)
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{"title"=>"Construction, de-novo assembly and analysis of transcriptome for identification of reproduction-related genes and pathways from Rohu, Labeo rohita (Hamilton)", "type"=>"journal", "authors"=>[{"first_name"=>"Dinesh Kumar", "last_name"=>"Sahu", "scopus_author_id"=>"55668264600"}, {"first_name"=>"Soumya Prasad", "last_name"=>"Panda", "scopus_author_id"=>"55668139400"}, {"first_name"=>"Prem Kumar", "last_name"=>"Meher", "scopus_author_id"=>"35460578900"}, {"first_name"=>"Paramananda", "last_name"=>"Das", "scopus_author_id"=>"57028727400"}, {"first_name"=>"Padmanav", "last_name"=>"Routray", "scopus_author_id"=>"15021267600"}, {"first_name"=>"Jitendra Kumar", "last_name"=>"Sundaray", "scopus_author_id"=>"6507173236"}, {"first_name"=>"Pallipuram", "last_name"=>"Jayasankar", "scopus_author_id"=>"6507152982"}, {"first_name"=>"Samiran", "last_name"=>"Nandi", "scopus_author_id"=>"16835254800"}], "year"=>2015, "source"=>"PLoS ONE", "identifiers"=>{"pmid"=>"26148098", "sgr"=>"84940056634", "doi"=>"10.1371/journal.pone.0132450", "scopus"=>"2-s2.0-84940056634", "pui"=>"605749880", "isbn"=>"1932-6203 (Electronic)\\r1932-6203 (Linking)", "issn"=>"19326203"}, "id"=>"dbcbc9f0-61fc-353e-84bb-3c54fd7e21c3", "abstract"=>"Rohu is a leading candidate species for freshwater aquaculture in South-East Asia. Unlike common carp the monsoon breeding habit of rohu restricts its seed production beyond season indicating strong genetic control over spawning. Genetic information is limited in this regard. The problem is exacerbated by the lack of genomic-resources. We identified 182 reproduction-related genes previously by Sanger-sequencing which were less to address the issue of seasonal spawning behaviour of this important carp. Therefore, the present work was taken up to generate transcriptome profile by mRNAseq. 16GB, 72bp paired end (PE) data was generated from the pooled-RNA of twelve-tissues from pre-spawning rohu using IlluminaGA-II-platform. There were 64.97 million high-quality reads producing 62,283 contigs and 88,612 numbers of transcripts using velvet and oases programs, respectively. Gene ontology annotation identified 940 reproduction-related genes consisting of 184 mainly associated with reproduction, 223 related to hormone-activity and receptor-binding, 178 receptor-activity and 355 embryonic-development related-proteins. The important reproduction-relevant pathways found in KEGG analysis were GnRH-signaling, oocyte-meiosis, steroid-biosynthesis, steroid-hormone biosynthesis, progesterone-mediated oocyte-maturation, retinol-metabolism, neuroactive-ligand-receptor interaction, neurotrophin-signaling and photo-transduction. Twenty nine simple sequence repeat containing sequences were also found out of which 12 repeat loci were polymorphic with mean expected-&-observed heterozygosity of 0.471 and 0.983 respectively. Quantitative RT-PCR analyses of 13-known and 6-unknown transcripts revealed differences in expression level between preparatory and post-spawning phase. These transcriptomic sequences have significantly increased the genetic-&-genomic resources for reproduction-research in Labeo rohita.", "link"=>"http://www.mendeley.com/research/construction-denovo-assembly-analysis-transcriptome-identification-reproductionrelated-genes-pathway", "reader_count"=>18, "reader_count_by_academic_status"=>{"Unspecified"=>1, "Professor > Associate Professor"=>1, "Researcher"=>4, "Student > Doctoral Student"=>2, "Student > Ph. D. Student"=>6, "Student > Master"=>2, "Other"=>2}, "reader_count_by_user_role"=>{"Unspecified"=>1, "Professor > Associate Professor"=>1, "Researcher"=>4, "Student > Doctoral Student"=>2, "Student > Ph. D. Student"=>6, "Student > Master"=>2, "Other"=>2}, "reader_count_by_subject_area"=>{"Unspecified"=>3, "Environmental Science"=>1, "Biochemistry, Genetics and Molecular Biology"=>4, "Agricultural and Biological Sciences"=>9, "Medicine and Dentistry"=>1}, "reader_count_by_subdiscipline"=>{"Medicine and Dentistry"=>{"Medicine and Dentistry"=>1}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>9}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>4}, "Unspecified"=>{"Unspecified"=>3}, "Environmental Science"=>{"Environmental Science"=>1}}, "reader_count_by_country"=>{"Portugal"=>1, "India"=>2}, "group_count"=>0}

Scopus | Further Information

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/2164805"], "description"=>"<p>KEGG mappings for <i>Labeo rohita</i>.</p>", "links"=>[], "tags"=>["Gene Ontology annotation", "gb", "pe", "rohu", "transcript", "sequence", "kegg", "Labeo rohita"], "article_id"=>1475392, "categories"=>["Biological Sciences"], "users"=>["Dinesh Kumar Sahu", "Soumya Prasad Panda", "Prem Kumar Meher", "Paramananda Das", "Padmanav Routray", "Jitendra Kumar Sundaray", "Pallipuram Jayasankar", "Samiran Nandi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0132450.t004", "stats"=>{"downloads"=>5, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_KEGG_mappings_for_Labeo_rohita_/1475392", "title"=>"KEGG mappings for <i>Labeo rohita</i>.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2015-07-06 05:06:02"}
  • {"files"=>["https://ndownloader.figshare.com/files/2164806"], "description"=>"<p>Statistics of microsatellite search in <i>Labeo rohita</i>.</p>", "links"=>[], "tags"=>["Gene Ontology annotation", "gb", "pe", "rohu", "transcript", "sequence", "kegg", "Labeo rohita"], "article_id"=>1475393, "categories"=>["Biological Sciences"], "users"=>["Dinesh Kumar Sahu", "Soumya Prasad Panda", "Prem Kumar Meher", "Paramananda Das", "Padmanav Routray", "Jitendra Kumar Sundaray", "Pallipuram Jayasankar", "Samiran Nandi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0132450.t005", "stats"=>{"downloads"=>8, "page_views"=>3, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Statistics_of_microsatellite_search_in_Labeo_rohita_/1475393", "title"=>"Statistics of microsatellite search in <i>Labeo rohita</i>.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2015-07-06 05:06:02"}
  • {"files"=>["https://ndownloader.figshare.com/files/2164807"], "description"=>"<p>List of microsatellites containing reproduction-relevant transcripts identified in <i>Labeo Rohita</i>.</p>", "links"=>[], "tags"=>["Gene Ontology annotation", "gb", "pe", "rohu", "transcript", "sequence", "kegg", "Labeo rohita"], "article_id"=>1475394, "categories"=>["Biological Sciences"], "users"=>["Dinesh Kumar Sahu", "Soumya Prasad Panda", "Prem Kumar Meher", "Paramananda Das", "Padmanav Routray", "Jitendra Kumar Sundaray", "Pallipuram Jayasankar", "Samiran Nandi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0132450.t006", "stats"=>{"downloads"=>1, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_List_of_microsatellites_containing_reproduction_relevant_transcripts_identified_in_Labeo_Rohita_/1475394", "title"=>"List of microsatellites containing reproduction-relevant transcripts identified in <i>Labeo Rohita</i>.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2015-07-06 05:06:02"}
  • {"files"=>["https://ndownloader.figshare.com/files/2164809"], "description"=>"<p>***—Highly significant (p≤0.001)</p><p>** significant difference (p≤0.05)</p><p>* different (p≤0.1)</p><p><sup>NE</sup>- Not Estimated</p><p>Microsatellite Locus, repeat type motif and PCR product size, amplification temp, Number of alleles, observed heterozygosity (HO), expected Heterozygosity (HE) and polymorphic in content (PIC) of 12 rohu microsatellite loci.</p>", "links"=>[], "tags"=>["Gene Ontology annotation", "gb", "pe", "rohu", "transcript", "sequence", "kegg", "Labeo rohita"], "article_id"=>1475396, "categories"=>["Biological Sciences"], "users"=>["Dinesh Kumar Sahu", "Soumya Prasad Panda", "Prem Kumar Meher", "Paramananda Das", "Padmanav Routray", "Jitendra Kumar Sundaray", "Pallipuram Jayasankar", "Samiran Nandi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0132450.t007", "stats"=>{"downloads"=>1, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Microsatellite_Locus_repeat_type_motif_and_PCR_product_size_amplification_temp_Number_of_alleles_observed_heterozygosity_HO_expected_Heterozygosity_HE_and_polymorphic_in_content_PIC_of_12_rohu_microsatellite_loci_/1475396", "title"=>"Microsatellite Locus, repeat type motif and PCR product size, amplification temp, Number of alleles, observed heterozygosity (HO), expected Heterozygosity (HE) and polymorphic in content (PIC) of 12 rohu microsatellite loci.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2015-07-06 05:06:02"}
  • {"files"=>["https://ndownloader.figshare.com/files/2164811"], "description"=>"<p>Identification of SNPs from rohu contigs.</p>", "links"=>[], "tags"=>["Gene Ontology annotation", "gb", "pe", "rohu", "transcript", "sequence", "kegg", "Labeo rohita"], "article_id"=>1475398, "categories"=>["Biological Sciences"], "users"=>["Dinesh Kumar Sahu", "Soumya Prasad Panda", "Prem Kumar Meher", "Paramananda Das", "Padmanav Routray", "Jitendra Kumar Sundaray", "Pallipuram Jayasankar", "Samiran Nandi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0132450.t008", "stats"=>{"downloads"=>5, "page_views"=>10, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Identification_of_SNPs_from_rohu_contigs_/1475398", "title"=>"Identification of SNPs from rohu contigs.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2015-07-06 05:06:02"}
  • {"files"=>["https://ndownloader.figshare.com/files/2164829", "https://ndownloader.figshare.com/files/2164830", "https://ndownloader.figshare.com/files/2164831", "https://ndownloader.figshare.com/files/2164832", "https://ndownloader.figshare.com/files/2164833", "https://ndownloader.figshare.com/files/2164834", "https://ndownloader.figshare.com/files/2164835"], "description"=>"<div><p>Rohu is a leading candidate species for freshwater aquaculture in South-East Asia. Unlike common carp the monsoon breeding habit of rohu restricts its seed production beyond season indicating strong genetic control over spawning. Genetic information is limited in this regard. The problem is exacerbated by the lack of genomic-resources. We identified 182 reproduction-related genes previously by Sanger-sequencing which were less to address the issue of seasonal spawning behaviour of this important carp. Therefore, the present work was taken up to generate transcriptome profile by mRNAseq. 16GB, 72bp paired end (PE) data was generated from the pooled-RNA of twelve-tissues from <i>pre-spawning</i> rohu using IlluminaGA-II-platform. There were 64.97 million high-quality reads producing 62,283 contigs and 88,612 numbers of transcripts using velvet and oases programs, respectively. Gene ontology annotation identified 940 reproduction-related genes consisting of 184 mainly associated with reproduction, 223 related to hormone-activity and receptor-binding, 178 receptor-activity and 355 embryonic-development related-proteins. The important reproduction-relevant pathways found in KEGG analysis were GnRH-signaling, oocyte-meiosis, steroid-biosynthesis, steroid-hormone biosynthesis, progesterone-mediated oocyte-maturation, retinol-metabolism, neuroactive-ligand-receptor interaction, neurotrophin-signaling and photo-transduction. Twenty nine simple sequence repeat containing sequences were also found out of which 12 repeat loci were polymorphic with mean expected-&-observed heterozygosity of 0.471 and 0.983 respectively. Quantitative RT-PCR analyses of 13-known and 6-unknown transcripts revealed differences in expression level between <i>preparatory</i> and <i>post-spawning</i> phase. These transcriptomic sequences have significantly increased the genetic-&-genomic resources for reproduction-research in <i>Labeo rohita</i>.</p></div>", "links"=>[], "tags"=>["Gene Ontology annotation", "gb", "pe", "rohu", "transcript", "sequence", "kegg", "Labeo rohita"], "article_id"=>1475412, "categories"=>["Biological Sciences"], "users"=>["Dinesh Kumar Sahu", "Soumya Prasad Panda", "Prem Kumar Meher", "Paramananda Das", "Padmanav Routray", "Jitendra Kumar Sundaray", "Pallipuram Jayasankar", "Samiran Nandi"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0132450.s001", "https://dx.doi.org/10.1371/journal.pone.0132450.s002", "https://dx.doi.org/10.1371/journal.pone.0132450.s003", "https://dx.doi.org/10.1371/journal.pone.0132450.s004", "https://dx.doi.org/10.1371/journal.pone.0132450.s005", "https://dx.doi.org/10.1371/journal.pone.0132450.s006", "https://dx.doi.org/10.1371/journal.pone.0132450.s007"], "stats"=>{"downloads"=>9, "page_views"=>9, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/Construction_De_Novo_Assembly_and_Analysis_of_Transcriptome_for_Identification_of_Reproduction_Related_Genes_and_Pathways_from_Rohu_Labeo_rohita_Hamilton_/1475412", "title"=>"Construction, De-Novo Assembly and Analysis of Transcriptome for Identification of Reproduction-Related Genes and Pathways from Rohu, <i>Labeo rohita</i> (Hamilton)", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2015-07-06 05:06:02"}
  • {"files"=>["https://ndownloader.figshare.com/files/2164787"], "description"=>"<p>Comparison of number of contigs, N50 length, average contigs length, at different k-mer value.</p>", "links"=>[], "tags"=>["Gene Ontology annotation", "gb", "pe", "rohu", "transcript", "sequence", "kegg", "Labeo rohita"], "article_id"=>1475374, "categories"=>["Biological Sciences"], "users"=>["Dinesh Kumar Sahu", "Soumya Prasad Panda", "Prem Kumar Meher", "Paramananda Das", "Padmanav Routray", "Jitendra Kumar Sundaray", "Pallipuram Jayasankar", "Samiran Nandi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0132450.g001", "stats"=>{"downloads"=>1, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Comparison_of_number_of_contigs_N50_length_average_contigs_length_at_different_k_mer_value_/1475374", "title"=>"Comparison of number of contigs, N50 length, average contigs length, at different k-mer value.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-07-06 05:06:02"}
  • {"files"=>["https://ndownloader.figshare.com/files/2164789"], "description"=>"<p>GO-terms were processed by Blast2Go and categorized at level 2 under three main categories. Each of the three GO categories is presented including (left to right): biological process, molecular function and cellular component.</p>", "links"=>[], "tags"=>["Gene Ontology annotation", "gb", "pe", "rohu", "transcript", "sequence", "kegg", "Labeo rohita"], "article_id"=>1475376, "categories"=>["Biological Sciences"], "users"=>["Dinesh Kumar Sahu", "Soumya Prasad Panda", "Prem Kumar Meher", "Paramananda Das", "Padmanav Routray", "Jitendra Kumar Sundaray", "Pallipuram Jayasankar", "Samiran Nandi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0132450.g002", "stats"=>{"downloads"=>1, "page_views"=>14, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Percentages_of_annotated_Labeo_rohita_sequences_assigned_with_GO_terms_according_to_level_2_categories_/1475376", "title"=>"Percentages of annotated <i>Labeo rohita</i> sequences assigned with GO terms according to level 2 categories.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-07-06 05:06:02"}
  • {"files"=>["https://ndownloader.figshare.com/files/2164793"], "description"=>"<p>A total of 940 reproduction relevant genes were distributed among 184 reproduction related proteins (GO: 0000003), 223 related to hormone activity (GO: 0005179) and receptor binding related proteins (GO: 0005102), 178 receptor activity related proteins (GO: 0004872) and 355 embryonic development related proteins (GO: 0009792).</p>", "links"=>[], "tags"=>["Gene Ontology annotation", "gb", "pe", "rohu", "transcript", "sequence", "kegg", "Labeo rohita"], "article_id"=>1475380, "categories"=>["Biological Sciences"], "users"=>["Dinesh Kumar Sahu", "Soumya Prasad Panda", "Prem Kumar Meher", "Paramananda Das", "Padmanav Routray", "Jitendra Kumar Sundaray", "Pallipuram Jayasankar", "Samiran Nandi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0132450.g003", "stats"=>{"downloads"=>1, "page_views"=>6, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Distribution_of_reproduction_relevant_transcripts_identified_in_Labeo_rohita_/1475380", "title"=>"Distribution of reproduction-relevant transcripts identified in <i>Labeo rohita</i>.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-07-06 05:06:02"}
  • {"files"=>["https://ndownloader.figshare.com/files/2164795"], "description"=>"<p>rohu transcripts found distributed in all 25 chromosomes of zebrafish.</p>", "links"=>[], "tags"=>["Gene Ontology annotation", "gb", "pe", "rohu", "transcript", "sequence", "kegg", "Labeo rohita"], "article_id"=>1475382, "categories"=>["Biological Sciences"], "users"=>["Dinesh Kumar Sahu", "Soumya Prasad Panda", "Prem Kumar Meher", "Paramananda Das", "Padmanav Routray", "Jitendra Kumar Sundaray", "Pallipuram Jayasankar", "Samiran Nandi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0132450.g004", "stats"=>{"downloads"=>1, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Distribution_of_rohu_transcripts_and_exons_on_zebra_fish_chromosome_/1475382", "title"=>"Distribution of rohu transcripts and exons on zebra fish chromosome.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-07-06 05:06:02"}
  • {"files"=>["https://ndownloader.figshare.com/files/2164798"], "description"=>"<p>GnRH Pathway in rohu: 66 transcripts coding for 40 genes were mapped in rohu, out of 121 genes of GnRH pathway (KEGG databases).</p>", "links"=>[], "tags"=>["Gene Ontology annotation", "gb", "pe", "rohu", "transcript", "sequence", "kegg", "Labeo rohita"], "article_id"=>1475385, "categories"=>["Biological Sciences"], "users"=>["Dinesh Kumar Sahu", "Soumya Prasad Panda", "Prem Kumar Meher", "Paramananda Das", "Padmanav Routray", "Jitendra Kumar Sundaray", "Pallipuram Jayasankar", "Samiran Nandi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0132450.g005", "stats"=>{"downloads"=>1, "page_views"=>9, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_GnRH_Pathway_in_rohu_66_transcripts_coding_for_40_genes_were_mapped_in_rohu_out_of_121_genes_of_GnRH_pathway_KEGG_databases_/1475385", "title"=>"GnRH Pathway in rohu: 66 transcripts coding for 40 genes were mapped in rohu, out of 121 genes of GnRH pathway (KEGG databases).", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-07-06 05:06:02"}
  • {"files"=>["https://ndownloader.figshare.com/files/2164799"], "description"=>"<p>Comparison of relative expression ratio of 13 known transcripts in different tissues between <i>post-spawning</i> and <i>preparatory</i> phase using beta actin as reference (whisker-box plots), where the 13 transcripts are, 1 = Estrogen receptor binding site associated antigen 9 variant 1, 2 = Vitellogenin receptor, 3 = Insulin receptor b, 4 = Fibrinogen gamma chain, 5 = Green sensitive cone opsin, 6 = Steroid receptor homolog svp 46, 7 = Spermatogenic glyceraldehyde-3-phosphate dehydrogenase, 8 = Semaphorin 3fa, 9 = Follistatin-like 2, 10 = Cathepsin-Z, 11 = 11-beta-hydroxysteroid dehydrogenase, 12 = Prolactin and 13 = Activin receptor.</p>", "links"=>[], "tags"=>["Gene Ontology annotation", "gb", "pe", "rohu", "transcript", "sequence", "kegg", "Labeo rohita"], "article_id"=>1475386, "categories"=>["Biological Sciences"], "users"=>["Dinesh Kumar Sahu", "Soumya Prasad Panda", "Prem Kumar Meher", "Paramananda Das", "Padmanav Routray", "Jitendra Kumar Sundaray", "Pallipuram Jayasankar", "Samiran Nandi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0132450.g006", "stats"=>{"downloads"=>1, "page_views"=>5, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_A_B_C_D_E_/1475386", "title"=>"A,B,C,D,E.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-07-06 05:06:02"}
  • {"files"=>["https://ndownloader.figshare.com/files/2164801"], "description"=>"<p>Comparison of relative expression ratio of 6 un-known transcripts in different tissues between <i>post-spawning</i> and <i>preparatory</i> phase using beta actin as reference (whisker-box plots), where 6 un-known transcripts are, 1 = Node 19676, 2 = Node 20067, 3 = Node 20271, 4 = Node 6976, 5 = Node 7314 and 6 = Node 19294.</p>", "links"=>[], "tags"=>["Gene Ontology annotation", "gb", "pe", "rohu", "transcript", "sequence", "kegg", "Labeo rohita"], "article_id"=>1475388, "categories"=>["Biological Sciences"], "users"=>["Dinesh Kumar Sahu", "Soumya Prasad Panda", "Prem Kumar Meher", "Paramananda Das", "Padmanav Routray", "Jitendra Kumar Sundaray", "Pallipuram Jayasankar", "Samiran Nandi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0132450.g007", "stats"=>{"downloads"=>1, "page_views"=>3, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_A_B_C_D_E_/1475388", "title"=>"A,B,C,D,E.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-07-06 05:06:02"}
  • {"files"=>["https://ndownloader.figshare.com/files/2164802"], "description"=>"<p><sup>1</sup>* >70% of bases in a read with >20 phred score</p><p>QC report for fastQ files.</p>", "links"=>[], "tags"=>["Gene Ontology annotation", "gb", "pe", "rohu", "transcript", "sequence", "kegg", "Labeo rohita"], "article_id"=>1475389, "categories"=>["Biological Sciences"], "users"=>["Dinesh Kumar Sahu", "Soumya Prasad Panda", "Prem Kumar Meher", "Paramananda Das", "Padmanav Routray", "Jitendra Kumar Sundaray", "Pallipuram Jayasankar", "Samiran Nandi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0132450.t001", "stats"=>{"downloads"=>1, "page_views"=>5, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_QC_report_for_fastQ_files_/1475389", "title"=>"QC report for fastQ files.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2015-07-06 05:06:02"}
  • {"files"=>["https://ndownloader.figshare.com/files/2164803"], "description"=>"<p>Statistics of transcriptome assembly.</p>", "links"=>[], "tags"=>["Gene Ontology annotation", "gb", "pe", "rohu", "transcript", "sequence", "kegg", "Labeo rohita"], "article_id"=>1475390, "categories"=>["Biological Sciences"], "users"=>["Dinesh Kumar Sahu", "Soumya Prasad Panda", "Prem Kumar Meher", "Paramananda Das", "Padmanav Routray", "Jitendra Kumar Sundaray", "Pallipuram Jayasankar", "Samiran Nandi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0132450.t002", "stats"=>{"downloads"=>1, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Statistics_of_transcriptome_assembly_/1475390", "title"=>"Statistics of transcriptome assembly.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2015-07-06 05:06:02"}
  • {"files"=>["https://ndownloader.figshare.com/files/2164804"], "description"=>"<p>Those contigs with more than 70% identity and 50% query coverage (mRNA) as cut offs was taken for analysis;</p>", "links"=>[], "tags"=>["Gene Ontology annotation", "gb", "pe", "rohu", "transcript", "sequence", "kegg", "Labeo rohita"], "article_id"=>1475391, "categories"=>["Biological Sciences"], "users"=>["Dinesh Kumar Sahu", "Soumya Prasad Panda", "Prem Kumar Meher", "Paramananda Das", "Padmanav Routray", "Jitendra Kumar Sundaray", "Pallipuram Jayasankar", "Samiran Nandi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0132450.t003", "stats"=>{"downloads"=>4, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_The_oases_contigs_transcripts_blasted_against_the_Salmon_Zebrafish_and_Catfish_mRNA_sequences_from_NCBI_/1475391", "title"=>"The oases contigs/transcripts blasted against the Salmon, Zebrafish, and Catfish mRNA sequences (from NCBI).", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2015-07-06 05:06:02"}

PMC Usage Stats | Further Information

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  • {"unique-ip"=>"12", "full-text"=>"16", "pdf"=>"1", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"2", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"2"}
  • {"unique-ip"=>"15", "full-text"=>"14", "pdf"=>"5", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"3"}
  • {"unique-ip"=>"14", "full-text"=>"13", "pdf"=>"2", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"4"}
  • {"unique-ip"=>"16", "full-text"=>"19", "pdf"=>"1", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"5"}

Relative Metric

{"start_date"=>"2015-01-01T00:00:00Z", "end_date"=>"2015-12-31T00:00:00Z", "subject_areas"=>[]}
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