Exon Array Analysis of Head and Neck Cancers Identifies a Hypoxia Related Splice Variant of LAMA3 Associated with a Poor Prognosis
Publication Date
November 20, 2009
Journal
PLOS Computational Biology
Authors
Carla S. Moller Levet, Guy N. J. Betts, Adrian L. Harris, Jarrod J. Homer, et al
Volume
5
Issue
11
Pages
e1000571
DOI
https://dx.plos.org/10.1371/journal.pcbi.1000571
Publisher URL
http://journals.plos.org/ploscompbiol/article?id=10.1371%2Fjournal.pcbi.1000571
PubMed
http://www.ncbi.nlm.nih.gov/pubmed/19936049
PubMed Central
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2773424
Europe PMC
http://europepmc.org/abstract/MED/19936049
Web of Science
000274228500019
Scopus
73449118582
Mendeley
http://www.mendeley.com/research/exon-array-analysis-head-neck-cancers-identifies-hypoxia-related-splice-variant-lama3-associated-poo
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Mendeley | Further Information

{"title"=>"Exon array analysis of head and neck cancers identifies a hypoxia related splice variant of LAMA3 associated with a poor prognosis", "type"=>"journal", "authors"=>[{"first_name"=>"Carla S.", "last_name"=>"Moller-Levet", "scopus_author_id"=>"8970950200"}, {"first_name"=>"Guy N.J.", "last_name"=>"Betts", "scopus_author_id"=>"35326154600"}, {"first_name"=>"Adrian L.", "last_name"=>"Harris", "scopus_author_id"=>"35403292800"}, {"first_name"=>"Jarrod J.", "last_name"=>"Homer", "scopus_author_id"=>"7005885367"}, {"first_name"=>"Catharine M.L.", "last_name"=>"West", "scopus_author_id"=>"35480328200"}, {"first_name"=>"Crispin J.", "last_name"=>"Miller", "scopus_author_id"=>"8730203600"}], "year"=>2009, "source"=>"PLoS Computational Biology", "identifiers"=>{"pmid"=>"19936049", "doi"=>"10.1371/journal.pcbi.1000571", "sgr"=>"73449118582", "isbn"=>"1553-7358 (Electronic)\\r1553-734X (Linking)", "scopus"=>"2-s2.0-73449118582", "issn"=>"1553734X", "pui"=>"358053165"}, "id"=>"730d6b4f-09bb-32d8-a9d5-4931294e0c5b", "abstract"=>"The identification of alternatively spliced transcript variants specific to particular biological processes in tumours should increase our understanding of cancer. Hypoxia is an important factor in cancer biology, and associated splice variants may present new markers to help with planning treatment. A method was developed to analyse alternative splicing in exon array data, using probeset multiplicity to identify genes with changes in expression across their loci, and a combination of the splicing index and a new metric based on the variation of reliability weighted fold changes to detect changes in the splicing patterns. The approach was validated on a cancer/normal sample dataset in which alternative splicing events had been confirmed using RT-PCR. We then analysed ten head and neck squamous cell carcinomas using exon arrays and identified differentially expressed splice variants in five samples with high versus five with low levels of hypoxia-associated genes. The analysis identified a splice variant of LAMA3 (Laminin alpha 3), LAMA3-A, known to be involved in tumour cell invasion and progression. The full-length transcript of the gene (LAMA3-B) did not appear to be hypoxia-associated. The results were confirmed using qualitative RT-PCR. In a series of 59 prospectively collected head and neck tumours, expression of LAMA3-A had prognostic significance whereas LAMA3-B did not. This work illustrates the potential for alternatively spliced transcripts to act as biomarkers of disease prognosis with improved specificity for particular tissues or conditions over assays which do not discriminate between splice variants.", "link"=>"http://www.mendeley.com/research/exon-array-analysis-head-neck-cancers-identifies-hypoxia-related-splice-variant-lama3-associated-poo", "reader_count"=>41, "reader_count_by_academic_status"=>{"Unspecified"=>2, "Researcher"=>16, "Student > Doctoral Student"=>2, "Student > Ph. D. Student"=>7, "Student > Postgraduate"=>1, "Student > Master"=>3, "Other"=>2, "Student > Bachelor"=>7, "Professor > Associate Professor"=>1}, "reader_count_by_user_role"=>{"Unspecified"=>2, "Researcher"=>16, "Student > Doctoral Student"=>2, "Student > Ph. D. Student"=>7, "Student > Postgraduate"=>1, "Student > Master"=>3, "Other"=>2, "Student > Bachelor"=>7, "Professor > Associate Professor"=>1}, "reader_count_by_subject_area"=>{"Unspecified"=>2, "Biochemistry, Genetics and Molecular Biology"=>8, "Mathematics"=>2, "Agricultural and Biological Sciences"=>18, "Medicine and Dentistry"=>2, "Social Sciences"=>1, "Computer Science"=>2, "Engineering"=>6}, "reader_count_by_subdiscipline"=>{"Engineering"=>{"Engineering"=>6}, "Medicine and Dentistry"=>{"Medicine and Dentistry"=>2}, "Social Sciences"=>{"Social Sciences"=>1}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>18}, "Computer Science"=>{"Computer Science"=>2}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>8}, "Mathematics"=>{"Mathematics"=>2}, "Unspecified"=>{"Unspecified"=>2}}, "reader_count_by_country"=>{"United States"=>1, "United Kingdom"=>1, "France"=>1, "Germany"=>2, "India"=>1}, "group_count"=>3}

Scopus | Further Information

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/874973"], "description"=>"<p>(A) <i>LAMA3</i> transcripts and exon distribution. Fold changes per exon are indicated by the colormap. (B) Expression of <i>LAMA3</i> in 40 exon arrays: 10 HNSCC (5 low HS and 5 high HS) and 10 tissue types in triplicate from Affymetrix. The top figure plots the mean expression level for each sample group (10 tissue types, low HS HNSCC and high HS HNSCC). The middle figure plots the fold change value per probeset in the HNSCC dataset. The horizontal line indicates the FC threshold cut-off at 5% FDR. The bottom figure displays the DABG p-values per sample per probeset: present () red and absent () blue. The top 30 rows correspond to the 10 tissue types in triplicate, and the bottom 10 to the HNSCC samples ordered by HS score (low to high - top to bottom).</p>", "links"=>[], "tags"=>["exon"], "article_id"=>545440, "categories"=>["Genetics", "Mathematics", "Molecular Biology", "Medicine", "Infectious Diseases", "Cancer"], "users"=>["Carla S. Moller-Levet", "Guy N. J. Betts", "Adrian L. Harris", "Jarrod J. Homer", "Catharine M. L. West", "Crispin J. Miller"], "doi"=>"https://dx.doi.org/10.1371/journal.pcbi.1000571.g005", "stats"=>{"downloads"=>1, "page_views"=>2, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_LAMA3_transcripts_exon_distribution_and_expression_/545440", "title"=>"<i>LAMA3</i> transcripts, exon distribution and expression.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2009-11-20 01:30:40"}
  • {"files"=>["https://ndownloader.figshare.com/files/874610"], "description"=>"<p>All array probesets go through a 3 stage filtering procedure in order to detect DE probesets. First the “Probeset filter” selects non-multiply targeting exonic probesets with probes, then the “DABG filter” identifies the probesets present in at least all samples of the same group, finally the “t-test filter” detects probesets with a statistically-significant difference between the two groups at a 5% FDR. The resulting DE probesets are driven through two parallel tracks. Track 1: a further filter for fold change at a 5% FDR is used. This yields DE probesets with large fold changes. The probesets are mapped to genes, and these are labelled as DE genes from Track 1. Track 2: DE probesets are mapped to genes. The genes are mapped back to probesets and genes with of DE probesets relative to the total non-multiply targeting exonic gene's probesets are selected and labelled as DE genes from Track 2. Total DE genes are the combined DE genes from the two tracks.</p>", "links"=>[], "tags"=>["pipeline", "detection", "genes", "changes", "loci", "referred", "differentially", "exon"], "article_id"=>545054, "categories"=>["Genetics", "Mathematics", "Molecular Biology", "Medicine", "Infectious Diseases", "Cancer"], "users"=>["Carla S. Moller-Levet", "Guy N. J. Betts", "Adrian L. Harris", "Jarrod J. Homer", "Catharine M. L. West", "Crispin J. Miller"], "doi"=>"https://dx.doi.org/10.1371/journal.pcbi.1000571.g001", "stats"=>{"downloads"=>1, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Analysis_pipeline_for_the_detection_of_genes_with_changes_in_expression_across_their_loci_here_referred_to_as_differentially_expressed_DE_genes_in_exon_array_data_/545054", "title"=>"Analysis pipeline for the detection of genes with changes in expression across their loci (here referred to as differentially expressed (DE) genes) in exon array data.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2009-11-20 01:24:14"}
  • {"files"=>["https://ndownloader.figshare.com/files/874858"], "description"=>"<p>(A) <i>BNC1</i>, (B) <i>SLCO1B3</i>, (C) <i>WDR66</i> and (D) <i>NRG1</i> in 40 exon arrays: 10 HNSCC (5 low HS and 5 high HS) and 10 tissue types in triplicate from Affymetrix. In each figure, the top panel plots the mean expression level for each sample group (10 tissue types, low HS HNSCC and high HS HNSCC). The central panel plots the fold change value per probeset in the HNSCC dataset. The horizontal line indicates the FC threshold cut-off at 5% FDR. The bottom panel displays the DABG p-values per sample per probeset: present () red and absent () blue. The top 30 rows correspond to the 10 tissue types in triplicate, and the bottom 10 to the HNSCC samples ordered by HS score (low to high - top to bottom).</p>", "links"=>[], "tags"=>["genes", "40", "exon"], "article_id"=>545315, "categories"=>["Genetics", "Mathematics", "Molecular Biology", "Medicine", "Infectious Diseases", "Cancer"], "users"=>["Carla S. Moller-Levet", "Guy N. J. Betts", "Adrian L. Harris", "Jarrod J. Homer", "Catharine M. L. West", "Crispin J. Miller"], "doi"=>"https://dx.doi.org/10.1371/journal.pcbi.1000571.g004", "stats"=>{"downloads"=>1, "page_views"=>2, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Expression_of_selected_genes_in_40_exon_arrays_/545315", "title"=>"Expression of selected genes in 40 exon arrays.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2009-11-20 01:28:35"}
  • {"files"=>["https://ndownloader.figshare.com/files/875288"], "description"=>"<p>Genes identified as potentially induced under hypoxia that belong to processes known to be activated in tumours under hypoxia conditions. A = Anion transport, B = Carboxylic acid transport, C = Cell proliferation, D = Circulatory system process, E = Cytoskeleton organization and biogenesis, F = Endothelial cell migration, G = Glycolysis, H = Regulation of cell motility.</p>", "links"=>[], "tags"=>["computational biology/alternative splicing", "computational biology/genomics", "genetics and genomics/bioinformatics", "genetics and genomics/cancer genetics", "genetics and genomics/functional genomics", "genetics and genomics/gene expression", "mathematics/statistics", "molecular biology/bioinformatics", "oncology/head and neck cancers"], "article_id"=>545738, "categories"=>["Genetics", "Mathematics", "Molecular Biology", "Medicine", "Infectious Diseases", "Cancer"], "users"=>["Carla S. Moller-Levet", "Guy N. J. Betts", "Adrian L. Harris", "Jarrod J. Homer", "Catharine M. L. West", "Crispin J. Miller"], "doi"=>"https://dx.doi.org/10.1371/journal.pcbi.1000571.t001", "stats"=>{"downloads"=>0, "page_views"=>40, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Hypoxia_associated_genes_/545738", "title"=>"Hypoxia associated genes.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2009-11-20 01:35:38"}
  • {"files"=>["https://ndownloader.figshare.com/files/434039", "https://ndownloader.figshare.com/files/434071", "https://ndownloader.figshare.com/files/434097", "https://ndownloader.figshare.com/files/434133", "https://ndownloader.figshare.com/files/434162", "https://ndownloader.figshare.com/files/434188", "https://ndownloader.figshare.com/files/434228", "https://ndownloader.figshare.com/files/434274", "https://ndownloader.figshare.com/files/434307", "https://ndownloader.figshare.com/files/434344", "https://ndownloader.figshare.com/files/434368", "https://ndownloader.figshare.com/files/434391", "https://ndownloader.figshare.com/files/434422", "https://ndownloader.figshare.com/files/434460", "https://ndownloader.figshare.com/files/434483"], "description"=>"<div><p>The identification of alternatively spliced transcript variants specific to particular biological processes in tumours should increase our understanding of cancer. Hypoxia is an important factor in cancer biology, and associated splice variants may present new markers to help with planning treatment. A method was developed to analyse alternative splicing in exon array data, using probeset multiplicity to identify genes with changes in expression across their loci, and a combination of the splicing index and a new metric based on the variation of reliability weighted fold changes to detect changes in the splicing patterns. The approach was validated on a cancer/normal sample dataset in which alternative splicing events had been confirmed using RT-PCR. We then analysed ten head and neck squamous cell carcinomas using exon arrays and identified differentially expressed splice variants in five samples with high versus five with low levels of hypoxia-associated genes. The analysis identified a splice variant of <em>LAMA3</em> (Laminin α 3), LAMA3-A, known to be involved in tumour cell invasion and progression. The full-length transcript of the gene (LAMA3-B) did not appear to be hypoxia-associated. The results were confirmed using qualitative RT-PCR. In a series of 59 prospectively collected head and neck tumours, expression of LAMA3-A had prognostic significance whereas LAMA3-B did not. This work illustrates the potential for alternatively spliced transcripts to act as biomarkers of disease prognosis with improved specificity for particular tissues or conditions over assays which do not discriminate between splice variants.</p></div>", "links"=>[], "tags"=>["exon", "cancers", "identifies", "hypoxia", "splice", "variant", "prognosis"], "article_id"=>145640, "categories"=>["Genetics", "Mathematics", "Molecular Biology", "Medicine", "Cancer"], "users"=>["Carla S. Moller-Levet", "Guy N. J. Betts", "Adrian L. Harris", "Jarrod J. Homer", "Catharine M. L. West", "Crispin J. Miller"], "doi"=>["https://dx.doi.org/10.1371/journal.pcbi.1000571.s001", "https://dx.doi.org/10.1371/journal.pcbi.1000571.s002", "https://dx.doi.org/10.1371/journal.pcbi.1000571.s003", "https://dx.doi.org/10.1371/journal.pcbi.1000571.s004", "https://dx.doi.org/10.1371/journal.pcbi.1000571.s005", "https://dx.doi.org/10.1371/journal.pcbi.1000571.s006", "https://dx.doi.org/10.1371/journal.pcbi.1000571.s007", "https://dx.doi.org/10.1371/journal.pcbi.1000571.s008", "https://dx.doi.org/10.1371/journal.pcbi.1000571.s009", "https://dx.doi.org/10.1371/journal.pcbi.1000571.s010", "https://dx.doi.org/10.1371/journal.pcbi.1000571.s011", "https://dx.doi.org/10.1371/journal.pcbi.1000571.s012", "https://dx.doi.org/10.1371/journal.pcbi.1000571.s013", "https://dx.doi.org/10.1371/journal.pcbi.1000571.s014", "https://dx.doi.org/10.1371/journal.pcbi.1000571.s015"], "stats"=>{"downloads"=>36, "page_views"=>15, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/Exon_Array_Analysis_of_Head_and_Neck_Cancers_Identifies_a_Hypoxia_Related_Splice_Variant_of_LAMA3_Associated_with_a_Poor_Prognosis/145640", "title"=>"Exon Array Analysis of Head and Neck Cancers Identifies a Hypoxia Related Splice Variant of <em>LAMA3</em> Associated with a Poor Prognosis", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2009-11-20 01:34:00"}
  • {"files"=>["https://ndownloader.figshare.com/files/875079"], "description"=>"<p>The distribution of gene expression values derived from normalised quantitative RT-PCR Ct readings. A lower Ct reading indicates higher gene expression. (A) Gene expression values for primers specific to the two transcripts of <i>LAMA3</i> across 10 clinical HNSCC samples comprising 5 with low HS values (L1 to L5) and 5 with high HS values (H1 to H5). Gene expression values for LAMA3-A are significantly higher in the high HS samples compared to the low HS samples; p = 0.008 (Mann-Whitney U test). There was no significant difference in expression in LAMA3-B values between high and low HS groups. (B) Gene expression values for primers specific to two distinct regions of <i>SLC2A1</i>. Both primers show higher expression in high HS samples compared to low HS and there is no significant difference in pattern of expression of primers within samples.</p>", "links"=>[], "tags"=>["10", "hnscc"], "article_id"=>545539, "categories"=>["Genetics", "Mathematics", "Molecular Biology", "Medicine", "Infectious Diseases", "Cancer"], "users"=>["Carla S. Moller-Levet", "Guy N. J. Betts", "Adrian L. Harris", "Jarrod J. Homer", "Catharine M. L. West", "Crispin J. Miller"], "doi"=>"https://dx.doi.org/10.1371/journal.pcbi.1000571.g006", "stats"=>{"downloads"=>1, "page_views"=>2, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_LAMA3_in_the_10_clinical_HNSCC_samples_/545539", "title"=>"<i>LAMA3</i> in the 10 clinical HNSCC samples.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2009-11-20 01:32:19"}
  • {"files"=>["https://ndownloader.figshare.com/files/874773"], "description"=>"<p>(A) Ranked splicing indices (SI) versus ranked range of fold change values. (B) Ranked SIs versus ranked VFC values. When the information of the DABGs is incorporated into the range of FCs, through the VFC metric, several genes high-ranked in (A) fall down the ranking in (B). Genes with bold background were further inspected manually.</p>", "links"=>[], "tags"=>["splicing", "hnscc"], "article_id"=>545231, "categories"=>["Genetics", "Mathematics", "Molecular Biology", "Medicine", "Infectious Diseases", "Cancer"], "users"=>["Carla S. Moller-Levet", "Guy N. J. Betts", "Adrian L. Harris", "Jarrod J. Homer", "Catharine M. L. West", "Crispin J. Miller"], "doi"=>"https://dx.doi.org/10.1371/journal.pcbi.1000571.g003", "stats"=>{"downloads"=>0, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Alternative_splicing_in_the_HNSCC_dataset_/545231", "title"=>"Alternative splicing in the HNSCC dataset.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2009-11-20 01:27:11"}
  • {"files"=>["https://ndownloader.figshare.com/files/875363"], "description"=>"<p>Primer sequences for LAMA3-A (transcript ENST00000269217), LAMA3-B (transcript ENST00000313654), SLC2A1-A (transcripts ENST00000372500 and ENST00000372501) and SLC2A1-B (transcripts ENST00000372501 and ENST00000397019). UP = UPL probe and AL = amplicon length.</p>", "links"=>[], "tags"=>["sequences"], "article_id"=>545825, "categories"=>["Genetics", "Mathematics", "Molecular Biology", "Medicine", "Infectious Diseases", "Cancer"], "users"=>["Carla S. Moller-Levet", "Guy N. J. Betts", "Adrian L. Harris", "Jarrod J. Homer", "Catharine M. L. West", "Crispin J. Miller"], "doi"=>"https://dx.doi.org/10.1371/journal.pcbi.1000571.t003", "stats"=>{"downloads"=>3, "page_views"=>2, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Primer_sequences_for_LAMA3_and_SLC2A1_/545825", "title"=>"Primer sequences for <i>LAMA3</i> and <i>SLC2A1</i>.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2009-11-20 01:37:05"}
  • {"files"=>["https://ndownloader.figshare.com/files/875152"], "description"=>"<p>Relative gene expression of (A) <i>LAMA3</i> and (B) <i>SLC2A1</i> primers showing changes in expression in hypoxia relative to normoxia in CAL-27 and FaDu cell lines. At least 3 data points were collected for each of 3 independent biological repeat experiments.</p>", "links"=>[], "tags"=>["hnscc"], "article_id"=>545608, "categories"=>["Genetics", "Mathematics", "Molecular Biology", "Medicine", "Infectious Diseases", "Cancer"], "users"=>["Carla S. Moller-Levet", "Guy N. J. Betts", "Adrian L. Harris", "Jarrod J. Homer", "Catharine M. L. West", "Crispin J. Miller"], "doi"=>"https://dx.doi.org/10.1371/journal.pcbi.1000571.g007", "stats"=>{"downloads"=>1, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_LAMA3_in_HNSCC_cell_lines_/545608", "title"=>"<i>LAMA3</i> in HNSCC cell lines.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2009-11-20 01:33:28"}
  • {"files"=>["https://ndownloader.figshare.com/files/875214"], "description"=>"<p>Kaplan-Meier plots showing overall survival of 59 HNSCC patients treated with surgery and appropriate adjuvant treatment. Patients were stratified by RNA expression (highest quartile vs. remaining three quartiles) of (A) LAMA3-A (probeset 203726_s_at) or (B) LAMA3-B (probeset 1563772_a_at).</p>", "links"=>[], "tags"=>["plots"], "article_id"=>545674, "categories"=>["Genetics", "Mathematics", "Molecular Biology", "Medicine", "Infectious Diseases", "Cancer"], "users"=>["Carla S. Moller-Levet", "Guy N. J. Betts", "Adrian L. Harris", "Jarrod J. Homer", "Catharine M. L. West", "Crispin J. Miller"], "doi"=>"https://dx.doi.org/10.1371/journal.pcbi.1000571.g008", "stats"=>{"downloads"=>1, "page_views"=>6, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Kaplan_Meier_plots_of_LAMA3_expression_/545674", "title"=>"Kaplan-Meier plots of <i>LAMA3</i> expression.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2009-11-20 01:34:34"}
  • {"files"=>["https://ndownloader.figshare.com/files/875323"], "description"=>"<p>Genes identified as potentially induced under hypoxia, using exon and 3′IVT arrays, which are members of the HS genes and/or genes known to be hypoxia induced in the literature (Lit genes). The genes are sort by the pipeline track (Track 1 () and Track 2 ()) and array platform which identified them and their membership to the set of HS genes and the set of Lit genes.</p>", "links"=>[], "tags"=>["genes", "exon"], "article_id"=>545779, "categories"=>["Genetics", "Mathematics", "Molecular Biology", "Medicine", "Infectious Diseases", "Cancer"], "users"=>["Carla S. Moller-Levet", "Guy N. J. Betts", "Adrian L. Harris", "Jarrod J. Homer", "Catharine M. L. West", "Crispin J. Miller"], "doi"=>"https://dx.doi.org/10.1371/journal.pcbi.1000571.t002", "stats"=>{"downloads"=>5, "page_views"=>35, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Hypoxia_associated_genes_identified_by_exon_and_3_8242_IVT_arrays_/545779", "title"=>"Hypoxia associated genes identified by exon and 3′IVT arrays.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2009-11-20 01:36:19"}
  • {"files"=>["https://ndownloader.figshare.com/files/874698"], "description"=>"<p>(A) Ranked splicing indices (SI) versus ranked VFC values. Light background: true positives, dark background: false positives. (B) ROC curve.</p>", "links"=>[], "tags"=>["splicing", "affymetrix", "colon", "cancer"], "article_id"=>545153, "categories"=>["Genetics", "Mathematics", "Molecular Biology", "Medicine", "Infectious Diseases", "Cancer"], "users"=>["Carla S. Moller-Levet", "Guy N. J. Betts", "Adrian L. Harris", "Jarrod J. Homer", "Catharine M. L. West", "Crispin J. Miller"], "doi"=>"https://dx.doi.org/10.1371/journal.pcbi.1000571.g002", "stats"=>{"downloads"=>3, "page_views"=>6, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Alternative_splicing_in_the_Affymetrix_colon_cancer_sample_dataset_/545153", "title"=>"Alternative splicing in the Affymetrix colon cancer sample dataset.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2009-11-20 01:25:53"}

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Relative Metric

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