demo_output1.json

[{
  "analysis_id": 1,
  "0": 1,
  "logic_name": "mt_genbank_import",
  "1": "mt_genbank_import",
  "description": "Mitochondrial gene models imported from <a rel=\"external\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/genbank\/\">Genbank<\/a>.",
  "2": "Mitochondrial gene models imported from <a rel=\"external\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/genbank\/\">Genbank<\/a>.",
  "display_label": "MT genes (GenBank)",
  "3": "MT genes (GenBank)",
  "web_data": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}",
  "4": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}"
}, {
  "analysis_id": 8353,
  "0": 8353,
  "logic_name": "ensembl_havana_gene",
  "1": "ensembl_havana_gene",
  "description": "Annotation for this gene includes both automatic annotation from Ensembl and <a rel=\"external\" href=\"http:\/\/vega.sanger.ac.uk\/index.html\">Havana<\/a> manual curation, see <a href=\"\/info\/genome\/genebuild\/genome_annotation.html\" class=\"cp-external\">article<\/a>.",
  "2": "Annotation for this gene includes both automatic annotation from Ensembl and <a rel=\"external\" href=\"http:\/\/vega.sanger.ac.uk\/index.html\">Havana<\/a> manual curation, see <a href=\"\/info\/genome\/genebuild\/genome_annotation.html\" class=\"cp-external\">article<\/a>.",
  "display_label": "Ensembl\/Havana merge",
  "3": "Ensembl\/Havana merge",
  "web_data": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}",
  "4": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}"
}, {
  "analysis_id": 8354,
  "0": 8354,
  "logic_name": "havana",
  "1": "havana",
  "description": "Manual annotation (determined on a case-by-case basis) from the <a rel=\"external\" href=\"http:\/\/www.sanger.ac.uk\/research\/projects\/vertebrategenome\/havana\/\">Havana<\/a> project.",
  "2": "Manual annotation (determined on a case-by-case basis) from the <a rel=\"external\" href=\"http:\/\/www.sanger.ac.uk\/research\/projects\/vertebrategenome\/havana\/\">Havana<\/a> project.",
  "display_label": "Havana",
  "3": "Havana",
  "web_data": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}",
  "4": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}"
}, {
  "analysis_id": 8363,
  "0": 8363,
  "logic_name": "ensembl",
  "1": "ensembl",
  "description": "Annotation produced by the Ensembl <a href=\"\/info\/genome\/genebuild\/genome_annotation.html\" class=\"cp-external\">genebuild<\/a>.",
  "2": "Annotation produced by the Ensembl <a href=\"\/info\/genome\/genebuild\/genome_annotation.html\" class=\"cp-external\">genebuild<\/a>.",
  "display_label": "Ensembl",
  "3": "Ensembl",
  "web_data": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}",
  "4": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}"
}, {
  "analysis_id": 8365,
  "0": 8365,
  "logic_name": "havana_ig_gene",
  "1": "havana_ig_gene",
  "description": "Immunoglobulin (Ig) and T-cell receptor (TcR) annotation imported from the manually curated IG gene set from the <a rel=\"external\" href=\"http:\/\/www.sanger.ac.uk\/research\/projects\/vertebrategenome\/havana\/\">Havana<\/a> project.",
  "2": "Immunoglobulin (Ig) and T-cell receptor (TcR) annotation imported from the manually curated IG gene set from the <a rel=\"external\" href=\"http:\/\/www.sanger.ac.uk\/research\/projects\/vertebrategenome\/havana\/\">Havana<\/a> project.",
  "display_label": "Havana Ig\/T-cell receptor",
  "3": "Havana Ig\/T-cell receptor",
  "web_data": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}",
  "4": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}"
}, {
  "analysis_id": 8367,
  "0": 8367,
  "logic_name": "ensembl_havana_ig_gene",
  "1": "ensembl_havana_ig_gene",
  "description": "Immunoglobulin (Ig) and T-cell receptor (TcR) annotation from Ensembl and Havana. Havana annotation was imported from the Havana project's manually curated IG gene set. Ensembl annotation was imported from the <a rel=\"external\" href=\"http:\/\/nar.oxfordjournals.org\/content\/33\/suppl_1\/D593.full?maxtoshow=&HITS=10&hits=10&RESULTFORMAT=1&author1=Lefranc&andorexacttitle=and&andorexacttitleabs=and&andorexactfulltext=and&searchid=1&FIRSTINDEX=0&sortspec=relevance&resourcetype=HWCIT\">IMGT<\/a> database using <a rel=\"external\" href=\"http:\/\/www.biomedcentral.com\/1471-2105\/6\/31\">Exonerate<\/a>. Click <a rel=\"external\" href=\"\/info\/genome\/genebuild\/ig_tcr.html\">here<\/a> for more details about the Ensembl annotation.",
  "2": "Immunoglobulin (Ig) and T-cell receptor (TcR) annotation from Ensembl and Havana. Havana annotation was imported from the Havana project's manually curated IG gene set. Ensembl annotation was imported from the <a rel=\"external\" href=\"http:\/\/nar.oxfordjournals.org\/content\/33\/suppl_1\/D593.full?maxtoshow=&HITS=10&hits=10&RESULTFORMAT=1&author1=Lefranc&andorexacttitle=and&andorexacttitleabs=and&andorexactfulltext=and&searchid=1&FIRSTINDEX=0&sortspec=relevance&resourcetype=HWCIT\">IMGT<\/a> database using <a rel=\"external\" href=\"http:\/\/www.biomedcentral.com\/1471-2105\/6\/31\">Exonerate<\/a>. Click <a rel=\"external\" href=\"\/info\/genome\/genebuild\/ig_tcr.html\">here<\/a> for more details about the Ensembl annotation.",
  "display_label": "Ensembl\/Havana merge Ig\/T-cell receptor",
  "3": "Ensembl\/Havana merge Ig\/T-cell receptor",
  "web_data": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}",
  "4": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}"
}, {
  "analysis_id": 8369,
  "0": 8369,
  "logic_name": "ncrna",
  "1": "ncrna",
  "description": "Non-coding RNAs (ncRNAs) predicted using sequences from <arel=\"external\" href=\"http:\/\/rfam.xfam.org\/\">RFAM<\/a> and <arel=\"external\" href=\"http:\/\/www.mirbase.org\/\">miRBase<\/a>. See <a href=\"\/info\/genome\/genebuild\/ncrna.html\" class=\"cp-external\">article<\/a>.",
  "2": "Non-coding RNAs (ncRNAs) predicted using sequences from <arel=\"external\" href=\"http:\/\/rfam.xfam.org\/\">RFAM<\/a> and <arel=\"external\" href=\"http:\/\/www.mirbase.org\/\">miRBase<\/a>. See <a href=\"\/info\/genome\/genebuild\/ncrna.html\" class=\"cp-external\">article<\/a>.",
  "display_label": "ncRNAs",
  "3": "ncRNAs",
  "web_data": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}",
  "4": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}"
}, {
  "analysis_id": 8377,
  "0": 8377,
  "logic_name": "ensembl_havana_lincrna",
  "1": "ensembl_havana_lincrna",
  "description": "Long intergenic non-coding RNAs (lincRNAs) containing both Ensembl lincRNA transcripts annotated by the <a href=\"\/info\/genome\/genebuild\/ncrna.html\" class=\"cp-external\">Ensembl lincRNA annotation pipeline<\/a> and non-coding transcripts from <a rel=\"external\" href=\"http:\/\/vega.sanger.ac.uk\/index.html\">Havana<\/a> manual curation.",
  "2": "Long intergenic non-coding RNAs (lincRNAs) containing both Ensembl lincRNA transcripts annotated by the <a href=\"\/info\/genome\/genebuild\/ncrna.html\" class=\"cp-external\">Ensembl lincRNA annotation pipeline<\/a> and non-coding transcripts from <a rel=\"external\" href=\"http:\/\/vega.sanger.ac.uk\/index.html\">Havana<\/a> manual curation.",
  "display_label": "Ensembl\/Havana merge lincRNA",
  "3": "Ensembl\/Havana merge lincRNA",
  "web_data": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}",
  "4": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}"
}, {
  "analysis_id": 8378,
  "0": 8378,
  "logic_name": "ensembl_lincrna",
  "1": "ensembl_lincrna",
  "description": "Long intergenic non-coding RNAs (lincRNAs) were annotated by the <a href=\"\/info\/genome\/genebuild\/ncrna.html\" class=\"cp-external\">Ensembl lincRNA annotation pipeline<\/a>.",
  "2": "Long intergenic non-coding RNAs (lincRNAs) were annotated by the <a href=\"\/info\/genome\/genebuild\/ncrna.html\" class=\"cp-external\">Ensembl lincRNA annotation pipeline<\/a>.",
  "display_label": "Ensembl lincRNA",
  "3": "Ensembl lincRNA",
  "web_data": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}",
  "4": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}"
}, {
  "analysis_id": 8453,
  "0": 8453,
  "logic_name": "assembly_patch_ensembl",
  "1": "assembly_patch_ensembl",
  "description": "Annotation produced by aligning human cDNA sequences to the genome using <a rel=\"external\" href=\"http:\/\/www.biomedcentral.com\/1471-2105\/6\/31\">Exonerate's<\/a> cdna2genome model, which utilises annotation identifying the coding regions of the cDNA sequences, along with protein evidence from <a rel=\"external\" href=\"http:\/\/www.uniprot.org\/\">UniProtKB<\/a>, from various species, aligned to the genome using <a rel=\"external\" href=\"http:\/\/genome.cshlp.org\/content\/14\/5\/988.abstract?maxtoshow=&amp%3bHITS=10&amp%3bhits=10&amp%3bRESULTFORMAT=&amp%3bandorexactfulltext=and&amp%3bsearchid=1&amp%3bFIRSTINDEX=0&amp%3bsortspec=relevance&amp%3bvolume=14&amp%3bfirstpage=988&amp%3bresourcetype=HWCIT\">GeneWise<\/a>. This annotation is used where there is no manual annotation and annotation could not be projected from the <a rel=\"external\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/projects\/genome\/assembly\/grc\/info\/definitions.shtml\">primary assembly<\/a>.",
  "2": "Annotation produced by aligning human cDNA sequences to the genome using <a rel=\"external\" href=\"http:\/\/www.biomedcentral.com\/1471-2105\/6\/31\">Exonerate's<\/a> cdna2genome model, which utilises annotation identifying the coding regions of the cDNA sequences, along with protein evidence from <a rel=\"external\" href=\"http:\/\/www.uniprot.org\/\">UniProtKB<\/a>, from various species, aligned to the genome using <a rel=\"external\" href=\"http:\/\/genome.cshlp.org\/content\/14\/5\/988.abstract?maxtoshow=&amp%3bHITS=10&amp%3bhits=10&amp%3bRESULTFORMAT=&amp%3bandorexactfulltext=and&amp%3bsearchid=1&amp%3bFIRSTINDEX=0&amp%3bsortspec=relevance&amp%3bvolume=14&amp%3bfirstpage=988&amp%3bresourcetype=HWCIT\">GeneWise<\/a>. This annotation is used where there is no manual annotation and annotation could not be projected from the <a rel=\"external\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/projects\/genome\/assembly\/grc\/info\/definitions.shtml\">primary assembly<\/a>.",
  "display_label": "Ensembl assembly patch",
  "3": "Ensembl assembly patch",
  "web_data": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}",
  "4": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}"
}, {
  "analysis_id": 8455,
  "0": 8455,
  "logic_name": "proj_havana",
  "1": "proj_havana",
  "description": "Manual annotation (determined on a case-by-case basis) from the <a rel=\"external\" href=\"http:\/\/www.sanger.ac.uk\/research\/projects\/vertebrategenome\/havana\/\">Havana<\/a> project, projected to the <a rel=\"external\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/projects\/genome\/assembly\/grc\/info\/definitions.shtml\">alternate locus<\/a> via a mapping from the <a rel=\"external\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/projects\/genome\/assembly\/grc\/info\/definitions.shtml\">primary assembly<\/a>.",
  "2": "Manual annotation (determined on a case-by-case basis) from the <a rel=\"external\" href=\"http:\/\/www.sanger.ac.uk\/research\/projects\/vertebrategenome\/havana\/\">Havana<\/a> project, projected to the <a rel=\"external\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/projects\/genome\/assembly\/grc\/info\/definitions.shtml\">alternate locus<\/a> via a mapping from the <a rel=\"external\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/projects\/genome\/assembly\/grc\/info\/definitions.shtml\">primary assembly<\/a>.",
  "display_label": "Projected Havana",
  "3": "Projected Havana",
  "web_data": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}",
  "4": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}"
}, {
  "analysis_id": 8456,
  "0": 8456,
  "logic_name": "proj_ensembl_havana_gene",
  "1": "proj_ensembl_havana_gene",
  "description": "Annotation for this gene includes both automatic annotation from Ensembl and <a rel=\"external\" href=\"http:\/\/vega.sanger.ac.uk\/index.html\">Havana<\/a> manual curation, see <a href=\"\/info\/genome\/genebuild\/genome_annotation.html\" class=\"cp-external\">article<\/a>. This was projected to the <a rel=\"external\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/projects\/genome\/assembly\/grc\/info\/definitions.shtml\">alternate locus<\/a> via a mapping from the <a rel=\"external\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/projects\/genome\/assembly\/grc\/info\/definitions.shtml\">primary assembly<\/a>.",
  "2": "Annotation for this gene includes both automatic annotation from Ensembl and <a rel=\"external\" href=\"http:\/\/vega.sanger.ac.uk\/index.html\">Havana<\/a> manual curation, see <a href=\"\/info\/genome\/genebuild\/genome_annotation.html\" class=\"cp-external\">article<\/a>. This was projected to the <a rel=\"external\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/projects\/genome\/assembly\/grc\/info\/definitions.shtml\">alternate locus<\/a> via a mapping from the <a rel=\"external\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/projects\/genome\/assembly\/grc\/info\/definitions.shtml\">primary assembly<\/a>.",
  "display_label": "Projected Ensembl\/Havana merge",
  "3": "Projected Ensembl\/Havana merge",
  "web_data": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}",
  "4": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}"
}, {
  "analysis_id": 8459,
  "0": 8459,
  "logic_name": "proj_ncrna",
  "1": "proj_ncrna",
  "description": "Non-coding RNAs (ncRNAs) predicted using sequences from <arel=\"external\" href=\"http:\/\/rfam.xfam.org\/\">RFAM<\/a> and <arel=\"external\" href=\"http:\/\/www.mirbase.org\/\">miRBase<\/a>. See <a href=\"\/info\/genome\/genebuild\/ncrna.html\" class=\"cp-external\">article<\/a>. These were projected to the <a rel=\"external\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/projects\/genome\/assembly\/grc\/info\/definitions.shtml\">alternate locus<\/a> via a mapping from the <a rel=\"external\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/projects\/genome\/assembly\/grc\/info\/definitions.shtml\">primary assembly<\/a>.",
  "2": "Non-coding RNAs (ncRNAs) predicted using sequences from <arel=\"external\" href=\"http:\/\/rfam.xfam.org\/\">RFAM<\/a> and <arel=\"external\" href=\"http:\/\/www.mirbase.org\/\">miRBase<\/a>. See <a href=\"\/info\/genome\/genebuild\/ncrna.html\" class=\"cp-external\">article<\/a>. These were projected to the <a rel=\"external\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/projects\/genome\/assembly\/grc\/info\/definitions.shtml\">alternate locus<\/a> via a mapping from the <a rel=\"external\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/projects\/genome\/assembly\/grc\/info\/definitions.shtml\">primary assembly<\/a>.",
  "display_label": "Projected ncRNA",
  "3": "Projected ncRNA",
  "web_data": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}",
  "4": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}"
}, {
  "analysis_id": 8489,
  "0": 8489,
  "logic_name": "proj_ensembl_havana_ig_gene",
  "1": "proj_ensembl_havana_ig_gene",
  "description": "Immunoglobulin (Ig) and T-cell receptor (TcR) annotation from Ensembl and Havana. Havana annotation was imported from the Havana project's manually curated IG gene set. Ensembl annotation was imported from the <a rel=\"external\" href=\"http:\/\/nar.oxfordjournals.org\/content\/33\/suppl_1\/D593.full?maxtoshow=&HITS=10&hits=10&RESULTFORMAT=1&author1=Lefranc&andorexacttitle=and&andorexacttitleabs=and&andorexactfulltext=and&searchid=1&FIRSTINDEX=0&sortspec=relevance&resourcetype=HWCIT\">IMGT<\/a> database using <a rel=\"external\" href=\"http:\/\/www.biomedcentral.com\/1471-2105\/6\/31\">Exonerate<\/a>. Click <a rel=\"external\" href=\"\/info\/genome\/genebuild\/ig_tcr.html\">here<\/a> for more details about the Ensembl annotation. These were projected to the <a rel=\"external\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/projects\/genome\/assembly\/grc\/info\/definitions.shtml\">alternate locus<\/a> via a mapping from the <a rel=\"external\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/projects\/genome\/assembly\/grc\/info\/definitions.shtml\">primary assembly<\/a>.",
  "2": "Immunoglobulin (Ig) and T-cell receptor (TcR) annotation from Ensembl and Havana. Havana annotation was imported from the Havana project's manually curated IG gene set. Ensembl annotation was imported from the <a rel=\"external\" href=\"http:\/\/nar.oxfordjournals.org\/content\/33\/suppl_1\/D593.full?maxtoshow=&HITS=10&hits=10&RESULTFORMAT=1&author1=Lefranc&andorexacttitle=and&andorexacttitleabs=and&andorexactfulltext=and&searchid=1&FIRSTINDEX=0&sortspec=relevance&resourcetype=HWCIT\">IMGT<\/a> database using <a rel=\"external\" href=\"http:\/\/www.biomedcentral.com\/1471-2105\/6\/31\">Exonerate<\/a>. Click <a rel=\"external\" href=\"\/info\/genome\/genebuild\/ig_tcr.html\">here<\/a> for more details about the Ensembl annotation. These were projected to the <a rel=\"external\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/projects\/genome\/assembly\/grc\/info\/definitions.shtml\">alternate locus<\/a> via a mapping from the <a rel=\"external\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/projects\/genome\/assembly\/grc\/info\/definitions.shtml\">primary assembly<\/a>.",
  "display_label": "Projected Ensembl\/Havana merge Ig\/T-cell receptor",
  "3": "Projected Ensembl\/Havana merge Ig\/T-cell receptor",
  "web_data": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}",
  "4": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}"
}, {
  "analysis_id": 8490,
  "0": 8490,
  "logic_name": "proj_havana_ig_gene",
  "1": "proj_havana_ig_gene",
  "description": "Immunoglobulin (Ig) and T-cell receptor (TcR) annotation imported from the manually curated IG gene set from the <a rel=\"external\" href=\"http:\/\/www.sanger.ac.uk\/research\/projects\/vertebrategenome\/havana\/\">Havana<\/a> project, projected to the <a rel=\"external\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/projects\/genome\/assembly\/grc\/info\/definitions.shtml\">alternate locus<\/a> via a mapping from the <a rel=\"external\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/projects\/genome\/assembly\/grc\/info\/definitions.shtml\">primary assembly<\/a>.",
  "2": "Immunoglobulin (Ig) and T-cell receptor (TcR) annotation imported from the manually curated IG gene set from the <a rel=\"external\" href=\"http:\/\/www.sanger.ac.uk\/research\/projects\/vertebrategenome\/havana\/\">Havana<\/a> project, projected to the <a rel=\"external\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/projects\/genome\/assembly\/grc\/info\/definitions.shtml\">alternate locus<\/a> via a mapping from the <a rel=\"external\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/projects\/genome\/assembly\/grc\/info\/definitions.shtml\">primary assembly<\/a>.",
  "display_label": "Projected Havana Ig\/T-cell receptor",
  "3": "Projected Havana Ig\/T-cell receptor",
  "web_data": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}",
  "4": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}"
}, {
  "analysis_id": 8491,
  "0": 8491,
  "logic_name": "proj_ensembl_havana_lincrna",
  "1": "proj_ensembl_havana_lincrna",
  "description": "Long intergenic non-coding RNAs (lincRNAs) containing both Ensembl lincRNA transcripts annotated by the <a href=\"\/info\/genome\/genebuild\/ncrna.html\" class=\"cp-external\">Ensembl lincRNA annotation pipeline<\/a> and non-coding transcripts from <a rel=\"external\" href=\"http:\/\/vega.sanger.ac.uk\/index.html\">Havana<\/a> manual curation. These were projected to the <a rel=\"external\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/projects\/genome\/assembly\/grc\/info\/definitions.shtml\">alternate locus<\/a> via a mapping from the <a rel=\"external\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/projects\/genome\/assembly\/grc\/info\/definitions.shtml\">primary assembly<\/a>.",
  "2": "Long intergenic non-coding RNAs (lincRNAs) containing both Ensembl lincRNA transcripts annotated by the <a href=\"\/info\/genome\/genebuild\/ncrna.html\" class=\"cp-external\">Ensembl lincRNA annotation pipeline<\/a> and non-coding transcripts from <a rel=\"external\" href=\"http:\/\/vega.sanger.ac.uk\/index.html\">Havana<\/a> manual curation. These were projected to the <a rel=\"external\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/projects\/genome\/assembly\/grc\/info\/definitions.shtml\">alternate locus<\/a> via a mapping from the <a rel=\"external\" href=\"http:\/\/www.ncbi.nlm.nih.gov\/projects\/genome\/assembly\/grc\/info\/definitions.shtml\">primary assembly<\/a>.",
  "display_label": "Projected Ensembl\/Havana merge lincRNA",
  "3": "Projected Ensembl\/Havana merge lincRNA",
  "web_data": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}",
  "4": "{\"caption\" => \"Genes (Comprehensive set from GENCODE 26)\",\"colour_key\" => \"[biotype]\",\"default\" => {\"MultiBottom\" => \"collapsed_label\",\"MultiTop\" => \"gene_label\",\"alignsliceviewbottom\" => \"as_collapsed_label\",\"contigviewbottom\" => \"transcript_label\",\"contigviewtop\" => \"gene_label\",\"cytoview\" => \"gene_label\"},\"key\" => \"ensembl\",\"label_key\" => \"[biotype]\",\"multi_name\" => \"GENCODE 26 Comprehensive gene set\",\"name\" => \"Comprehensive Gene Annotations from GENCODE 26\"}"
}]