dev.jsonl

{"doc_key": "PMID25644947_abstract", "dataset": "pickle", "sentences": [["A", "class", "II", "hydrophobin", "gene", ",", "HFB2", "-", "6", ",", "was", "cloned", "from", "Trichoderma", "asperellum", "ACCC30536", "and", "its", "biocontrol", "function", "was", "studied", "."], ["According", "to", "our", "previous", "transcriptome", "data", ",", "six", "of", "the", "eight", "class", "II", "hydrophobin", "genes", "were", "obviously", "differential", "expression", "in", "four", "inducing", "conditions", ",", "especially", "the", "gene", "HFB2", "-", "6", "."], ["Moreover", ",", "HFB2", "-", "6", "proven", "to", "be", "differentially", "transcribed", "under", "eight", "different", "treatments", "."], ["HFB2", "-", "6", "transcripts", "were", "up-regulated", "under", "1", "%", "Alternaria", "alternata", "cell", "wall", "and", "5", "%", "A.", "alternata", "fermentation", "liquid", "treatments", ",", "and", "by", "nutritional", "stress", "conditions", ",", "suggesting", "that", "HFB2", "-", "6", "plays", "roles", "in", "interactions", "with", "both", "biotic", "and", "abiotic", "environmental", "conditions", "."], ["HFB2", "-", "6", "expression", "was", "down-regulated", "under", "1", "%", "poplar", "leaf", "powder", "culture", "conditions", ",", "but", "its", "expression", "was", "up-regulated", "under", "1", "%", "poplar", "root", "powder", ",", "indicating", "that", "HFB2", "-", "6", "has", "a", "function", "in", "root", "colonization", "."], ["Furthermore", ",", "the", "recombinant", "hydrophobin", "rHFB2", "-", "6", "was", "successfully", "expressed", "in", "Escherichia", "coli", "BL21-HFB2", "-", "6", "and", "purified", "from", "the", "recombinant", "strain", "."], ["Genes", "related", "to", "both", "the", "jasmonic", "acid", "and", "salicylic", "acid", "signal", "transduction", "pathways", "were", "up-regulated", "by", "interaction", "with", "renatured", "rHFB2", "-", "6", "."], ["The", "ORCA3", "(", "octadecanoid-derivative", "responsive", "Catharanthus", "AP2-domain", ")", "gene", "of", "the", "poplar", "jasmonic", "acid", "signal", "transduction", "pathway", "showed", "a", "peak", "expression", "of", "4.48", "times", "at", "2", "h", ",", "and", "the", "peak", "expression", "of", "PR1", "(", "pathogenesis-related", "protein", "gene", ")", "in", "the", "salicylic", "acid", "signal", "transduction", "pathway", "was", "4.58", "times", "at", "72", "h.", "Two", "genes", ",", "MP", "(", "monopteros", ")", "and", "GH3.17", "(", "auxin", "original", "response", "gene", ")", ",", "in", "the", "auxin", "signal", "transduction", "pathway", "were", "also", "up-regulated", "after", "induction", "with", "rHFB2", "-", "6", ",", "indicating", "that", "rHFB2", "-", "6", "can", "promote", "poplar", "growth", "and", "confer", "broad-spectrum", "resistance", "to", "pathogens", "."]], "ner": [[[1, 4, "DNA"], [6, 8, "DNA"], [13, 15, "Multicellular_organism"]], [[34, 37, "DNA"], [50, 52, "DNA"]], [[56, 58, "DNA"]], [[69, 72, "RNA"], [78, 81, "Cell_component"], [85, 88, "Organic_compound_other"], [99, 101, "DNA"]], [[114, 117, "Biochemical_process"], [123, 125, "Organic_compound_other"], [137, 139, "Organic_compound_other"], [143, 145, "DNA"]], [[156, 160, "Protein"], [165, 169, "Unicellular_organism"]], [[182, 189, "Biochemical_pathway"], [196, 198, "Protein"]], [[201, 208, "DNA"], [211, 216, "Biochemical_process"], [233, 233, "DNA"], [235, 237, "DNA"], [241, 245, "Biochemical_process"], [255, 255, "DNA"], [257, 257, "DNA"], [260, 260, "DNA"], [262, 265, "DNA"], [270, 273, "Biochemical_process"], [280, 282, "Protein"], [286, 288, "Protein"], [291, 292, "Biochemical_process"]]], "relations": [[[6, 8, 13, 15, "is-in"]], [], [], [[78, 81, 69, 72, "activates"], [85, 88, 69, 72, "activates"]], [[123, 125, 114, 117, "inhibits"], [137, 139, 114, 117, "activates"]], [], [[196, 198, 182, 189, "activates"]], [[201, 208, 211, 216, "is-in"], [233, 233, 241, 245, "is-in"], [235, 237, 241, 245, "is-in"], [255, 255, 270, 273, "is-in"], [257, 257, 270, 273, "is-in"], [260, 260, 270, 273, "is-in"], [262, 265, 270, 273, "is-in"], [280, 282, 255, 255, "activates"], [280, 282, 257, 257, "activates"], [280, 282, 260, 260, "activates"], [280, 282, 262, 265, "activates"], [286, 288, 291, 292, "activates"]]]}
{"doc_key": "PMID19516980_abstract", "dataset": "pickle", "sentences": [["Many", "induced", "responses", "in", "plants", "are", "systemic", "."], ["Therefore", ",", "root-induced", "responses", "may", "alter", "leaf", "quality", "for", "shoot", "herbivores", "."], ["Previously", ",", "we", "found", "that", "root", "and", "shoot", "application", "of", "jasmonic", "acid", "(", "JA", ")", "to", "feral", "Brassica", "oleracea", "both", "induced", "glucosinolates", "in", "the", "leaves", "."], ["However", ",", "the", "types", "of", "glucosinolates", "that", "increased", "in", "root-", "and", "shoot", "induced", "plants", "were", "different", "."], ["Here", "we", "analyse", "whether", "primary", "metabolites", ",", "such", "as", "sugars", "and", "amino", "acids", ",", "are", "also", "differentially", "affected", "."], ["Moreover", ",", "we", "test", "whether", "chemical", "differences", "in", "root-", "and", "shoot-induced", "plants", "differentially", "affect", "growth", "of", "the", "generalist", "Mamestra", "brassicae", "and", "the", "specialist", "Pieris", "rapae", "."], ["Comprehensive", "analysis", "of", "glucosinolates", ",", "amino", "acid", "and", "sugars", "with", "principal", "component", "analysis", "revealed", "that", "leaf", "chemical", "profiles", "were", "affected", "both", "by", "JA", "application", "and", "by", "the", "organ", "that", "was", "induced", "."], ["Shoot-induction", "increased", "indole", "glucosinolates", ",", "whereas", "root-induction", "induced", "aliphatic", "glucosinolates", "in", "the", "leaves", "."], ["Leaves", "of", "shoot-induced", "plants", "had", "lower", "total", "sugar", "and", "total", "amino", "acid", "levels", ",", "whereas", "in", "root-induced", "plants", "only", "total", "sugar", "levels", "were", "significantly", "decreased", "."], ["(Iso)leucine", "responded", "significantly", "different", "from", "the", "general", "trend", ",", "which", "allowed", "us", "to", "discuss", "the", "potential", "role", "of", "Myb", "transcription", "factors", "which", "are", "coordinating", "JA-induced", "glucosinolate", "and", "amino", "acid", "responses", "in", "Arabidopsis", "thaliana", "."], ["Both", "M.", "brassicae", "and", "P.", "rapae", "grew", "the", "slowest", "on", "leaves", "of", "shoot-induced", "plants", "."], ["M.", "brassicae", "growth", "and", "survival", "was", "also", "reduced", "on", "root-induced", "plants", ",", "whereas", "P.", "rapae", "growth", "on", "these", "plants", "was", "similar", "to", "that", "on", "controls", "."], ["Specialist", "and", "generalist", "herbivores", "thus", "are", "differentially", "affected", "by", "the", "chemical", "changes", "after", "root", "and", "shoot-JA", "application", "."]], "ner": [[], [], [[30, 31, "Plant_hormone"], [33, 33, "Plant_hormone"], [36, 38, "Multicellular_organism"], [41, 41, "Organic_compound_other"]], [[51, 51, "Organic_compound_other"]], [], [[100, 101, "Multicellular_organism"], [105, 106, "Multicellular_organism"]], [[111, 111, "Organic_compound_other"], [130, 130, "Plant_hormone"]], [[142, 143, "Organic_compound_other"], [148, 149, "Organic_compound_other"]], [], [[180, 180, "Amino_acid_monomer"], [198, 200, "Protein"], [204, 209, "Biochemical_process"], [211, 212, "Multicellular_organism"]], [[215, 216, "Multicellular_organism"], [218, 219, "Multicellular_organism"]], [[229, 230, "Multicellular_organism"], [242, 243, "Multicellular_organism"]], []], "relations": [[], [], [[30, 31, 41, 41, "activates"], [33, 33, 41, 41, "activates"]], [], [], [], [], [], [], [[198, 200, 204, 209, "interacts"], [198, 200, 211, 212, "is-in"]], [], [], []]}
{"doc_key": "PMID31450090_abstract", "dataset": "pickle", "sentences": [["Changes", "in", "specialized", "metabolites", "were", "analyzed", "in", "wheat", "leaves", "inoculated", "with", "Bipolaris", "sorokiniana", ",", "the", "causal", "agent", "of", "spot", "blotch", "of", "Poaceae", "species", "."], ["HPLC", "analysis", "detected", "the", "accumulation", "of", "six", "compounds", "in", "B.", "sorokiniana-infected", "leaves", "."], ["Of", "these", ",", "we", "purified", "two", "compounds", "by", "silica", "gel", "and", "ODS", "column", "chromatography", "and", "preparative", "HPLC", ",", "and", "identified", "them", "as", "cinnamic", "acid", "amides", ",", "N-cinnamoyl-9-hydroxy-8-oxotryptamine", "and", "N-cinnamoyl-8-oxotryptamine", ",", "by", "spectroscopic", "analyses", "."], ["The", "remaining", "four", "compounds", "were", "predicted", "to", "be", "p-coumaric", "acid", "amides", "of", "hydroxyputrescine", ",", "hydroxyagmatine", ",", "hydroxydehydroagmatine", ",", "and", "agmatine", "by", "mass", "spectrometry", "."], ["The", "accumulation", "of", "two", "cinnamic", "acid", "amides", "was", "also", "induced", "by", "Fusarium", "graminearum", "infection", ",", "and", "by", "treatment", "with", "CuCl(2", ")", ",", "jasmonic", "acid", ",", "and", "isopentenyladenine", "."], ["Antifungal", "activity", "of", "these", "amides", "was", "shown", "by", "inhibition", "of", "conidial", "germination", "and", "germ", "tube", "elongation", "of", "F.", "graminearum", "and", "Alternaria", "brassicicola", ",", "indicating", "that", "they", "act", "as", "phytoalexins", "."], ["The", "accumulation", "of", "these", "amides", "also", "detected", "in", "barley", "leaves", "treated", "with", "CuCl(2", ")", "."], ["We", "examined", "the", "accumulation", "of", "25", "phenylamides", "in", "B.", "sorokiniana-infected", "wheat", "leaves", "using", "LC-MS/MS", "."], ["Hydroxycinnamic", "acid", "amides", "of", "tryptamine", ",", "serotonin", ",", "putrescine", ",", "and", "agmatine", ",", "were", "induced", "after", "infection", "with", "B.", "sorokiniana", "."], ["Thus", ",", "the", "induced", "accumulation", "of", "two", "groups", "of", "phenylamides", ",", "cinnamic", "acid", "amides", "with", "indole", "amines", ",", "and", "p-coumaric", "acid", "amides", "with", "putrescine", "and", "agmatine", "related", "amines", ",", "represents", "a", "major", "metabolic", "response", "of", "wheat", "to", "pathogen", "infection", "."]], "ner": [[[7, 8, "Plant_region"], [11, 12, "Multicellular_organism"], [21, 22, "Multicellular_organism"], [18, 19, "Biochemical_process"]], [[33, 35, "Plant_region"]], [[63, 63, "Organic_compound_other"], [59, 61, "Organic_compound_other"], [65, 65, "Organic_compound_other"]], [[85, 85, "Organic_compound_other"], [87, 87, "Organic_compound_other"], [79, 81, "Organic_compound_other"], [83, 83, "Organic_compound_other"], [90, 90, "Organic_compound_other"]], [[106, 108, "Biochemical_process"], [99, 101, "Organic_compound_other"], [114, 115, "Inorganic_compound_other"], [117, 118, "Plant_hormone"], [121, 121, "Plant_hormone"]], [[140, 141, "Multicellular_organism"], [127, 127, "Organic_compound_other"], [143, 144, "Multicellular_organism"], [151, 151, "Organic_compound_other"]], [[161, 162, "Plant_region"], [165, 166, "Inorganic_compound_other"], [157, 157, "Organic_compound_other"]], [[174, 174, "Organic_compound_other"], [176, 179, "Plant_region"]], [[194, 194, "Organic_compound_other"], [201, 202, "Multicellular_organism"], [183, 185, "Organic_compound_other"], [187, 187, "Organic_compound_other"], [191, 191, "Organic_compound_other"], [189, 189, "Organic_compound_other"]], [[215, 217, "Organic_compound_other"], [219, 220, "Organic_compound_other"], [223, 225, "Organic_compound_other"], [227, 231, "Organic_compound_other"], [213, 213, "Organic_compound_other"], [239, 239, "Multicellular_organism"]]], "relations": [[[11, 12, 21, 22, "interacts"]], [], [], [], [[106, 108, 99, 101, "activates"], [114, 115, 99, 101, "activates"], [117, 118, 99, 101, "activates"], [121, 121, 99, 101, "activates"]], [[127, 127, 140, 141, "inhibits"], [127, 127, 143, 144, "inhibits"]], [[157, 157, 161, 162, "is-in"], [165, 166, 157, 157, "activates"]], [[174, 174, 176, 179, "is-in"]], [[201, 202, 183, 185, "activates"], [187, 187, 183, 185, "produces"], [189, 189, 183, 185, "produces"], [191, 191, 183, 185, "produces"], [194, 194, 183, 185, "produces"]], [[239, 239, 213, 213, "produces"], [239, 239, 215, 217, "produces"], [239, 239, 219, 220, "produces"], [239, 239, 223, 225, "produces"], [239, 239, 227, 231, "produces"]]]}
{"doc_key": "PMID14676400_abstract", "dataset": "pickle", "sentences": [["The", "peduncle", "of", "water", "hyacinth", "(", "Eichhornia", "crassipes", ")", "showed", "the", "downward", "bending", "within", "24", "hours", "after", "full", "flowering", "."], ["Previously", "it", "was", "suggested", "that", "the", "downward", "bending", "of", "peduncle", "might", "be", "induced", "by", "the", "differential", "growth", "of", "the", "epidermal", "cells", "of", "the", "portion", "because", "of", "the", "differential", "distribution", "of", "auxin", "in", "the", "upper", "side", "of", "the", "bending", "part", "of", "the", "peduncle", "."], ["In", "order", "to", "investigate", "the", "effect", "of", "auxin", "and", "gravity", "on", "the", "peduncle", "bending", "in", "Water", "hyacinth", ",", "we", "examined", "the", "growth", "reaction", "of", "peduncle", "and", "the", "effects", "of", "plant", "hormones", "on", "the", "bending", "of", "peduncle", "under", "simulated", "microgravity", ",", "and", "the", "sedimentable", "amyloplast", "on", "earth", "and", "three", "dimensional", "(3D)-clinostat", "."], ["As", "a", "result", "it", "was", "confirmed", "that", "the", "downward", "bending", "of", "peduncle", "in", "water", "hyacinth", "is", "the", "positive", "gravitropism", ",", "and", "that", "its", "phenomenon", "is", "caused", "by", "the", "differential", "distribution", "of", "auxin", "in", "the", "upper", "side", "of", "bending", "part", "of", "peduncle", "."], ["It", "was", "found", "that", "the", "amyloplast", "sediments", "toward", "gravity", "direction", "in", "the", "bending", "part", "of", "the", "peduncle", "."], ["From", "the", "present", "results", ",", "any", "direct", "relation", "between", "the", "sedimentable", "amyloplast", "and", "auxin", "transport", "were", "not", "cleared", "in", "the", "peduncle", "of", "water", "hyacinth", "."], ["Further", "study", "should", "be", "carried", "out", "."]], "ner": [[[6, 7, "Multicellular_organism"], [3, 4, "Multicellular_organism"]], [[50, 50, "Plant_hormone"]], [[70, 70, "Plant_hormone"], [78, 79, "Multicellular_organism"]], [[127, 128, "Multicellular_organism"], [145, 145, "Plant_hormone"]], [], [[187, 188, "Biochemical_process"], [196, 197, "Multicellular_organism"]], []], "relations": [[], [], [], [], [], [[187, 188, 196, 197, "is-in"]], []]}
{"doc_key": "PMID15749761_abstract", "dataset": "pickle", "sentences": [["Histone", "acetylation", "is", "modulated", "through", "the", "action", "of", "histone", "acetyltransferases", "and", "deacetylases", ",", "which", "play", "key", "roles", "in", "the", "regulation", "of", "eukaryotic", "gene", "expression", "."], ["Previously", ",", "we", "have", "identified", "a", "yeast", "histone", "deacetylase", "REDUCED", "POTASSIUM", "DEPENDENCY3", "(", "RPD3", ")", "homolog", ",", "HISTONE", "DEACETYLASE19", "(", "HDA19", ")", "(", "AtRPD3A", ")", ",", "in", "Arabidopsis", "thaliana", "."], ["Here", ",", "we", "report", "further", "study", "of", "the", "expression", "and", "function", "of", "HDA19", "."], ["Analysis", "of", "Arabidopsis", "plants", "containing", "the", "HDA19:beta-glucuronidase", "fusion", "gene", "revealed", "that", "HDA19", "was", "expressed", "throughout", "the", "life", "of", "the", "plant", "and", "in", "most", "plant", "organs", "examined", "."], ["In", "addition", ",", "the", "expression", "of", "HDA19", "was", "induced", "by", "wounding", ",", "the", "pathogen", "Alternaria", "brassicicola", ",", "and", "the", "plant", "hormones", "jasmonic", "acid", "and", "ethylene", "."], ["Using", "green", "fluorescent", "protein", "fusion", ",", "we", "demonstrated", "that", "HDA19", "accumulated", "in", "the", "nuclei", "of", "Arabidopsis", "cells", "."], ["Overexpression", "of", "HDA19", "in", "35S", ":", "HDA19", "plants", "decreased", "histone", "acetylation", "levels", ",", "whereas", "downregulation", "of", "HDA19", "in", "HDA19-RNA", "interference", "(", "RNAi", ")", "plants", "increased", "histone", "acetylation", "levels", "."], ["In", "comparison", "with", "wild-type", "plants", ",", "35S", ":", "HDA19", "transgenic", "plants", "had", "increased", "expression", "of", "ETHYLENE", "RESPONSE", "FACTOR1", "and", "were", "more", "resistant", "to", "the", "pathogen", "A.", "brassicicola", "."], ["The", "expression", "of", "jasmonic", "acid", "and", "ethylene", "regulated", "PATHOGENESIS-RELATED", "genes", ",", "Basic", "Chitinase", "and", "beta-1,3-Glucanase", ",", "was", "upregulated", "in", "35S", ":", "HDA19", "plants", "but", "downregulated", "in", "HDA19-RNAi", "plants", "."], ["Our", "studies", "provide", "evidence", "that", "HDA19", "may", "regulate", "gene", "expression", "involved", "in", "jasmonic", "acid", "and", "ethylene", "signaling", "of", "pathogen", "response", "in", "Arabidopsis", "."]], "ner": [[[0, 1, "Biochemical_process"], [8, 11, "Protein"]], [[42, 43, "DNA"], [45, 45, "DNA"], [52, 53, "Multicellular_organism"], [48, 48, "DNA"], [31, 40, "DNA"]], [[67, 67, "DNA"]], [[75, 77, "DNA"], [80, 80, "DNA"], [71, 71, "Multicellular_organism"]], [[102, 102, "DNA"], [110, 111, "Multicellular_organism"], [115, 120, "Plant_hormone"]], [[131, 131, "Protein"], [137, 138, "Cell"]], [[156, 156, "DNA"], [142, 142, "DNA"], [149, 150, "Biochemical_process"], [165, 166, "Biochemical_process"], [144, 147, "Multicellular_organism"], [158, 163, "Multicellular_organism"]], [[184, 186, "DNA"], [194, 195, "Multicellular_organism"], [175, 179, "Multicellular_organism"]], [[208, 209, "DNA"], [211, 211, "DNA"], [216, 219, "Multicellular_organism"], [223, 224, "Multicellular_organism"], [200, 206, "DNA"]], [[231, 231, "DNA"], [247, 247, "Multicellular_organism"], [238, 242, "Biochemical_process"]]], "relations": [[[8, 11, 0, 1, "interacts"]], [[31, 40, 52, 53, "is-in"], [42, 43, 52, 53, "is-in"], [45, 45, 52, 53, "is-in"], [48, 48, 52, 53, "is-in"]], [], [], [[110, 111, 102, 102, "activates"], [115, 120, 102, 102, "activates"]], [[131, 131, 137, 138, "is-in"]], [[142, 142, 144, 147, "is-in"], [142, 142, 149, 150, "inhibits"], [156, 156, 158, 163, "is-in"], [156, 156, 165, 166, "activates"]], [[184, 186, 175, 179, "is-in"], [175, 179, 194, 195, "inhibits"]], [], [[231, 231, 238, 242, "interacts"], [238, 242, 247, 247, "is-in"]]]}
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{"doc_key": "PMID32615387_abstract", "dataset": "pickle", "sentences": [["Hot", "peppers", "are", "sensitive", "to", "low", "temperature", ",", "and", "seed", "browning", "significantly", "reduces", "the", "fruit", "quality", "."], ["This", "study", "aims", "to", "clarify", "the", "mechanisms", "of", "seed", "browning", "in", "terms", "of", "metabolite", "changes", "."], ["Metabolites", "were", "analysed", "during", "a", "30-day-storage", "period", "at", "2", " ", "°", "C", "and", "10", " ", "°", "C", "."], ["Gamma-aminobutyric", "acid", ",", "tyrosine", ",", "phenylalanine", ",", "and", "isoleucine", "concentrations", "were", "significantly", "higher", "at", "2", " ", "°", "C", "storage", "than", "at", "10", " ", "°", "C", "."], ["Reactive", "oxygen", "species", "(", "ROS", ")", "generation", "was", "associated", "with", "seed", "browning", "."], ["Transcription", "of", "jasmonic", "acid", "synthesis", "and", "ROS", "scavenging", "genes", "were", "higher", "in", "hot", "peppers", "stored", "at", "2", " ", "°", "C", "than", "those", "stored", "at", "10", " ", "°", "C", "."], ["This", "study", "elucidated", "the", "mechanisms", "underlying", "seed", "browning", "and", "chill", "damage", "in", "hot", "peppers", "during", "storage", "at", "low", "temperatures", "and", "our", "findings", "may", "help", "improve", "hot", "peppers", "'", "quality", "following", "harvesting", "."]], "ner": [[[0, 1, "Multicellular_organism"]], [], [], [[51, 52, "Organic_compound_other"], [54, 54, "Amino_acid_monomer"], [56, 56, "Amino_acid_monomer"], [59, 59, "Amino_acid_monomer"]], [[77, 83, "Biochemical_process"]], [[102, 103, "Multicellular_organism"], [92, 98, "DNA"]], [[131, 132, "Multicellular_organism"]]], "relations": [[], [], [], [], [], [[92, 98, 102, 103, "is-in"]], []]}
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{"doc_key": "PMID31075950_abstract", "dataset": "pickle", "sentences": [["Histone", "acts", "as", "the", "core", "for", "nucleosomes", "and", "is", "a", "key", "protein", "component", "of", "chromatin", "."], ["Among", "different", "histone", "variants", ",", "histone", "H3", "(", "HH3", ")", "variants", "have", "been", "reported", "to", "play", "vital", "roles", "in", "plant", "development", "."], ["However", ",", "biological", "information", "and", "evolutionary", "relationships", "of", "HH3", "genes", "in", "cotton", "remain", "to", "be", "elucidated", "."], ["The", "current", "study", "identified", "34", "HH3", "genes", "in", "Gossypium", "hirsutum", "."], ["Phylogenetic", "analysis", "classified", "HH3", "genes", "of", "19", "plant", "species", "into", "eight", "distinct", "clades", "."], ["Sequence", "logos", "analysis", "among", "Arabidopsis", ",", "rice", ",", "and", "G.", "hirsutum", "amino", "acid", "residues", "showed", "higher", "conservation", "in", "amino", "acids", "."], ["Using", "collinearity", "analysis", ",", "we", "identified", "81", "orthologous/paralogous", "gene", "pairs", "among", "the", "four", "genomes", "(", "A", ",", "D", ",", "At", ",", "and", "Dt", ")", "of", "cotton", "."], ["Further", ",", "orthologous/paralogous", "and", "the", "Ka/Ks", "ratio", "demonstrated", "that", "cotton", "HH3", "genes", "experienced", "strong", "purifying", "selection", "pressure", "with", "restricted", "functional", "divergence", "resulting", "from", "segmental", "and", "whole", "genome", "duplication", "."], ["Expression", "pattern", "analysis", "indicated", "that", "GhHH3", "genes", "were", "preferentially", "expressed", "in", "cotton", "ovule", "tissues", "."], ["Additionally", ",", "GhHH3", "gene", "expression", "can", "be", "regulated", "by", "abiotic", "stresses", "(", "cold", ",", "heat", ",", "sodium", "chloride", "(", "NaCl", ")", ",", "and", "polyethylene", "glycol", "(", "PEG", ")", ")", "and", "phytohormonal", "(", "brassinolide", "(", "BL", ")", ",", "gibberellic", "acid", "(", "GA", ")", ",", "indole-3-acetic", "acid", "(", "IAA", ")", ",", "salicylic", "acid", "(", "SA", ")", ",", "and", "methyl", "jasmonate", "(", "MeJA", ")", ")", "treatments", ",", "suggesting", "that", "GhHH3", "genes", "might", "play", "roles", "in", "abiotic", "and", "hormone", "stress", "resistance", "."], ["Taken", "together", ",", "this", "work", "provides", "important", "information", "to", "decipher", "complete", "molecular", "and", "physiological", "functions", "of", "HH3", "genes", "in", "cotton", "."]], "ner": [[[0, 0, "Protein"], [14, 14, "Organic_compound_other"], [6, 6, "Organic_compound_other"]], [[18, 19, "Protein"], [21, 26, "Protein"]], [[46, 47, "DNA"], [49, 49, "Multicellular_organism"]], [[60, 61, "DNA"], [63, 64, "Multicellular_organism"]], [[69, 70, "DNA"]], [[84, 93, "Amino_acid_monomer"]], [[126, 126, "Multicellular_organism"], [116, 116, "DNA"], [118, 118, "DNA"], [120, 120, "DNA"], [123, 123, "DNA"]], [[137, 139, "DNA"]], [[162, 163, "DNA"], [168, 170, "Tissue"]], [[188, 189, "Inorganic_compound_other"], [191, 191, "Inorganic_compound_other"], [195, 196, "Organic_compound_other"], [198, 198, "Organic_compound_other"], [204, 204, "Plant_hormone"], [206, 206, "Plant_hormone"], [209, 210, "Plant_hormone"], [212, 212, "Plant_hormone"], [215, 216, "Plant_hormone"], [218, 218, "Plant_hormone"], [221, 222, "Plant_hormone"], [224, 224, "Plant_hormone"], [228, 229, "Plant_hormone"], [231, 231, "Plant_hormone"], [238, 239, "DNA"], [174, 176, "Biochemical_process"]], [[266, 267, "DNA"], [269, 269, "Multicellular_organism"]]], "relations": [[[0, 0, 14, 14, "is-in"], [0, 0, 6, 6, "is-in"]], [], [[46, 47, 49, 49, "is-in"]], [[60, 61, 63, 64, "is-in"]], [], [], [], [], [[162, 163, 168, 170, "is-in"]], [[188, 189, 174, 176, "interacts"], [191, 191, 174, 176, "interacts"], [195, 196, 174, 176, "interacts"], [198, 198, 174, 176, "interacts"], [204, 204, 174, 176, "interacts"], [206, 206, 174, 176, "interacts"], [209, 210, 174, 176, "interacts"], [212, 212, 174, 176, "interacts"], [215, 216, 174, 176, "interacts"], [218, 218, 174, 176, "interacts"], [221, 222, 174, 176, "interacts"], [224, 224, 174, 176, "interacts"], [228, 229, 174, 176, "interacts"], [231, 231, 174, 176, "interacts"]], [[266, 267, 269, 269, "is-in"]]]}
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{"doc_key": "PMID28266527_abstract", "dataset": "pickle", "sentences": [["The", "effects", "of", "ethephon", "as", "a", "sugarcane", "ripener", "are", "attributed", "to", "ethylene", "."], ["However", ",", "the", "role", "of", "this", "phytohormone", "at", "the", "molecular", "level", "is", "unknown", "."], ["We", "performed", "a", "transcriptome", "analysis", "combined", "with", "the", "evaluation", "of", "sucrose", "metabolism", "and", "hormone", "profiling", "of", "sugarcane", "plants", "sprayed", "with", "ethephon", "or", "aminoethoxyvinylglycine", "(", "AVG", ")", ",", "an", "ethylene", "inhibitor", ",", "at", "the", "onset", "of", "ripening", "."], ["The", "differential", "response", "between", "ethephon", "and", "AVG", "on", "sucrose", "level", "and", "sucrose", "synthase", "activity", "in", "internodes", "indicates", "ethylene", "as", "a", "potential", "regulator", "of", "sink", "strength", "."], ["The", "correlation", "between", "hormone", "levels", "and", "transcriptional", "changes", "suggests", "ethylene", "as", "a", "trigger", "of", "multiple", "hormone", "signal", "cascades", ",", "with", "approximately", "18", "%", "of", "differentially", "expressed", "genes", "involved", "in", "hormone", "biosynthesis", ",", "metabolism", ",", "signalling", ",", "and", "response", "."], ["A", "defence", "response", "elicited", "in", "leaves", "favoured", "salicylic", "acid", "over", "the", "ethylene/jasmonic", "acid", "pathway", ",", "while", "the", "upper", "internode", "was", "prone", "to", "respond", "to", "ethylene", "with", "strong", "stimuli", "on", "ethylene", "biosynthesis", "and", "signalling", "genes", "."], ["Besides", ",", "ethylene", "acted", "synergistically", "with", "abscisic", "acid", ",", "another", "ripening", "factor", ",", "and", "antagonistically", "with", "gibberellin", "and", "auxin", "."], ["We", "identified", "potential", "ethylene", "target", "genes", "and", "characterized", "the", "hormonal", "status", "during", "ripening", ",", "providing", "insights", "into", "the", "action", "of", "ethylene", "at", "the", "site", "of", "sucrose", "accumulation", "."], ["A", "molecular", "model", "of", "ethylene", "interplay", "with", "other", "hormones", "is", "proposed", "."]], "ner": [[[3, 3, "Plant_hormone"], [6, 6, "Multicellular_organism"], [11, 11, "Plant_hormone"]], [[19, 19, "Plant_hormone"]], [[37, 38, "Biochemical_process"], [43, 44, "Multicellular_organism"], [47, 47, "Plant_hormone"], [49, 49, "Organic_compound_other"], [51, 51, "Organic_compound_other"], [55, 56, "Organic_compound_other"]], [[68, 68, "Plant_hormone"], [70, 70, "Organic_compound_other"], [72, 72, "Organic_compound_other"], [75, 77, "Biochemical_process"], [81, 81, "Plant_hormone"]], [[99, 99, "Plant_hormone"]], [[136, 137, "Plant_hormone"], [140, 142, "Biochemical_pathway"], [153, 153, "Plant_hormone"], [158, 162, "Organic_compound_other"]], [[166, 166, "Plant_hormone"], [170, 171, "Plant_hormone"], [180, 180, "Plant_hormone"], [182, 182, "Plant_hormone"]], [[187, 189, "DNA"], [204, 204, "Plant_hormone"], [209, 210, "Biochemical_process"]], [[216, 216, "Plant_hormone"]]], "relations": [[], [], [], [[68, 68, 75, 77, "interacts"], [70, 70, 75, 77, "interacts"]], [], [], [[166, 166, 170, 171, "interacts"], [166, 166, 180, 180, "interacts"], [166, 166, 182, 182, "interacts"]], [], []]}
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{"doc_key": "PMID14555690_abstract", "dataset": "pickle", "sentences": [["Plants", "under", "stress", "from", "both", "biotic", "and", "abiotic", "sources", "produce", "increased", "levels", "of", "ethylene", ",", "which", "is", "perceived", "by", "ethylene", "receptors", "and", "triggers", "cellular", "responses", "further", "downstream", "."], ["Protein", "phosphorylation", "and", "dephosphorylation", "were", "implicated", "in", "the", "regulation", "of", "ethylene", "induction", "by", "stresses", "based", "on", "studies", "using", "protein", "kinase", "and", "phosphatase", "inhibitors", "."], ["However", ",", "the", "kinase(s", ")", "involved", "remains", "to", "be", "determined", "."], ["Using", "a", "conditional", "gain-of-function", "transgenic", "system", ",", "we", "demonstrate", "that", "the", "activation", "of", "SIPK", ",", "a", "tobacco", "mitogen-activated", "protein", "kinase", "(", "MAPK", ")", ",", "by", "NtMEK2DD", ",", "an", "active", "mutant", "of", "the", "upstream", "kinase", "of", "SIPK", ",", "resulted", "in", "a", "dramatic", "increase", "in", "ethylene", "production", "."], ["The", "increase", "in", "ethylene", "after", "the", "activation", "of", "SIPK", "coincided", "with", "a", "dramatic", "increase", "in", "1-aminocyclopropane-1-carboxylic", "acid", "(", "ACC", ")", "synthase", "(", "ACS", ")", "activity", ",", "which", "was", "followed", "by", "the", "activation", "of", "a", "subgroup", "of", "ACS", "and", "ACC", "oxidase", "(", "ACO", ")", "genes", ",", "suggesting", "that", "either", "the", "activation", "of", "unidentified", "ACS(s", ")", "or", "post-transcriptional", "regulation", "is", "involved", "."], ["Infection", "with", "Tobacco", "mosaic", "virus", "(", "TMV", ")", ",", "which", "is", "known", "to", "activate", "the", "SIPK", "cascade", "and", "induce", "ethylene", "biosynthesis", ",", "also", "induced", "the", "same", "ACSs", "and", "ACOs", "."], ["After", "ethylene", "production", "in", "NtMEK2DD", "plants", ",", "strong", "activation", "of", "ETHYLENE-RESPONSE", "FACTOR", "(", "ERF", ")", "genes", "was", "observed", ",", "similar", "to", "the", "effect", "in", "NN", "tobacco", "plants", "infected", "with", "TMV", "."], ["In", "contrast", "to", "previous", "reports", ",", "no", "major", "increase", "in", "jasmonic", "acid", "(", "JA", ")", "and", "methyl", "jasmonate", "(", "MJ", ")", "was", "detected", "after", "the", "activation", "of", "SIPK/WIPK", "in", "NtMEK2DD", "transgenic", "plants", "."], ["These", "results", "suggest", "that", "the", "induction", "of", "ethylene", "but", "not", "JA/MJ", "is", "involved", "in", "plant", "defense", "responses", "mediated", "by", "the", "NtMEK2-SIPK/WIPK", "pathway", "."]], "ner": [[[13, 13, "Plant_hormone"], [19, 20, "Protein"]], [[38, 39, "Biochemical_process"], [46, 50, "Organic_compound_other"], [28, 31, "Biochemical_process"]], [[55, 56, "Protein"]], [[106, 107, "Biochemical_process"], [76, 76, "Protein"], [84, 84, "Protein"], [96, 96, "Protein"], [98, 98, "Protein"], [88, 88, "Protein"], [79, 82, "Protein"]], [[112, 112, "Plant_hormone"], [117, 117, "Protein"], [124, 133, "Biochemical_process"], [161, 162, "Protein"], [145, 152, "DNA"]], [[195, 195, "Protein"], [197, 197, "Protein"], [171, 173, "Virus"], [175, 175, "Virus"], [184, 185, "Biochemical_pathway"], [188, 189, "Biochemical_pathway"]], [[200, 201, "Biochemical_process"], [203, 204, "Multicellular_organism"], [223, 225, "Multicellular_organism"], [228, 228, "Virus"], [209, 214, "DNA"]], [[243, 243, "Plant_hormone"], [240, 241, "Plant_hormone"], [246, 247, "Plant_hormone"], [249, 249, "Plant_hormone"], [259, 261, "Multicellular_organism"]], [[270, 270, "Plant_hormone"], [283, 284, "Biochemical_pathway"]]], "relations": [[[19, 20, 13, 13, "interacts"]], [[28, 31, 38, 39, "interacts"]], [], [[88, 88, 76, 76, "activates"], [76, 76, 106, 107, "activates"]], [[117, 117, 112, 112, "activates"], [117, 117, 124, 133, "activates"], [117, 117, 145, 152, "activates"]], [[171, 173, 184, 185, "activates"], [175, 175, 184, 185, "activates"], [171, 173, 188, 189, "activates"], [171, 173, 195, 195, "activates"], [171, 173, 197, 197, "activates"], [175, 175, 188, 189, "activates"], [175, 175, 195, 195, "activates"], [175, 175, 197, 197, "activates"]], [[200, 201, 209, 214, "activates"], [200, 201, 203, 204, "is-in"]], [], [[270, 270, 283, 284, "interacts"]]]}
{"doc_key": "PMID10072406_abstract", "dataset": "pickle", "sentences": [["We", "conducted", "a", "study", "of", "the", "patterns", "and", "dynamics", "of", "oxidized", "fatty", "acid", "derivatives", "(", "oxylipins", ")", "in", "potato", "leaves", "infected", "with", "the", "late-blight", "pathogen", "Phytophthora", "infestans", "."], ["Two", "18-carbon", "divinyl", "ether", "fatty", "acids", ",", "colneleic", "acid", "and", "colnelenic", "acid", ",", "accumulated", "during", "disease", "development", "."], ["To", "date", ",", "there", "are", "no", "reports", "that", "such", "compounds", "have", "been", "detected", "in", "higher", "plants", "."], ["The", "divinyl", "ether", "fatty", "acids", "accumulate", "more", "rapidly", "in", "potato", "cultivar", "Matilda", "(", "a", "cultivar", "with", "increased", "resistance", "to", "late", "blight", ")", "than", "in", "cultivar", "Bintje", ",", "a", "susceptible", "cultivar", "."], ["Colnelenic", "acid", "reached", "levels", "of", "up", "to", "approximately", "24", "nmol", "(", "7", "microgram", ")", "per", "g", "fresh", "weight", "of", "tissue", "in", "infected", "leaves", "."], ["By", "contrast", ",", "levels", "of", "members", "of", "the", "jasmonic", "acid", "family", "did", "not", "change", "significantly", "during", "pathogenesis", "."], ["The", "divinyl", "ethers", "also", "accumulated", "during", "the", "incompatible", "interaction", "of", "tobacco", "with", "tobacco", "mosaic", "virus", "."], ["Colneleic", "and", "colnelenic", "acids", "were", "found", "to", "be", "inhibitory", "to", "P.", "infestans", ",", "suggesting", "a", "function", "in", "plant", "defense", "for", "divinyl", "ethers", ",", "which", "are", "unstable", "compounds", "rarely", "encountered", "in", "biological", "systems", "."]], "ner": [[[10, 13, "Organic_compound_other"], [15, 15, "Organic_compound_other"], [18, 19, "Plant_region"], [25, 26, "Multicellular_organism"], [23, 24, "Multicellular_organism"]], [[29, 33, "Organic_compound_other"], [35, 36, "Organic_compound_other"], [38, 39, "Organic_compound_other"]], [], [[64, 67, "Organic_compound_other"], [72, 72, "Multicellular_organism"], [74, 74, "Multicellular_organism"], [82, 83, "Biochemical_process"], [88, 88, "Multicellular_organism"]], [[94, 95, "Organic_compound_other"]], [[126, 128, "Organic_compound_other"]], [[137, 138, "Organic_compound_other"], [146, 146, "Multicellular_organism"], [148, 150, "Virus"]], [[152, 155, "Organic_compound_other"], [162, 163, "Multicellular_organism"], [172, 173, "Organic_compound_other"]]], "relations": [[[10, 13, 18, 19, "is-in"], [15, 15, 18, 19, "is-in"], [18, 19, 23, 24, "interacts"], [18, 19, 25, 26, "interacts"]], [], [], [[74, 74, 82, 83, "inhibits"], [64, 67, 74, 74, "is-in"], [64, 67, 88, 88, "is-in"]], [], [], [[146, 146, 148, 150, "interacts"], [148, 150, 137, 138, "activates"]], [[152, 155, 162, 163, "inhibits"]]]}
{"doc_key": "PMID26941195_abstract", "dataset": "pickle", "sentences": [["We", "studied", "the", "localization", "of", "6-phosphogluconate", "dehydrogenase", "(", "PGD", ")", "isoforms", "of", "Arabidopsis", "(", "Arabidopsis", "thaliana", ")", "."], ["Similar", "polypeptide", "lengths", "of", "PGD1", ",", "PGD2", ",", "and", "PGD3", "obscured", "which", "isoform", "may", "represent", "the", "cytosolic", "and/or", "plastidic", "enzyme", "plus", "whether", "PGD2", "with", "a", "peroxisomal", "targeting", "motif", "also", "might", "target", "plastids", "."], ["Reporter-fusion", "analyses", "in", "protoplasts", "revealed", "that", ",", "with", "a", "free", "N", "terminus", ",", "PGD1", "and", "PGD3", "accumulate", "in", "the", "cytosol", "and", "chloroplasts", ",", "whereas", "PGD2", "remains", "in", "the", "cytosol", "."], ["Mutagenesis", "of", "a", "conserved", "second", "ATG", "enhanced", "the", "plastidic", "localization", "of", "PGD1", "and", "PGD3", "but", "not", "PGD2", "."], ["Amino-terminal", "deletions", "of", "PGD2", "fusions", "with", "a", "free", "C", "terminus", "resulted", "in", "peroxisomal", "import", "after", "dimerization", ",", "and", "PGD2", "could", "be", "immunodetected", "in", "purified", "peroxisomes", "."], ["Repeated", "selfing", "of", "pgd2", "transfer", "(T-)DNA", "alleles", "yielded", "no", "homozygous", "mutants", ",", "although", "siliques", "and", "seeds", "of", "heterozygous", "plants", "developed", "normally", "."], ["Detailed", "analyses", "of", "the", "C-terminally", "truncated", "PGD2", "-", "1", "protein", "showed", "that", "peroxisomal", "import", "and", "catalytic", "activity", "are", "abolished", "."], ["Reciprocal", "backcrosses", "of", "pgd2", "-", "1", "suggested", "that", "missing", "PGD", "activity", "in", "peroxisomes", "primarily", "affects", "the", "male", "gametophyte", "."], ["Tetrad", "analyses", "in", "the", "quartet1", "-", "2", "background", "revealed", "that", "pgd2", "-", "1", "pollen", "is", "vital", "and", "in", "vitro", "germination", "normal", ",", "but", "pollen", "tube", "growth", "inside", "stylar", "tissues", "appeared", "less", "directed", "."], ["Mutual", "gametophytic", "sterility", "was", "overcome", "by", "complementation", "with", "a", "genomic", "construct", "but", "not", "with", "a", "version", "lacking", "the", "first", "ATG", "."], ["These", "analyses", "showed", "that", "peroxisomal", "PGD2", "activity", "is", "required", "for", "guided", "growth", "of", "the", "male", "gametophytes", "and", "pollen", "tube-ovule", "interaction", "."], ["Our", "report", "finally", "demonstrates", "an", "essential", "role", "of", "oxidative", "pentose-phosphate", "pathway", "reactions", "in", "peroxisomes", ",", "likely", "needed", "to", "sustain", "critical", "levels", "of", "nitric", "oxide", "and/or", "jasmonic", "acid", ",", "whose", "biosynthesis", "both", "depend", "on", "NADPH", "provision", "."]], "ner": [[[5, 10, "Protein"], [12, 12, "Multicellular_organism"], [14, 15, "Multicellular_organism"]], [[22, 22, "Protein"], [24, 24, "Protein"], [27, 27, "Protein"], [40, 40, "Protein"], [43, 45, "Peptide"]], [[75, 75, "Protein"], [66, 66, "Protein"], [64, 64, "Protein"]], [[92, 92, "Protein"], [94, 94, "Protein"], [97, 97, "Protein"], [86, 86, "Peptide"]], [[117, 117, "Protein"], [102, 102, "Protein"]], [[128, 131, "DNA"]], [[151, 156, "Protein"]], [[170, 172, "Multicellular_organism"], [176, 177, "Biochemical_process"]], [[196, 199, "Tissue"], [190, 193, "DNA"]], [[238, 238, "Polynucleotide"]], [[244, 246, "Biochemical_process"]], [[269, 271, "Biochemical_pathway"], [283, 284, "Inorganic_compound_other"], [286, 287, "Plant_hormone"], [294, 294, "Organic_compound_other"]]], "relations": [[[5, 10, 12, 12, "is-in"], [5, 10, 14, 15, "is-in"]], [[43, 45, 40, 40, "is-in"]], [], [], [], [], [], [], [], [], [], [[269, 271, 283, 284, "interacts"], [269, 271, 286, 287, "interacts"], [294, 294, 283, 284, "interacts"], [294, 294, 286, 287, "interacts"]]]}
{"doc_key": "PMID31702837_abstract", "dataset": "pickle", "sentences": [["Redox", "processes", "regulate", "plant/insect", "responses", ",", "but", "the", "precise", "roles", "of", "environmental", "triggers", "and", "specific", "molecular", "components", "remain", "poorly", "defined", "."], ["Aphid", "fecundity", "and", "plant", "responses", "were", "therefore", "measured", "in", "Arabidopsis", "thaliana", "mutants", "deficient", "in", "either", "catalase", "2", "(", "cat2", ")", ",", "different", "protein", "phosphatase", "2A", "(", "PP2A", ")", "subunits", "or", "glutathione", "(", "cad2", ",", "pad2", ",", "and", "clt1", ")", "under", "either", "moderate", "(", "250", "μmol", "m(-2", ")", "s(-1", ")", ")", "or", "high", "(", "800", "μmol", "m(-2", ")", "s(-1", ")", ")", "light", "."], ["Aphid", "fecundity", "was", "decreased", "in", "pp2a-b'γ", ",", "cat2", "and", "the", "cat2", "pp2a-b'γ", "double", "mutants", "relative", "to", "the", "wild", "type", "under", "moderate", "irradiance", "."], ["High", "light", "decreased", "aphid", "numbers", "in", "all", "genotypes", "except", "for", "cat2", "."], ["Aphid", "fecundity", "was", "similar", "in", "the", "cat2", "and", "glutathione-", ",", "phytoalexin-", ",", "and", "glucosinolate-deficient", "cat2cad2", "double", "mutants", "under", "both", "irradiances", "."], ["Aphid-induced", "increases", "in", "transcripts", "encoding", "the", "abscisic", "acid-related", "ARABIDOPSIS", "ZINC-FINGER", "PROTEIN", "1", "transcription", "factor", "were", "observed", "only", "under", "moderate", "light", "."], ["Conversely", ",", "aphid", "induced", "increases", "in", "transcripts", "encoding", "the", "jasmonate-synthesis", "enzyme", "ALLENE", "OXIDE", "CYCLASE", "3", "was", "observed", "in", "all", "genotypes", "only", "under", "high", "light", "."], ["Aphid-induced", "increases", "in", "REDOX", "RESPONSIVE", "TRANSCRIPTION", "FACTOR", "1", "mRNAs", "were", "observed", "in", "all", "genotypes", "except", "pp2a-b'ζ1", "-", "1", "under", "both", "irradiances", "."], ["Aphid", "fecundity", "is", "therefore", "regulated", "by", "cellular", "redox", "signalling", "that", "is", "mediated", ",", "at", "least", "in", "part", ",", "through", "PP2A-dependent", "mitochondria", "to", "nucleus", "signalling", "pathways", "."]], "ner": [[], [[21, 22, "Biochemical_process"], [30, 32, "Multicellular_organism"], [36, 37, "Protein"], [39, 39, "Protein"], [43, 49, "Protein"], [51, 51, "Organic_compound_other"], [53, 53, "Multicellular_organism"], [55, 55, "Multicellular_organism"], [58, 58, "Multicellular_organism"]], [[83, 84, "Biochemical_process"], [88, 88, "Multicellular_organism"], [90, 90, "Multicellular_organism"], [93, 96, "Multicellular_organism"]], [[109, 109, "Multicellular_organism"], [116, 116, "Multicellular_organism"]], [[118, 119, "Biochemical_process"], [124, 134, "Multicellular_organism"]], [[145, 152, "Protein"]], [[162, 162, "Multicellular_organism"], [169, 174, "Protein"]], [[188, 193, "RNA"], [200, 202, "Multicellular_organism"]], [[207, 208, "Biochemical_process"], [226, 231, "Biochemical_pathway"]]], "relations": [[], [], [[88, 88, 83, 84, "inhibits"], [90, 90, 83, 84, "inhibits"], [93, 96, 83, 84, "inhibits"]], [], [], [], [[162, 162, 169, 174, "interacts"]], [], [[226, 231, 207, 208, "interacts"]]]}
{"doc_key": "PMID30272908_abstract", "dataset": "pickle", "sentences": [["The", "features", "of", "the", "formation", "of", "microshoots", "in", "in", "vitro", "culture", "of", "Silene", "cretacea", "—", "endangered", "species", "with", "narrow", "ecological", "amplitude", ",", "which", "is", "a", "promising", "source", "of", "medicinal", "raw", "materials", "—", "were", "studied", "."], ["It", "was", "demonstrated", "that", ",", "at", "the", "micropropagation", "step", ",", "basic", "Woody", "Plant", "Medium", "containing", "vitamins", "according", "to", "Murashige", "and", "Skoog", "and", "supplemented", "with", "0.2", "mg/L", "6-benzylaminopurine", ",", "1.0", "mg/L", "kinetin", ",", "1.0", "mg/L", "gibberellic", "acid", ",", "and", "0.5", "mg/L", "indole-3-acetic", "acid", "is", "the", "most", "effective", "."], ["The", "combination", "and", "concentration", "of", "these", "growth", "regulators", ",", "selected", "using", "mathematical", "combinatorial", "analysis", ",", "activated", "axillary", "buds", "and", "provided", "a", "high", "multiplication", "factor", "(", "9.3", "±", "1.3", "microshoots", "per", "explant", ")", "."], ["Morpho-histological", "analysis", "revealed", "the", "main", "stages", "of", "the", "formation", "of", "microshoots", "and", "proved", "the", "absence", "of", "callus", "formation", "during", "the", "whole", "time", "of", "the", "cultivation", "of", "explants", "."], ["The", "features", "of", "the", "dynamics", "of", "the", "culture", "during", "the", "year", "of", "continuous", "cultivation", "are", "presented", "."]], "ner": [[[12, 13, "Multicellular_organism"]], [[61, 61, "Organic_compound_other"], [65, 65, "Organic_compound_other"], [69, 70, "Plant_hormone"], [75, 76, "Plant_hormone"]], [], [], []], "relations": [[], [], [], [], []]}
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{"doc_key": "PMID29655848_abstract", "dataset": "pickle", "sentences": [["Bisphenol", "A", "(", "BPA", ")", "is", "an", "endocrine", "disruptor", "that", "is", "ubiquitous", "in", "the", "environment", "."], ["Previous", "studies", "have", "focused", "on", "the", "effects", "of", "BPA", "on", "plants", "to", "assess", "the", "ecological", "risk", "of", "BPA", "in", "the", "environment", "."], ["To", "evaluate", "the", "effects", "of", "BPA", "on", "plant", "biological", "characters", "more", "systematically", ",", "we", "investigated", "the", "biological", "characters", "of", "above-ground", "and", "under-ground", "organs", "of", "soybean", "plants", "exposed", "to", "BPA", "."], ["Meanwhile", ",", "the", "mechanisms", "for", "the", "observed", "changes", "were", "also", "analyzed", "from", "the", "view", "of", "hormone", "levels", "and", "photosynthesis", "."], ["The", "results", "showed", "that", "after", "exposure", "to", "0.8", " ", "mg", " ", "L(-1", ")", "BPA", "for", "three", "days", ",", "indole-3-acetic", "acid", "(", "IAA", ")", "and", "gibberellic", "acid", "levels", "in", "roots", "increased", "significantly", ",", "and", "the", "IAA", "level", "increased", "in", "leaves", ",", "so", "the", "character", "indices", "of", "roots", "and", "leaves", "both", "increased", "."], ["The", "IAA", "and", "ethylene", "levels", "in", "stems", "increased", ",", "but", "the", "character", "indices", "of", "stems", "did", "not", "increased", "."], ["With", "higher", "BPA", "concentrations", ",", "especially", "exposure", "to", "17.2", " ", "mg", " ", "L(-1", ")", "BPA", ",", "the", "levels", "of", "IAA", ",", "gibberellic", "acid", ",", "and", "zeatin", "decreased", "(", "except", "for", "the", "increased", "zeatin", "in", "leaves", ")", ",", "and", "abscisic", "acid", "and", "ethylene", "levels", "increased", ";", "thus", ",", "all", "of", "the", "character", "indices", "significantly", "decreased", "."], ["By", "comparing", "the", "changes", "in", "various", "biological", "characters", ",", "we", "found", "that", "leaf", "area", ",", "root", "surface", "area", ",", "and", "root", "length", "changed", "most", "significantly", "."], ["In", "addition", ",", "changes", "in", "photosynthetic", "parameters", "provided", "initial", "causes", "for", "plant", "growth", "changes", ",", "and", "impacted", "biological", "characters", "."], ["The", "changes", "of", "character", "indices", "were", "stronger", "when", "the", "BPA", "exposure", "time", "was", "prolonged", ",", "and", "after", "the", "removal", "of", "BPA", ",", "the", "character", "indices", "showed", "some", "recovery", "."], ["Therefore", ",", "BPA", "exposure", "can", "regulate", "the", "changes", "in", "plant", "characters", "by", "influencing", "hormone", "levels", "and", "photosynthesis", ",", "and", "root", "surface", "area", ",", "root", "length", ",", "and", "leaf", "area", "were", "the", "most", "sensitive", "to", "BPA", "."]], "ner": [[[0, 1, "Organic_compound_other"], [3, 3, "Organic_compound_other"]], [[24, 24, "Organic_compound_other"], [33, 33, "Organic_compound_other"]], [[43, 43, "Organic_compound_other"], [62, 63, "Multicellular_organism"], [66, 66, "Organic_compound_other"]], [], [[101, 101, "Organic_compound_other"], [106, 107, "Plant_hormone"], [109, 109, "Plant_hormone"], [112, 113, "Plant_hormone"], [122, 122, "Plant_hormone"]], [[140, 140, "Plant_hormone"], [142, 142, "Plant_hormone"]], [[160, 160, "Organic_compound_other"], [172, 172, "Organic_compound_other"], [177, 177, "Plant_hormone"], [183, 183, "Plant_hormone"], [190, 190, "Plant_hormone"], [196, 197, "Plant_hormone"], [199, 199, "Plant_hormone"], [179, 180, "Plant_hormone"]], [], [], [[268, 268, "Organic_compound_other"], [279, 279, "Organic_compound_other"]], [[290, 290, "Organic_compound_other"], [322, 322, "Organic_compound_other"]]], "relations": [[], [], [], [], [[101, 101, 106, 107, "activates"], [101, 101, 109, 109, "activates"], [101, 101, 112, 113, "activates"], [101, 101, 122, 122, "activates"]], [], [[172, 172, 177, 177, "inhibits"], [172, 172, 179, 180, "inhibits"], [172, 172, 183, 183, "inhibits"], [172, 172, 190, 190, "activates"], [172, 172, 196, 197, "activates"], [172, 172, 199, 199, "activates"]], [], [], [], []]}