Hugging Face's logo

Datasets:
tner
/
bionlp2004

Tasks:
Token Classification
Modalities:
Text
Sub-tasks:
named-entity-recognition
Languages:
English
Size:
10K - 100K
Libraries:
Datasets
License:
Dataset card Viewer Files Community
Dataset Viewer
Auto-converted to Parquet
Full Screen
tokens
sequence
tags
sequence
[ "Since", "HUVECs", "released", "superoxide", "anions", "in", "response", "to", "TNF", ",", "and", "H2O2", "induces", "VCAM-1", ",", "PDTC", "may", "act", "as", "a", "radical", "scavenger", "." ]
[ 0, 7, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "Although", "ICAM-1", "induction", "was", "unaffected", ",", "inhibitors", "of", "NADPH", "oxidase", "(", "apocynin", ")", "or", "cytochrome", "P-450", "(", "SKF525a", ")", "suppressed", "VCAM-1", "induction", "by", "TNF", ",", "revealing", "that", "several", "radical-generating", "systems", "are", "involved", "in", "its", "regulation", "." ]
[ 0, 3, 0, 0, 0, 0, 0, 0, 3, 4, 0, 0, 0, 0, 3, 4, 0, 0, 0, 0, 3, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "PDTC", ",", "apocynin", ",", "or", "SKF525a", "decreased", "adhesion", "of", "monocytic", "U937", "cells", "to", "TNF-treated", "HUVECs", "(", "by", "75", "%", "at", "100", "mumol/L", "PDTC", ")", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 0, 7, 8, 8, 0, 7, 8, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "Inhibition", "by", "anti-VCAM-1", "monoclonal", "antibody", "1G11", "indicated", "that", "U937", "adhesion", "was", "VCAM-1", "dependent", "and", "suppression", "by", "antioxidants", "was", "due", "to", "reduced", "VCAM-1", "induction", "." ]
[ 0, 0, 3, 4, 4, 3, 0, 0, 7, 0, 0, 3, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 0, 0 ]
[ "(", "ABSTRACT", "TRUNCATED", "AT", "250", "WORDS", ")" ]
[ 0, 0, 0, 0, 0, 0, 0 ]
[ "Displacement", "of", "an", "E-box-binding", "repressor", "by", "basic", "helix-loop-helix", "proteins", ":", "implications", "for", "B-cell", "specificity", "of", "the", "immunoglobulin", "heavy-chain", "enhancer", "." ]
[ 0, 0, 0, 3, 4, 0, 3, 4, 4, 0, 0, 0, 0, 0, 0, 0, 1, 2, 2, 0 ]
[ "The", "activity", "of", "the", "immunoglobulin", "heavy-chain", "(", "IgH", ")", "enhancer", "is", "restricted", "to", "B", "cells", ",", "although", "it", "binds", "both", "B-cell-restricted", "and", "ubiquitous", "transcription", "factors", "." ]
[ 0, 0, 0, 0, 1, 2, 2, 2, 2, 2, 0, 0, 0, 5, 6, 0, 0, 0, 0, 0, 3, 4, 4, 4, 4, 0 ]
[ "Activation", "of", "the", "enhancer", "in", "non-B", "cells", "upon", "overexpression", "of", "the", "basic", "helix-loop-helix", "(", "bHLH", ")", "protein", "E2A", "appears", "to", "be", "mediated", "not", "only", "by", "the", "binding", "of", "E2A", "to", "its", "cognate", "E", "box", "but", "also", "by", "the", "resulting", "displacement", "of", "a", "repressor", "from", "that", "same", "site", "." ]
[ 0, 0, 0, 1, 0, 5, 6, 0, 0, 0, 0, 3, 4, 4, 4, 4, 4, 3, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 0, 0, 0, 1, 2, 0, 0, 0, 0, 0, 0, 0, 0, 3, 0, 0, 0, 0, 0 ]
[ "We", "have", "identified", "a", "``", "two-handed", "''", "zinc", "finger", "protein", ",", "denoted", "ZEB", ",", "the", "DNA-binding", "specificity", "of", "which", "mimics", "that", "of", "the", "cellular", "repressor", "." ]
[ 0, 0, 0, 0, 3, 4, 4, 4, 4, 4, 0, 0, 3, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 4, 0 ]
[ "By", "employing", "a", "derivative", "E", "box", "that", "binds", "ZEB", "but", "not", "E2A", ",", "we", "have", "shown", "that", "the", "repressor", "is", "active", "in", "B", "cells", "and", "the", "IgH", "enhancer", "is", "silenced", "in", "the", "absence", "of", "binding", "competition", "by", "bHLH", "proteins", "." ]
[ 0, 0, 0, 0, 1, 2, 0, 0, 3, 0, 0, 3, 0, 0, 0, 0, 0, 0, 3, 0, 0, 0, 5, 6, 0, 0, 1, 2, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 4, 0 ]
[ "Hence", ",", "we", "propose", "that", "a", "necessary", "prerequisite", "of", "enhancer", "activity", "is", "the", "B-cell-specific", "displacement", "of", "a", "ZEB-like", "repressor", "by", "bHLH", "proteins", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 3, 4, 0, 3, 4, 0 ]
[ "Inhibition", "of", "NF-kappa", "B", "by", "sodium", "salicylate", "and", "aspirin", "[", "see", "comments", "]" ]
[ 0, 0, 3, 4, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "The", "transcription", "factor", "nuclear", "factor-kappa", "B", "(", "NF-kappa", "B", ")", "is", "critical", "for", "the", "inducible", "expression", "of", "multiple", "cellular", "and", "viral", "genes", "involved", "in", "inflammation", "and", "infection", "including", "interleukin-1", "(", "IL-1", ")", ",", "IL-6", ",", "and", "adhesion", "molecules", "." ]
[ 0, 3, 4, 3, 4, 4, 0, 3, 4, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 2, 2, 2, 0, 0, 0, 0, 0, 0, 3, 0, 3, 0, 0, 3, 0, 0, 3, 4, 0 ]
[ "The", "anti-inflammatory", "drugs", "sodium", "salicylate", "and", "aspirin", "inhibited", "the", "activation", "of", "NF-kappa", "B", ",", "which", "further", "explains", "the", "mechanism", "of", "action", "of", "these", "drugs", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 4, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "This", "inhibition", "prevented", "the", "degradation", "of", "the", "NF-kappa", "B", "inhibitor", ",", "I", "kappa", "B", ",", "and", "therefore", "NF-kappa", "B", "was", "retained", "in", "the", "cytosol", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 3, 4, 4, 0, 3, 4, 4, 0, 0, 0, 3, 4, 0, 0, 0, 0, 0, 0 ]
[ "Sodium", "salicylate", "and", "aspirin", "also", "inhibited", "NF-kappa", "B", "-dependent", "transcription", "from", "the", "Ig", "kappa", "enhancer", "and", "the", "human", "immunodeficiency", "virus", "(", "HIV", ")", "long", "terminal", "repeat", "(", "LTR", ")", "in", "transfected", "T", "cells", "." ]
[ 0, 0, 0, 0, 0, 0, 3, 4, 0, 0, 0, 0, 1, 2, 2, 0, 0, 1, 2, 2, 2, 2, 2, 2, 2, 2, 0, 1, 0, 0, 7, 8, 8, 0 ]
[ "Effects", "of", "the", "antisense", "myb", "expression", "on", "hemin-", "and", "erythropoietin-", "induced", "erythroid", "differentiation", "of", "K562", "cells", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 7, 8, 0 ]
[ "In", "order", "to", "elucidate", "the", "role", "of", "c-myb", "gene", "in", "erythroid", "differentiation", "of", "K562", "cell", "induced", "by", "hemin", "(", "Hm", ")", "and", "erythropoietin", "(", "Epo", ")", ",", "we", "constructed", "recombinant", "plasmid", "that", "could", "produce", "antisense", "myb", "RNA", "after", "induction", "with", "dexamethasone", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 1, 2, 0, 0, 0, 0, 7, 8, 0, 0, 3, 0, 3, 0, 0, 3, 0, 3, 0, 0, 0, 0, 1, 2, 0, 0, 0, 9, 10, 10, 0, 0, 0, 0, 0 ]
[ "During", "treatment", "with", "Hm", ",", "K562", "cells", "constitutively", "expressed", "c-myb", "mRNA", ",", "and", "50", "%", "of", "them", "began", "to", "synthesize", "hemoglobin", "(", "Hb", ")", "." ]
[ 0, 0, 0, 3, 0, 7, 8, 0, 0, 9, 10, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 0, 3, 0, 0 ]
[ "Expression", "of", "antisense", "myb", "RNA", "reduced", "the", "amount", "of", "c-myb", "mRNA", ",", "and", "the", "percentage", "of", "Hb-synthesizing", "cells", "was", "decreased", "to", "20", "%", "." ]
[ 0, 0, 9, 10, 10, 0, 0, 0, 0, 9, 10, 0, 0, 0, 0, 0, 7, 8, 0, 0, 0, 0, 0, 0 ]
[ "In", "the", "presence", "of", "Epo", ",", "c-myb", "mRNA", "declined", "and", "20", "%", "of", "K562", "cells", "synthesized", "Hb", "regardless", "of", "antisense", "myb", "RNA", "expression", "." ]
[ 0, 0, 0, 0, 3, 0, 9, 10, 0, 0, 0, 0, 0, 7, 8, 0, 3, 0, 0, 9, 10, 10, 0, 0 ]
[ "It", "is", "suggested", "that", "constitutive", "expression", "of", "c-myb", "mRNA", "is", "necessary", "for", "Hm", "-induced", "differentiation", ",", "and", "that", "a", "decrease", "in", "the", "amount", "of", "c-myb", "mRNA", "induced", "by", "antisense", "myb", "RNA", "expression", "suppresses", "Hm", "-induced", "differentiation", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 9, 10, 0, 0, 0, 3, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 9, 10, 0, 0, 9, 10, 10, 0, 0, 3, 0, 0, 0 ]
[ "The", "amount", "of", "c-myb", "mRNA", "in", "K562", "cells", "was", "reduced", "during", "the", "differentiation", "induced", "by", "Epo", "." ]
[ 0, 0, 0, 9, 10, 0, 7, 8, 0, 0, 0, 0, 0, 0, 0, 3, 0 ]
[ "Expression", "of", "GATA-1", "mRNA", "was", "almost", "constant", "during", "Hm", "-induced", "differentiation", ",", "but", "increased", "during", "Epo", "treatment", "." ]
[ 0, 0, 9, 10, 0, 0, 0, 0, 3, 0, 0, 0, 0, 0, 0, 3, 0, 0 ]
[ "It", "is", "supposed", "that", "the", "mechanism", "of", "Hm", "-induced", "differentiation", "is", "distinguished", "from", "that", "of", "Epo", "-induced", "differentiation", "in", "K562", "cells", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 3, 0, 0, 0, 0, 0, 0, 0, 3, 0, 0, 0, 7, 8, 0 ]
[ "Prenatal", "immune", "challenge", "alters", "the", "hypothalamic-pituitary-adrenocortical", "axis", "in", "adult", "rats", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "We", "investigated", "whether", "non-abortive", "maternal", "infections", "would", "compromise", "fetal", "brain", "development", "and", "alter", "hypothalamic-pituitary-adrenocortical", "(", "HPA", ")", "axis", "functioning", "when", "adult", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "To", "study", "putative", "teratogenic", "effects", "of", "a", "T", "cell-mediated", "immune", "response", "versus", "an", "endotoxic", "challenge", ",", "10-d-pregnant", "rats", "received", "a", "single", "intraperitoneal", "injection", "of", "5", "x", "10", "(", "8", ")", "human", "red", "blood", "cells", "(", "HRBC", ")", "or", "gram-negative", "bacterial", "endotoxin", "(", "Escherichia", "coli", "LPS", ":", "30", "micrograms/kg", ")", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 5, 6, 6, 6, 0, 5, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "The", "adult", "male", "progeny", "(", "3", "mo", "old", ")", "of", "both", "experimental", "groups", "showed", "increased", "basal", "plasma", "corticosterone", "levels", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "In", "addition", ",", "after", "novelty", "stress", "the", "HRBC", "group", ",", "but", "not", "the", "LPS", "group", ",", "showed", "increased", "ACTH", "and", "corticosterone", "levels", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 5, 0, 0, 0, 0, 0, 7, 8, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "Both", "groups", "showed", "substantial", "decreases", "in", "mineralocorticoid", "(", "MR", ")", "and", "glucocorticoid", "receptor", "(", "GR", ")", "levels", "in", "the", "hippocampus", ",", "a", "limbic", "brain", "structure", "critical", "for", "HPA", "axis", "regulation", ",", "whereas", "GR", "concentrations", "in", "the", "hypothalamus", "were", "unchanged", "and", "in", "anterior", "pituitary", "were", "slightly", "increased", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "HRBC", "and", "LPS", "indeed", "stimulated", "the", "maternal", "immune", "system", "as", "revealed", "by", "specific", "anti-HRBC", "antibody", "production", "and", "enhanced", "IL-1", "beta", "mRNA", "expression", "in", "splenocytes", ",", "respectively", "." ]
[ 5, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 4, 0, 0, 0, 0, 0, 0, 0, 0, 5, 0, 0, 0 ]
[ "This", "study", "demonstrates", "that", "a", "T", "cell-mediated", "immune", "response", "as", "well", "as", "an", "endotoxic", "challenge", "during", "pregnancy", "can", "induce", "anomalies", "in", "HPA", "axis", "function", "in", "adulthood", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "Clinically", ",", "it", "may", "be", "postulated", "that", "disturbed", "fetal", "brain", "development", "due", "to", "prenatal", "immune", "challenge", "increases", "the", "vulnerability", "to", "develop", "mental", "illness", "involving", "inadequate", "responses", "to", "stress", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "A", "low", "NM23.H1", "gene", "expression", "identifying", "high", "malignancy", "human", "melanomas", "." ]
[ 0, 0, 1, 2, 0, 0, 0, 0, 0, 0, 0 ]
[ "The", "NM23", "gene", "has", "been", "proposed", "as", "a", "metastasis-suppressor", "gene", ",", "and", "its", "use", "has", "been", "suggested", "as", "prognostic", "factor", "." ]
[ 0, 1, 2, 0, 0, 0, 0, 0, 1, 2, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "NM23", "was", "identified", "in", "a", "system", "of", "murine", "melanoma", "cell", "lines", ",", "in", "which", "an", "inverse", "relationship", "was", "found", "between", "NM23", "expression", "and", "metastatic", "ability", "." ]
[ 3, 0, 0, 0, 0, 0, 0, 7, 8, 8, 8, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 0, 0, 0, 0, 0 ]
[ "In", "a", "human", "malignant", "melanoma", "study", "NM23", "expression", "was", "found", "to", "be", "significantly", "lower", "in", "metastases", "that", "developed", "less", "than", "24", "months", "after", "diagnosis", "of", "the", "primary", "tumours", "." ]
[ 0, 0, 0, 0, 0, 0, 3, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "The", "present", "paper", "studies", "the", "expression", "of", "the", "NM23.H1", "gene", "in", "cell", "lines", "which", "derive", "from", "primary", "or", "metastatic", "human", "malignant", "melanomas", "in", "relation", "to", "staging", ",", "infiltration", "degree", ",", "lymphocytic", "infiltration", ",", "cell", "morphology", ",", "cell", "pigmentation", ",", "karyotype", ",", "and", "disease-free", "survival", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 1, 2, 0, 7, 8, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "The", "level", "of", "mRNA", "expression", "of", "the", "NM23", "gene", "is", "significantly", "lower", "in", "cell", "lines", "that", "derive", "from", "more", "infiltrating", "primary", "melanomas", "than", "in", "cell", "lines", "obtained", "from", "less", "infiltrating", "tumours", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 1, 2, 0, 0, 0, 0, 7, 8, 0, 0, 0, 0, 0, 0, 0, 0, 0, 7, 8, 0, 0, 0, 0, 0, 0 ]
[ "Moreover", ",", "cell", "lines", "derived", "from", "tumours", "of", "patients", "with", "a", "disease-free", "survival", "of", "more", "than", "24", "months", "(", "24-58", "months", ")", "express", "the", "NM23", "gene", "at", "higher", "levels", "than", "cell", "lines", "obtained", "from", "melanomas", "of", "patients", "with", "a", "disease-free", "survival", "of", "less", "than", "24", "months", "(", "6-15", "months", ")", "." ]
[ 0, 0, 7, 8, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 2, 0, 0, 0, 0, 7, 8, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "Activation", "of", "a", "novel", "serine/threonine", "kinase", "that", "phosphorylates", "c-Fos", "upon", "stimulation", "of", "T", "and", "B", "lymphocytes", "via", "antigen", "and", "cytokine", "receptors", "." ]
[ 0, 0, 0, 0, 3, 4, 0, 0, 3, 0, 0, 0, 5, 6, 6, 6, 0, 0, 0, 3, 4, 0 ]
[ "Ligation", "of", "Ag", "receptors", "in", "T", "and", "B", "lymphocytes", "initiates", "signal", "transduction", "cascades", "which", "alter", "the", "expression", "of", "genes", "that", "regulate", "cellular", "proliferation", "and", "differentiation", "." ]
[ 0, 0, 3, 4, 0, 5, 6, 6, 6, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "The", "transmission", "of", "signals", "from", "the", "membrane", "to", "the", "nucleus", "is", "mediated", "principally", "through", "the", "action", "of", "protein", "tyrosine", "and", "serine/threonine", "kinases", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 4, 4, 4, 4, 0 ]
[ "We", "have", "identified", "and", "characterized", "a", "novel", "serine/threonine", "kinase", "that", "phosphorylated", "the", "proto-oncogene", "product", ",", "c-Fos", ",", "and", "is", "termed", "Fos", "kinase", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 3, 4, 0, 0, 0, 3, 4, 0, 3, 0, 0, 0, 0, 3, 4, 0 ]
[ "Fos", "kinase", "was", "rapidly", "activated", "after", "ligation", "of", "the", "CD3", "and", "CD2", "receptors", "in", "Jurkat", "and", "normal", "human", "T", "lymphocytes", "and", "in", "response", "to", "IL-6", "and", "anti-IgM", "in", "the", "human", "B", "cell", "lines", "AF10", "and", "Ramos", ",", "respectively", "." ]
[ 3, 4, 0, 0, 0, 0, 0, 0, 0, 3, 4, 4, 4, 0, 7, 0, 5, 6, 6, 6, 0, 0, 0, 0, 3, 0, 3, 0, 0, 7, 8, 8, 8, 7, 0, 7, 0, 0, 0 ]
[ "The", "phorbol", "ester", ",", "PMA", ",", "was", "also", "a", "potent", "inducer", "of", "Fos", "kinase", "activity", "in", "all", "of", "the", "above", "populations", ",", "suggesting", "that", "PKC", "plays", "a", "role", "in", "the", "regulation", "of", "this", "enzyme", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 4, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 0, 0, 0, 0, 0, 0, 0, 0, 3, 0 ]
[ "Fos", "kinase", "phosphorylates", "c-Fos", "at", "a", "site", "near", "the", "C-terminus", ",", "as", "well", "as", "a", "peptide", "derived", "from", "this", "region", "(", "residues", "359-370", ",", "RKGSSSNEPSSD", ")", ",", "and", "Fos", "peptide", "competitively", "inhibited", "c-Fos", "phosphorylation", "." ]
[ 3, 4, 0, 3, 0, 0, 0, 0, 0, 3, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 4, 0, 3, 0, 0, 0, 0, 0, 0, 0, 3, 0, 0 ]
[ "Fos", "kinase", "was", "shown", "to", "be", "distinct", "from", "other", "identified", "serine/threonine", "kinases", ",", "including", "protein", "kinase", "A", ",", "protein", "kinase", "C", ",", "casein", "kinase", "II", ",", "MAP", "kinases", ",", "p70S6K", "and", "p90RSK", "." ]
[ 3, 4, 0, 0, 0, 0, 0, 0, 0, 0, 3, 4, 0, 0, 3, 4, 4, 0, 3, 4, 4, 0, 3, 4, 4, 0, 3, 4, 0, 3, 0, 3, 0 ]
[ "Fos", "kinase", "was", "purified", "by", "anion", "exchange", "chromatography", "and", "exhibited", "an", "apparent", "M", "(", "r", ")", "=", "65", ",", "000", "and", "isoelectric", "point", "=", "6.1", "." ]
[ 3, 4, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "Fos", "kinase", "may", "play", "a", "role", "in", "transcriptional", "regulation", "through", "its", "capacity", "to", "phosphorylate", "c-Fos", "at", "a", "site", "required", "for", "expression", "of", "the", "transcriptional", "transrepressive", "activity", "of", "this", "molecule", "." ]
[ 3, 4, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "Moreover", ",", "its", "rapid", "activation", "suggests", "it", "may", "have", "a", "wider", "role", "within", "signal", "transduction", "cascades", "in", "lymphocytes", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 5, 0 ]
[ "Antigenic", "specificities", "of", "human", "CD4+", "T-cell", "clones", "recovered", "from", "recurrent", "genital", "herpes", "simplex", "virus", "type", "2", "lesions", "." ]
[ 0, 0, 0, 7, 8, 8, 8, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "Lesions", "resulting", "from", "recurrent", "genital", "herpes", "simplex", "virus", "(", "HSV", ")", "infection", "are", "characterized", "by", "infiltration", "of", "CD4+", "lymphocytes", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 5, 6, 0 ]
[ "We", "have", "investigated", "the", "antigenic", "specificity", "of", "47", "HSV-specific", "CD4+", "T-cell", "clones", "recovered", "from", "the", "HSV-2", "buttock", "and", "thigh", "lesions", "of", "five", "patients", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 7, 8, 8, 8, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "Clones", "with", "proliferative", "responses", "to", "recombinant", "truncated", "glycoprotein", "B", "(", "gB", ")", "or", "gD", "of", "HSV-2", "or", "purified", "natural", "gC", "of", "HSV-2", "comprised", "a", "minority", "of", "the", "total", "number", "of", "HSV-specific", "clones", "isolated", "from", "lesions", "." ]
[ 0, 0, 0, 0, 0, 3, 4, 4, 4, 0, 3, 0, 0, 3, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 7, 8, 0, 0, 0, 0 ]
[ "The", "gC2-", "and", "gD2-specific", "CD4+", "clones", "had", "cytotoxic", "activity", "." ]
[ 0, 7, 8, 8, 8, 8, 0, 0, 0, 0 ]
[ "The", "approximate", "locations", "of", "the", "HSV-2", "genes", "encoding", "HSV-2", "type-specific", "CD4+", "antigens", "have", "been", "determined", "by", "using", "HSV-1", "x", "HSV-2", "intertypic", "recombinant", "virus", "and", "include", "the", "approximate", "map", "regions", "0.30", "to", "0.46", ",", "0.59", "to", "0.67", ",", "0.67", "to", "0.73", ",", "and", "0.82", "to", "1.0", "units", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 4, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "The", "antigenic", "specificity", "of", "an", "HLA", "DQ2-restricted", ",", "HSV-2", "type-specific", "T-cell", "clone", "was", "mapped", "to", "amino", "acids", "425", "to", "444", "of", "VP16", "of", "HSV-2", "by", "sequential", "use", "of", "an", "intertypic", "recombinant", "virus", "containing", "VP16", "of", "HSV-2", "in", "an", "HSV-1", "background", ",", "recombinant", "VP16", "fusion", "proteins", ",", "and", "synthetic", "peptides", "." ]
[ 0, 0, 0, 0, 0, 7, 8, 8, 8, 8, 8, 8, 0, 0, 0, 3, 4, 4, 4, 4, 0, 3, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 0, 0, 0, 0, 0, 0, 0, 3, 4, 4, 4, 0, 0, 0, 0, 0 ]
[ "Each", "of", "the", "remaining", "four", "patients", "also", "yielded", "at", "least", "one", "type-specific", "T-cell", "clone", "reactive", "with", "an", "HSV-2", "epitope", "mapping", "to", "approximately", "0.67", "to", "0.73", "map", "units", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 7, 8, 8, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "The", "antigenic", "specificities", "of", "lesion-derived", "CD4+", "T-cell", "clones", "are", "quite", "diverse", "and", "include", "at", "least", "10", "epitopes", "." ]
[ 0, 0, 0, 0, 7, 8, 8, 8, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "Human", "T-cell", "clones", "reactive", "with", "gC", "and", "VP16", "are", "reported", "here", "for", "the", "first", "time", "." ]
[ 7, 8, 8, 0, 0, 3, 0, 3, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "Marked", "basophilia", "in", "acute", "promyelocytic", "leukaemia", "treated", "with", "all-trans", "retinoic", "acid", ":", "molecular", "analysis", "of", "the", "cell", "origin", "of", "the", "basophils", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 5, 0 ]
[ "We", "report", "a", "patient", "with", "acute", "promyelocytic", "leukaemia", "who", "developed", "marked", "basophilia", "during", "all-trans", "retinoic", "acid", "treatment", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "We", "studied", "genomic", "DNA", "and", "RNA", "extracted", "from", "the", "patient", "'s", "peripheral", "leucocytes", "in", "order", "to", "determine", "the", "origin", "of", "the", "basophils", "." ]
[ 0, 0, 1, 2, 0, 0, 0, 0, 0, 0, 0, 5, 6, 0, 0, 0, 0, 0, 0, 0, 0, 5, 0 ]
[ "The", "RAR", "alpha", "rearranged", "band", "in", "the", "Southern", "blot", "analysis", "and", "a", "chimaeric", "product", "of", "PML-RAR", "alpha", "by", "polymerase", "chain", "reaction", "were", "strongly", "visible", "before", "ATRA", "treatment", ",", "but", "at", "the", "time", "of", "maximal", "basophilia", "both", "of", "them", "were", "markedly", "diminished", "." ]
[ 0, 3, 4, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 4, 0, 3, 4, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "These", "findings", "suggest", "that", "the", "basophils", "which", "appeared", "during", "the", "ATRA", "treatment", "are", "reactive", "in", "nature", "rather", "than", "a", "leukaemic", "clone", "." ]
[ 0, 0, 0, 0, 0, 5, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 7, 8, 0 ]
[ "Activation", "of", "the", "interleukin", "6", "gene", "by", "Mycobacterium", "tuberculosis", "or", "lipopolysaccharide", "is", "mediated", "by", "nuclear", "factors", "NF-IL6", "and", "NF-kappa", "B", "[", "published", "erratum", "appears", "in", "Proc", "Natl", "Acad", "Sci", "U", "S", "A", "1995", "Apr", "11", ";", "92", "(", "8", ")", ":", "3632", "]" ]
[ 0, 0, 0, 1, 2, 2, 0, 0, 0, 0, 0, 0, 0, 0, 3, 4, 4, 0, 3, 4, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "The", "host", "response", "to", "Mycobacterium", "tuberculosis", "includes", "granuloma", "formation", "at", "sites", "of", "infection", "and", "systemic", "symptoms", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "Cytokines", "have", "been", "identified", "by", "immunohistochemistry", "in", "granulomas", "in", "animal", "models", "of", "bacillus", "Calmette-Guerin", "(", "BCG", ")", "infection", "and", "are", "released", "by", "mononuclear", "phagocytes", "upon", "stimulation", "by", "mycobacterial", "proteins", "." ]
[ 3, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 5, 6, 0, 0, 0, 0, 0, 0 ]
[ "In", "this", "regard", ",", "the", "cytokine", "interleukin", "6", "(", "IL-6", ")", "may", "play", "a", "role", "in", "the", "clinical", "manifestations", "and", "pathological", "events", "of", "tuberculosis", "infection", "." ]
[ 0, 0, 0, 0, 0, 3, 3, 4, 0, 3, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "We", "have", "demonstrated", "that", "lipoarabinomannan", "(", "LAM", ")", "from", "the", "mycobacterial", "cell", "wall", ",", "which", "was", "virtually", "devoid", "of", "lipopolysaccharide", "(", "LPS", ")", ",", "stimulated", "mononuclear", "phagocytes", "to", "release", "IL-6", "in", "a", "dose-response", "manner", "." ]
[ 0, 0, 0, 0, 3, 0, 3, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 5, 6, 0, 0, 3, 0, 0, 0, 0, 0 ]
[ "LAM", "and", "LPS", "were", "potent", "inducers", "of", "IL-6", "gene", "expression", "in", "peripheral", "blood", "monocytes", "." ]
[ 3, 0, 0, 0, 0, 0, 0, 1, 2, 0, 0, 5, 6, 6, 0 ]
[ "Both", "LAM", "-and", "LPS-inducible", "IL-6", "promoter", "activity", "was", "localized", "to", "a", "DNA", "fragment", ",", "positions", "-158", "to", "-49", ",", "by", "deletion", "analysis", "and", "chloramphenicol", "acetyltransferase", "assay", "." ]
[ 0, 3, 0, 1, 2, 2, 0, 0, 0, 0, 0, 1, 2, 0, 0, 1, 2, 2, 0, 0, 0, 0, 0, 3, 4, 0, 0 ]
[ "Two", "nuclear", "factor", "NF-IL6", "(", "positions", "-153", "to", "-145", "and", "-83", "to", "-75", ")", "and", "one", "nuclear", "factor", "NF-kappa", "B", "(", "positions", "-72", "to", "-63", ")", "motifs", "are", "present", "within", "this", "fragment", "." ]
[ 0, 3, 4, 4, 0, 0, 1, 2, 2, 0, 0, 0, 0, 0, 0, 0, 1, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 0, 0, 0, 0, 0, 0 ]
[ "Site-directed", "mutagenesis", "of", "one", "or", "more", "of", "these", "motifs", "within", "the", "IL-6", "promoter", "demonstrated", "that", "each", "has", "positive", "regulatory", "activity", "and", "that", "they", "could", "act", "in", "a", "function-", "and", "orientation-independent", "manner", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "Deletion", "of", "all", "three", "elements", "abolished", "inducibility", "of", "IL-6", "promoter", "activity", "by", "both", "LAM", "and", "LPS", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 1, 2, 0, 0, 0, 3, 0, 0, 0 ]
[ "We", "conclude", "that", "the", "NF-IL6", "and", "NF-kappa", "B", "sites", "mediate", "IL-6", "induction", "in", "response", "to", "both", "LPS", "and", "LAM", ",", "acting", "as", "bacterial", "or", "mycobacterial", "response", "elements", "." ]
[ 0, 0, 0, 0, 1, 2, 2, 2, 2, 0, 3, 0, 0, 0, 0, 0, 0, 0, 3, 0, 0, 0, 1, 2, 2, 2, 2, 0 ]
[ "Regulation", "of", "CD14", "expression", "during", "monocytic", "differentiation", "induced", "with", "1", "alpha", ",", "25-dihydroxyvitamin", "D3", "." ]
[ 0, 0, 3, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "CD14", ",", "a", "monocyte/macrophage", "receptor", "for", "the", "complex", "of", "LPS", "and", "LPS", "binding", "protein", ",", "is", "a", "differentiation", "marker", "for", "the", "monocyte/macrophage", "lineage", "." ]
[ 3, 0, 0, 3, 4, 0, 0, 0, 0, 0, 0, 3, 4, 4, 0, 0, 0, 0, 0, 0, 0, 5, 6, 0 ]
[ "We", "have", "analyzed", "the", "regulation", "of", "CD14", "expression", "during", "1", "alpha", ",", "25-dihydroxyvitamin", "D3", "(", "VitD3", ")", "-induced", "monocytic", "differentiation", "." ]
[ 0, 0, 0, 0, 0, 0, 3, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "Using", "FACS", ",", "Northern", "blotting", ",", "and", "nuclear", "run-on", "analyses", ",", "we", "demonstrate", "that", "the", "up-regulation", "of", "CD14", "expression", "during", "monocytic", "cell", "maturation", "is", "regulated", "mainly", "at", "the", "level", "of", "gene", "transcription", ",", "and", "that", "new", "protein", "synthesis", "is", "required", "for", "CD14", "induction", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 0, 0 ]
[ "We", "have", "recently", "cloned", "the", "CD14", "5", "'", "upstream", "sequence", "and", "demonstrated", "its", "tissue-specific", "promoter", "activity", "." ]
[ 0, 0, 0, 0, 0, 1, 2, 2, 2, 2, 0, 0, 0, 1, 2, 0, 0 ]
[ "Using", "stable", "transfection", "of", "the", "monocytoid", "U937", "cell", "line", "with", "a", "series", "of", "deletion", "mutants", "of", "the", "CD14", "5", "'", "upstream", "sequence", "coupled", "to", "a", "reporter", "gene", "construct", ",", "we", "show", "that", "bp", "-128", "to", "-70", "is", "the", "critical", "region", "for", "the", "induction", "of", "CD14", "expression", "." ]
[ 0, 0, 0, 0, 0, 7, 8, 8, 8, 0, 0, 0, 0, 0, 0, 0, 0, 1, 2, 2, 2, 2, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 2, 2, 2, 0, 0, 0, 0, 0, 0, 0, 0, 3, 0, 0 ]
[ "This", "region", "contains", "two", "binding", "sites", "for", "the", "Sp1", "transcription", "factor", "." ]
[ 0, 0, 0, 0, 1, 2, 0, 0, 3, 4, 4, 0 ]
[ "A", "3-bp", "mutation", "at", "the", "distal", "Sp1-binding", "site", "not", "only", "eliminates", "Sp1", "interaction", ",", "but", "also", "abolishes", "most", "of", "the", "VitD3", "induction", "of", "CD14", "expression", "." ]
[ 0, 0, 0, 0, 0, 0, 1, 2, 0, 0, 0, 3, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 0, 0 ]
[ "Electrophoretic", "mobility", "shift", "analysis", "does", "not", "detect", "a", "direct", "interaction", "of", "the", "CD14", "distal", "Sp1-binding", "site", "with", "the", "vitamin", "D3", "receptor", "and", "its", "partner", ",", "the", "retinoid", "X", "receptor", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 0, 1, 2, 0, 0, 3, 4, 4, 0, 0, 0, 0, 0, 3, 4, 4, 0 ]
[ "These", "data", "demonstrate", "that", "VitD3", "induces", "CD14", "indirectly", "through", "some", "intermediary", "factor", ",", "and", "suggest", "a", "critical", "role", "for", "Sp1", "in", "this", "process", "." ]
[ 0, 0, 0, 0, 0, 0, 3, 0, 0, 0, 3, 4, 0, 0, 0, 0, 0, 0, 0, 3, 0, 0, 0, 0 ]
[ "DNA-binding", "and", "transcriptional", "regulatory", "properties", "of", "hepatic", "leukemia", "factor", "(", "HLF", ")", "and", "the", "t", "(", "17", ";", "19", ")", "acute", "lymphoblastic", "leukemia", "chimera", "E2A-HLF", "." ]
[ 0, 0, 0, 0, 0, 0, 3, 4, 4, 0, 3, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 4, 4, 4, 4, 0 ]
[ "The", "t", "(", "17", ";", "19", ")", "translocation", "in", "acute", "lymphoblastic", "leukemias", "results", "in", "creation", "of", "E2A-hepatic", "leukemia", "factor", "(", "HLF", ")", "chimeric", "proteins", "that", "contain", "the", "DNA-binding", "and", "protein", "dimerization", "domains", "of", "the", "basic", "leucine", "zipper", "(", "bZIP", ")", "protein", "HLF", "fused", "to", "a", "portion", "of", "E2A", "proteins", "with", "transcriptional", "activation", "properties", "." ]
[ 0, 1, 2, 2, 2, 2, 2, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 4, 4, 0, 3, 0, 3, 4, 0, 0, 0, 3, 4, 4, 4, 4, 0, 0, 3, 4, 4, 4, 4, 4, 4, 3, 0, 0, 0, 0, 0, 3, 4, 0, 0, 0, 0, 0 ]
[ "An", "in", "vitro", "binding", "site", "selection", "procedure", "was", "used", "to", "determine", "DNA", "sequences", "preferentially", "bound", "by", "wild-type", "HLF", "and", "chimeric", "E2A-HLF", "proteins", "isolated", "from", "various", "t", "(", "17", ";", "19", ")", "-bearing", "leukemias", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 4, 0, 3, 4, 0, 0, 0, 0, 7, 8, 8, 8, 8, 8, 8, 8, 0 ]
[ "All", "were", "found", "to", "selectively", "bind", "the", "consensus", "sequence", "5'-GTTACGTAAT-3", "'", "with", "high", "affinity", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 1, 2, 0, 0, 0, 0, 0, 0 ]
[ "Wild-type", "and", "chimeric", "HLF", "proteins", "also", "bound", "closely", "related", "sites", "identified", "previously", "for", "bZIP", "proteins", "of", "both", "the", "proline", "-and", "acidic", "amino", "acid-rich", "(", "PAR", ")", "and", "C/EBP", "subfamilies", ";", "however", ",", "E2A-HLF", "proteins", "were", "significantly", "less", "tolerant", "of", "certain", "deviations", "from", "the", "HLF", "consensus", "binding", "site", "." ]
[ 0, 0, 3, 4, 4, 0, 0, 0, 0, 0, 0, 0, 0, 3, 4, 0, 0, 0, 3, 0, 0, 0, 0, 0, 3, 0, 0, 3, 4, 0, 0, 0, 3, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 2, 2, 2, 0 ]
[ "These", "differences", "were", "directly", "attributable", "to", "loss", "of", "an", "HLF", "ancillary", "DNA-binding", "domain", "in", "all", "E2A-HLF", "chimeras", "and", "were", "further", "exacerbated", "by", "a", "zipper", "mutation", "in", "one", "isolate", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 2, 2, 2, 0, 0, 3, 4, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "Both", "wild-type", "and", "chimeric", "HLF", "proteins", "displayed", "transcriptional", "activator", "properties", "in", "lymphoid", "and", "nonlymphoid", "cells", "on", "reporter", "genes", "containing", "HLF", "or", "C/EBP", "consensus", "binding", "sites", "." ]
[ 0, 3, 0, 3, 4, 4, 0, 3, 4, 0, 0, 5, 6, 6, 6, 0, 1, 2, 0, 1, 2, 2, 2, 2, 2, 0 ]
[ "But", "on", "reporter", "genes", "with", "nonoptimal", "binding", "sites", ",", "their", "transcriptional", "properties", "diverged", "and", "E2A-HLF", "competitively", "inhibited", "activation", "by", "wild-type", "PAR", "proteins", "." ]
[ 0, 0, 1, 2, 0, 1, 2, 2, 0, 0, 0, 0, 0, 0, 3, 0, 0, 0, 0, 3, 4, 4, 0 ]
[ "These", "findings", "establish", "a", "spectrum", "of", "binding", "site-specific", "transcriptional", "properties", "for", "E2A-HLF", "which", "may", "preferentially", "activate", "expression", "of", "select", "subordinate", "genes", "as", "a", "homodimer", "and", "potentially", "antagonize", "expression", "of", "others", "through", "heteromeric", "interactions", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "ZAP-70", "tyrosine", "kinase", ",", "CD45", ",", "and", "T", "cell", "receptor", "involvement", "in", "UV-", "and", "H2O2-induced", "T", "cell", "signal", "transduction", "." ]
[ 3, 4, 4, 0, 3, 0, 0, 3, 4, 4, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "Several", "mammalian", "responses", "to", "UV", "irradiation", ",", "including", "the", "activation", "of", "NF-kappa", "B", ",", "are", "believed", "to", "involve", "tyrosine", "phosphorylation", "." ]
[ 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 4, 0, 0, 0, 0, 0, 0, 0, 0 ]
[ "UV", "irradiation", "and", "H2O2", "treatment", "of", "T", "lymphocytes", "induce", "protein", "tyrosine", "phosphorylation", "and", "Ca2+", "signals", "similar", "to", "those", "observed", "following", "biological", "stimulation", "." ]
[ 0, 0, 0, 0, 0, 0, 5, 6, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0 ]
End of preview. Expand in Dataset Viewer.

Dataset Card for "tner/bionlp2004"

Dataset Summary

BioNLP2004 NER dataset formatted in a part of TNER project. BioNLP2004 dataset contains training and test only, so we randomly sample a half size of test instances from the training set to create validation set.

  • Entity Types: DNA, protein, cell_type, cell_line, RNA

Dataset Structure

Data Instances

An example of train looks as follows.

{
    'tags': [0, 0, 0, 0, 3, 0, 9, 10, 0, 0, 0, 0, 0, 7, 8, 0, 3, 0, 0, 9, 10, 10, 0, 0],
    'tokens': ['In', 'the', 'presence', 'of', 'Epo', ',', 'c-myb', 'mRNA', 'declined', 'and', '20', '%', 'of', 'K562', 'cells', 'synthesized', 'Hb', 'regardless', 'of', 'antisense', 'myb', 'RNA', 'expression', '.']
}

Label ID

The label2id dictionary can be found at here.

{
    "O": 0,
    "B-DNA": 1,
    "I-DNA": 2,
    "B-protein": 3,
    "I-protein": 4,
    "B-cell_type": 5,
    "I-cell_type": 6,
    "B-cell_line": 7,
    "I-cell_line": 8,
    "B-RNA": 9,
    "I-RNA": 10
}

Data Splits

name train validation test
bionlp2004 16619 1927 3856

Citation Information 

@inproceedings{collier-kim-2004-introduction,
    title = "Introduction to the Bio-entity Recognition Task at {JNLPBA}",
    author = "Collier, Nigel  and
      Kim, Jin-Dong",
    booktitle = "Proceedings of the International Joint Workshop on Natural Language Processing in Biomedicine and its Applications ({NLPBA}/{B}io{NLP})",
    month = aug # " 28th and 29th",
    year = "2004",
    address = "Geneva, Switzerland",
    publisher = "COLING",
    url = "https://aclanthology.org/W04-1213",
    pages = "73--78",
}
Downloads last month
204
Repository:
T-NER
Paper:
aclanthology.org
Dataset:
BioNLP2004
Domain:
Biochemical
Number of Entity:
5
Size of downloaded dataset files:
7.76 MB
Size of the auto-converted Parquet files:
1.87 MB
Number of rows:
22,402

Models trained or fine-tuned on tner/bionlp2004