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@@95229799480
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[ { "id": "@@35534398015_text", "type": "sentence", "text": [ "The latter was determined as follows : Type I-solid tumor tissue without significant peripheral isolated tumor cells ; Type II-solid tumor tissue associated with peripheral isolated tumor cells ; Type III-isolated tumor cells only ." ], "offsets": [ [ 0, 232 ] ] } ]
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[ { "id": "@@81921407630_text", "type": "sentence", "text": [ "The participants were homosexual men in hepatitis B vaccine trials in Amsterdam ( n = 74 ) , New York City ( n = 120 ) , and San Francisco ( n = 168 ) ." ], "offsets": [ [ 0, 152 ] ] } ]
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@@34659574164
@@34659574164
[ { "id": "@@34659574164_text", "type": "sentence", "text": [ "Mean fluorosis scores , however , were similar ." ], "offsets": [ [ 0, 48 ] ] } ]
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@@66720946434
@@66720946434
[ { "id": "@@66720946434_text", "type": "sentence", "text": [ "The subgroup innervating the medial rectus lies exclusively along the medial face of the oculomotor nucleus , with no aberrant neurons in the medial longitudinal fasciculus , as have been found in other mammals ." ], "offsets": [ [ 0, 212 ] ] } ]
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@@256282577
@@256282577
[ { "id": "@@256282577_text", "type": "sentence", "text": [ "Responsiveness to beta-2 agonist therapy was retained with both agents ( p less than 0 . 05 ) ." ], "offsets": [ [ 0, 95 ] ] } ]
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@@97510612083
@@97510612083
[ { "id": "@@97510612083_text", "type": "sentence", "text": [ "POU-domain proteins , such as the pituitary-specific factor Pit-1 , are members of the homeodomain family of proteins which are important in development and homeostasis , acting constitutively or in response to signal-transduction pathways to either repress or activate the expression of specific genes ." ], "offsets": [ [ 0, 304 ] ] } ]
[ { "id": "@@97510612083_1", "type": "NEWGENE", "text": [ "factor Pit-1" ], "offsets": [ [ 53, 65 ] ], "normalized": [] }, { "id": "@@97510612083_2", "type": "NEWGENE", "text": [ "POU-domain" ], "offsets": [ [ 0, 10 ] ], "normalized": [] }, { "id": "@@97510612083_3", "type": "NEWGENE", "text": [ "Pit-1" ], "offsets": [ [ 60, 65 ] ], "normalized": [] }, { "id": "@@97510612083_4", "type": "NEWGENE", "text": [ "homeodomain" ], "offsets": [ [ 87, 98 ] ], "normalized": [] } ]
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@@20832534005
@@20832534005
[ { "id": "@@20832534005_text", "type": "sentence", "text": [ "The TCF-1 alpha binding site was also required for TCR alpha enhancer activity in transcriptionally active extracts from Jurkat but not HeLa cells , confirming that TCF-1 alpha is a T-cell-specific transcription factor ." ], "offsets": [ [ 0, 220 ] ] } ]
[ { "id": "@@20832534005_1", "type": "NEWGENE", "text": [ "TCR alpha" ], "offsets": [ [ 51, 60 ] ], "normalized": [] }, { "id": "@@20832534005_2", "type": "NEWGENE", "text": [ "TCF-1 alpha" ], "offsets": [ [ 4, 15 ] ], "normalized": [] }, { "id": "@@20832534005_3", "type": "NEWGENE", "text": [ "TCF-1 alpha" ], "offsets": [ [ 4, 15 ] ], "normalized": [] } ]
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@@78621684043
@@78621684043
[ { "id": "@@78621684043_text", "type": "sentence", "text": [ "The interleukin 2 receptor alpha-chain ( IL-2R alpha ) gene is rapidly and potently induced in T cells in response to mitogenic stimuli ." ], "offsets": [ [ 0, 137 ] ] } ]
[ { "id": "@@78621684043_1", "type": "NEWGENE", "text": [ "interleukin 2 receptor alpha-chain ( IL-2R alpha )" ], "offsets": [ [ 4, 54 ] ], "normalized": [] }, { "id": "@@78621684043_2", "type": "NEWGENE", "text": [ "( IL-2R alpha ) gene" ], "offsets": [ [ 39, 59 ] ], "normalized": [] }, { "id": "@@78621684043_3", "type": "NEWGENE", "text": [ "interleukin 2 receptor alpha-chain ( IL-2R alpha ) gene" ], "offsets": [ [ 4, 59 ] ], "normalized": [] } ]
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@@1498992114
@@1498992114
[ { "id": "@@1498992114_text", "type": "sentence", "text": [ "Prediction of the times of sandfly development ." ], "offsets": [ [ 0, 48 ] ] } ]
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@@569019721
@@569019721
[ { "id": "@@569019721_text", "type": "sentence", "text": [ "A mixture of human albumin 5% and hydroxy-ethyl-starch was used as a solution for dilution ." ], "offsets": [ [ 0, 92 ] ] } ]
[ { "id": "@@569019721_1", "type": "NEWGENE", "text": [ "albumin" ], "offsets": [ [ 19, 26 ] ], "normalized": [] } ]
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@@16797492387
@@16797492387
[ { "id": "@@16797492387_text", "type": "sentence", "text": [ "The localization of this proteoglycan locus in the human genome and the availability of new RFLPs provide the tools for future studies of human diseases where the HSPG2 proteoglycan gene is suspected to be involved ." ], "offsets": [ [ 0, 216 ] ] } ]
[ { "id": "@@16797492387_1", "type": "NEWGENE", "text": [ "HSPG2 proteoglycan" ], "offsets": [ [ 163, 181 ] ], "normalized": [] }, { "id": "@@16797492387_2", "type": "NEWGENE", "text": [ "HSPG2" ], "offsets": [ [ 163, 168 ] ], "normalized": [] } ]
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@@105710474169
@@105710474169
[ { "id": "@@105710474169_text", "type": "sentence", "text": [ "Several 7SL RNA-encoding sequences and various intergenic spacers were amplified from the individual HindIII fragments of about 1 . 3 and 2 . 8 kb ." ], "offsets": [ [ 0, 148 ] ] } ]
[ { "id": "@@105710474169_1", "type": "NEWGENE", "text": [ "HindIII" ], "offsets": [ [ 101, 108 ] ], "normalized": [] } ]
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@@97120378481
@@97120378481
[ { "id": "@@97120378481_text", "type": "sentence", "text": [ "Tctex-1 binding required the first 19 amino acids of Fyn and integrity of two lysine residues within this sequence that were previously shown to be important for Fyn interactions with the immunoreceptor tyrosine-based activation motifs ( ITAMs ) of lymphocyte Ag receptors ." ], "offsets": [ [ 0, 274 ] ] } ]
[ { "id": "@@97120378481_1", "type": "NEWGENE", "text": [ "immunoreceptor tyrosine-based activation motifs ( ITAMs )" ], "offsets": [ [ 188, 245 ] ], "normalized": [] } ]
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@@58590165777
@@58590165777
[ { "id": "@@58590165777_text", "type": "sentence", "text": [ "Hydroxypropyl methacrylate , a new water-miscible embedding medium for electron microscopy ." ], "offsets": [ [ 0, 92 ] ] } ]
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@@10215485157
@@10215485157
[ { "id": "@@10215485157_text", "type": "sentence", "text": [ "Significant correlations between mental status as measured by the Mini-Mental State Examination and NA / mI , mI / Cr and NA were found ." ], "offsets": [ [ 0, 137 ] ] } ]
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@@118652181755
@@118652181755
[ { "id": "@@118652181755_text", "type": "sentence", "text": [ "Treatment for this condition often involves use of a wax softening or dispersing agent ( cerumenolytic ) before syringing ." ], "offsets": [ [ 0, 123 ] ] } ]
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@@78755957873
@@78755957873
[ { "id": "@@78755957873_text", "type": "sentence", "text": [ "Like humans , the PITSLRE PK genes in chickens must be closely linked , based on fluorescent in situ hybridization ( FISH ) localization of these genes to a single chicken microchromosome ." ], "offsets": [ [ 0, 189 ] ] } ]
[ { "id": "@@78755957873_1", "type": "NEWGENE", "text": [ "PITSLRE PK genes" ], "offsets": [ [ 18, 34 ] ], "normalized": [] }, { "id": "@@78755957873_2", "type": "NEWGENE", "text": [ "PITSLRE PK" ], "offsets": [ [ 18, 28 ] ], "normalized": [] } ]
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@@80373386468
@@80373386468
[ { "id": "@@80373386468_text", "type": "sentence", "text": [ "PURPOSE : To evaluate the kinetics of erythropoietin ( EPO ) production and address the pathogenesis of anemia of prematurity , we measured EPO levels in infants during the first year of life ." ], "offsets": [ [ 0, 193 ] ] } ]
[ { "id": "@@80373386468_1", "type": "NEWGENE", "text": [ "erythropoietin ( EPO ) production" ], "offsets": [ [ 38, 71 ] ], "normalized": [] }, { "id": "@@80373386468_2", "type": "NEWGENE", "text": [ "erythropoietin ( EPO )" ], "offsets": [ [ 38, 60 ] ], "normalized": [] } ]
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@@85366947477
@@85366947477
[ { "id": "@@85366947477_text", "type": "sentence", "text": [ "Protein kinases play pivotal roles in the control of many cellular processes ." ], "offsets": [ [ 0, 78 ] ] } ]
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@@97105997134
@@97105997134
[ { "id": "@@97105997134_text", "type": "sentence", "text": [ "In the former cells , ets-2 was a CSF-1 immediate-early response gene , and phosphorylated ets-2 was detected after 2 to 4 h , coincident with expression of ets-2 protein ." ], "offsets": [ [ 0, 172 ] ] } ]
[ { "id": "@@97105997134_1", "type": "NEWGENE", "text": [ "ets-2" ], "offsets": [ [ 22, 27 ] ], "normalized": [] }, { "id": "@@97105997134_2", "type": "NEWGENE", "text": [ "ets-2" ], "offsets": [ [ 22, 27 ] ], "normalized": [] }, { "id": "@@97105997134_3", "type": "NEWGENE", "text": [ "ets-2" ], "offsets": [ [ 22, 27 ] ], "normalized": [] }, { "id": "@@97105997134_4", "type": "NEWGENE", "text": [ "CSF-1 immediate-early response gene" ], "offsets": [ [ 34, 69 ] ], "normalized": [] } ]
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@@97353717382
@@97353717382
[ { "id": "@@97353717382_text", "type": "sentence", "text": [ "In particular , unc-86 encodes a POU-type homeodomain protein needed for the production of the touch cells , while mec-3 encodes a LIM-type homeodomain protein needed for the differentiation of the touch cells ." ], "offsets": [ [ 0, 211 ] ] } ]
[ { "id": "@@97353717382_1", "type": "NEWGENE", "text": [ "homeodomain protein" ], "offsets": [ [ 42, 61 ] ], "normalized": [] }, { "id": "@@97353717382_2", "type": "NEWGENE", "text": [ "LIM-type homeodomain" ], "offsets": [ [ 131, 151 ] ], "normalized": [] }, { "id": "@@97353717382_3", "type": "NEWGENE", "text": [ "POU-type homeodomain" ], "offsets": [ [ 33, 53 ] ], "normalized": [] }, { "id": "@@97353717382_4", "type": "NEWGENE", "text": [ "homeodomain protein" ], "offsets": [ [ 42, 61 ] ], "normalized": [] } ]
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@@18759224532
@@18759224532
[ { "id": "@@18759224532_text", "type": "sentence", "text": [ "Mutation analysis implicated multiple segments of the 5' untranslated region as contributing to the inhibitory effect ." ], "offsets": [ [ 0, 119 ] ] } ]
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@@44458744972
@@44458744972
[ { "id": "@@44458744972_text", "type": "sentence", "text": [ "Pathology of neuritis caudae equinae in the horse ." ], "offsets": [ [ 0, 51 ] ] } ]
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@@36873134353
@@36873134353
[ { "id": "@@36873134353_text", "type": "sentence", "text": [ "Two new glucosidase inhibitors ( BAY m 1099 and BAY o 1248 ) were studied in volunteers and type II diabetics under various conditions ." ], "offsets": [ [ 0, 136 ] ] } ]
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@@78363903740
@@78363903740
[ { "id": "@@78363903740_text", "type": "sentence", "text": [ "The characteristics of the VirD1 / VirD2-mediated cleavage reaction strongly resemble those observed with relaxosomes of IncP plasmids involved in initiation of transfer DNA replication during bacterial conjugation ." ], "offsets": [ [ 0, 216 ] ] } ]
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@@13212805494
@@13212805494
[ { "id": "@@13212805494_text", "type": "sentence", "text": [ "To define the number and nature of the E6 and E7 gene products expressed in BPV-1-transformed cells , we performed immunoprecipitation experiments with antisera raised to bacterially expressed BPV-1 E6 and E7 fusion proteins ." ], "offsets": [ [ 0, 226 ] ] } ]
[ { "id": "@@13212805494_1", "type": "NEWGENE", "text": [ "E7" ], "offsets": [ [ 46, 48 ] ], "normalized": [] }, { "id": "@@13212805494_2", "type": "NEWGENE", "text": [ "E7 fusion" ], "offsets": [ [ 206, 215 ] ], "normalized": [] }, { "id": "@@13212805494_3", "type": "NEWGENE", "text": [ "E6" ], "offsets": [ [ 39, 41 ] ], "normalized": [] }, { "id": "@@13212805494_4", "type": "NEWGENE", "text": [ "E7" ], "offsets": [ [ 46, 48 ] ], "normalized": [] }, { "id": "@@13212805494_5", "type": "NEWGENE", "text": [ "E6" ], "offsets": [ [ 39, 41 ] ], "normalized": [] }, { "id": "@@13212805494_6", "type": "NEWGENE", "text": [ "E7 gene products" ], "offsets": [ [ 46, 62 ] ], "normalized": [] } ]
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@@93252737985
@@93252737985
[ { "id": "@@93252737985_text", "type": "sentence", "text": [ "These results suggest that UBP41 may play an important role in the recycling of ubiquitin by hydrolysis of branched poly-ubiquitin chains generated by the action of 26 S proteasome on poly-ubiquitinated protein substrates , as well as in the production of free ubiquitin from linear poly-ubiquitin chains and of certain ribosomal proteins from ubiquitin fusion proteins ." ], "offsets": [ [ 0, 371 ] ] } ]
[ { "id": "@@93252737985_1", "type": "NEWGENE", "text": [ "poly-ubiquitin chains" ], "offsets": [ [ 116, 137 ] ], "normalized": [] }, { "id": "@@93252737985_2", "type": "NEWGENE", "text": [ "ubiquitin fusion" ], "offsets": [ [ 344, 360 ] ], "normalized": [] }, { "id": "@@93252737985_3", "type": "NEWGENE", "text": [ "ubiquitin" ], "offsets": [ [ 80, 89 ] ], "normalized": [] }, { "id": "@@93252737985_4", "type": "NEWGENE", "text": [ "branched poly-ubiquitin" ], "offsets": [ [ 107, 130 ] ], "normalized": [] }, { "id": "@@93252737985_5", "type": "NEWGENE", "text": [ "poly-ubiquitin" ], "offsets": [ [ 116, 130 ] ], "normalized": [] }, { "id": "@@93252737985_6", "type": "NEWGENE", "text": [ "ubiquitin" ], "offsets": [ [ 80, 89 ] ], "normalized": [] }, { "id": "@@93252737985_7", "type": "NEWGENE", "text": [ "linear poly-ubiquitin" ], "offsets": [ [ 276, 297 ] ], "normalized": [] }, { "id": "@@93252737985_8", "type": "NEWGENE", "text": [ "ubiquitin" ], "offsets": [ [ 80, 89 ] ], "normalized": [] }, { "id": "@@93252737985_9", "type": "NEWGENE", "text": [ "poly-ubiquitin" ], "offsets": [ [ 116, 130 ] ], "normalized": [] }, { "id": "@@93252737985_10", "type": "NEWGENE", "text": [ "poly-ubiquitin chains" ], "offsets": [ [ 116, 137 ] ], "normalized": [] } ]
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@@74950592869
@@74950592869
[ { "id": "@@74950592869_text", "type": "sentence", "text": [ "Results of the ECAT Angina Pectoris Study Group ." ], "offsets": [ [ 0, 49 ] ] } ]
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@@78239195453
@@78239195453
[ { "id": "@@78239195453_text", "type": "sentence", "text": [ "Conversely , activation of Oct-3 / 4 promoter by RAR : RXR heterodimers was completely abolished by EAR-3 / COUP-TFI and by ARP-1 / COUP-TFII ." ], "offsets": [ [ 0, 143 ] ] } ]
[ { "id": "@@78239195453_1", "type": "NEWGENE", "text": [ "RAR : RXR" ], "offsets": [ [ 49, 58 ] ], "normalized": [] }, { "id": "@@78239195453_2", "type": "NEWGENE", "text": [ "RAR : RXR heterodimers" ], "offsets": [ [ 49, 71 ] ], "normalized": [] }, { "id": "@@78239195453_3", "type": "NEWGENE", "text": [ "RXR" ], "offsets": [ [ 55, 58 ] ], "normalized": [] }, { "id": "@@78239195453_4", "type": "NEWGENE", "text": [ "Oct-3 / 4" ], "offsets": [ [ 27, 36 ] ], "normalized": [] } ]
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@@61363745952
@@61363745952
[ { "id": "@@61363745952_text", "type": "sentence", "text": [ "At both water temperatures , VO2 increased linearly with increasing swimming velocity ." ], "offsets": [ [ 0, 87 ] ] } ]
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@@80067727999
@@80067727999
[ { "id": "@@80067727999_text", "type": "sentence", "text": [ "To see if a pulse oximeter can monitor the fetus during labour we recruited 100 Caucasian women in normal uncomplicated labour ." ], "offsets": [ [ 0, 128 ] ] } ]
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@@7499242625
@@7499242625
[ { "id": "@@7499242625_text", "type": "sentence", "text": [ "In adult tissues , it was less restricted , indicating that RAFTK expression is developmentally up-regulated ." ], "offsets": [ [ 0, 110 ] ] } ]
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@@94276273340
@@94276273340
[ { "id": "@@94276273340_text", "type": "sentence", "text": [ "A cytosolic variant of the protein underwent efficient transphosphorylation , yet failed to activate appreciably either p70 ( S6k ) or MAP kinase following treatment with FK1012 ." ], "offsets": [ [ 0, 179 ] ] } ]
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@@9267519224
@@9267519224
[ { "id": "@@9267519224_text", "type": "sentence", "text": [ "Recent studies have shown the rat larynx to be an important organ in the evaluation of irritancy of inhaled materials ." ], "offsets": [ [ 0, 119 ] ] } ]
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@@93598872278
@@93598872278
[ { "id": "@@93598872278_text", "type": "sentence", "text": [ "Taken together , our data suggest that Rat7p / Nup159p is anchored within the NPC through its coiled-coil region and adjacent sequences ." ], "offsets": [ [ 0, 137 ] ] } ]
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@@13161255919
@@13161255919
[ { "id": "@@13161255919_text", "type": "sentence", "text": [ "The experiment results showed : ( i ) not only 1O2 , but also free radicals ( O2- . . OH and YHPD- . ) can be formed by the aid of YHPD ; and ( ii ) as to the ability of producing 1O2 , YHPD less than BHPD , while for generating O2- . and . OH , YHPD greater than BHPD ." ], "offsets": [ [ 0, 270 ] ] } ]
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@@67944802455
@@67944802455
[ { "id": "@@67944802455_text", "type": "sentence", "text": [ "There is now a significative difference between age group 1-5 and the others ( p Less Than 0 , 02 ) ." ], "offsets": [ [ 0, 101 ] ] } ]
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@@47041375102
@@47041375102
[ { "id": "@@47041375102_text", "type": "sentence", "text": [ "Role of histoclinical studies in the prophylaxis of spontaneous abortions ." ], "offsets": [ [ 0, 75 ] ] } ]
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@@91221762786
@@91221762786
[ { "id": "@@91221762786_text", "type": "sentence", "text": [ "Our results indicate that RA-mediated repression of the hMGP gene is due to binding of liganded RAR / RXR to a novel negative RA response element ." ], "offsets": [ [ 0, 147 ] ] } ]
[ { "id": "@@91221762786_1", "type": "NEWGENE", "text": [ "hMGP" ], "offsets": [ [ 56, 60 ] ], "normalized": [] } ]
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@@115740883047
@@115740883047
[ { "id": "@@115740883047_text", "type": "sentence", "text": [ "The mean waiting time to receive the pancreas transplant was 244 days for SPK and 167 days for PAK recipients ( P = 0 . 001 ) ." ], "offsets": [ [ 0, 127 ] ] } ]
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@@86217304413
@@86217304413
[ { "id": "@@86217304413_text", "type": "sentence", "text": [ "An AP-1 binding sequence is essential for regulation of the human alpha2 ( I ) collagen ( COL1A2 ) promoter activity by transforming growth factor-beta ." ], "offsets": [ [ 0, 153 ] ] } ]
[ { "id": "@@86217304413_1", "type": "NEWGENE", "text": [ "alpha2 ( I ) collagen" ], "offsets": [ [ 66, 87 ] ], "normalized": [] }, { "id": "@@86217304413_2", "type": "NEWGENE", "text": [ "alpha2 ( I ) collagen ( COL1A2 )" ], "offsets": [ [ 66, 98 ] ], "normalized": [] }, { "id": "@@86217304413_3", "type": "NEWGENE", "text": [ "alpha2 ( I ) collagen ( COL1A2 ) promoter" ], "offsets": [ [ 66, 107 ] ], "normalized": [] }, { "id": "@@86217304413_4", "type": "NEWGENE", "text": [ "human alpha2 ( I ) collagen ( COL1A2 )" ], "offsets": [ [ 60, 98 ] ], "normalized": [] }, { "id": "@@86217304413_5", "type": "NEWGENE", "text": [ "AP-1" ], "offsets": [ [ 3, 7 ] ], "normalized": [] }, { "id": "@@86217304413_6", "type": "NEWGENE", "text": [ "( COL1A2 ) promoter" ], "offsets": [ [ 88, 107 ] ], "normalized": [] } ]
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@@106225746411
@@106225746411
[ { "id": "@@106225746411_text", "type": "sentence", "text": [ "The prevalence of hepatitis C virus ( HCV ) infection is relatively low in childhood , with anti-HCV prevalence rates of 0 . 1-0 . 4% in the Western world ." ], "offsets": [ [ 0, 156 ] ] } ]
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@@2457922385
@@2457922385
[ { "id": "@@2457922385_text", "type": "sentence", "text": [ "Hybridization of a probe from this region to electrophoretic blots of RNAs from different human tissues showed a predominant 2 . 8-kilobase ( kb ) message accompanied by weaker bands 4 . 1 and 2 . 1 kb in size ." ], "offsets": [ [ 0, 211 ] ] } ]
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@@21744273256
@@21744273256
[ { "id": "@@21744273256_text", "type": "sentence", "text": [ "Both strains grew very poorly , or not at all , on nonfermentable carbon sources and exhibited , at most , only 5% of wild-type ubiquinol-cytochrome c oxidoreductase activity ." ], "offsets": [ [ 0, 176 ] ] } ]
[ { "id": "@@21744273256_1", "type": "NEWGENE", "text": [ "ubiquinol-cytochrome c oxidoreductase" ], "offsets": [ [ 128, 165 ] ], "normalized": [] } ]
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@@10962738783
@@10962738783
[ { "id": "@@10962738783_text", "type": "sentence", "text": [ "Consciousness is connected with attention , working memory and perception ." ], "offsets": [ [ 0, 75 ] ] } ]
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Dataset Card for GENETAG

Named entity recognition (NER) is an important first step for text mining the biomedical literature. Evaluating the performance of biomedical NER systems is impossible without a standardized test corpus. The annotation of such a corpus for gene/protein name NER is a difficult process due to the complexity of gene/protein names. We describe the construction and annotation of GENETAG, a corpus of 20K MEDLINE® sentences for gene/protein NER. 15K GENETAG sentences were used for the BioCreAtIvE Task 1A Competition..

Citation Information

@article{Tanabe2005,
  author    = {Lorraine Tanabe and Natalie Xie and Lynne H Thom and Wayne Matten and W John Wilbur},
  title     = {{GENETAG}: a tagged corpus for gene/protein named entity recognition},
  journal   = {{BMC} Bioinformatics},
  volume    = {6},
  year      = {2005},
  url       = {https://doi.org/10.1186/1471-2105-6-S1-S3},
  doi       = {10.1186/1471-2105-6-s1-s3},
  biburl    = {},
  bibsource = {}
}
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