Update long_example.md

long_example.md

@@ -12,4 +12,4 @@ The source text comes from the abstract of PMID [18974824](https://www.ncbi.nlm.
 | [**replace_from_dictionary**](nlpre/replace_from_dictionary.py) | MeSH_N-Methylaspartate receptors are widely expressed in the brain and are critical for many forms of MeSH_Neuronal_Plasticity . <br> NMDA . <br> Subtypes of the NMDA receptor NR2 subunit are differentially expressed during development ; in the forebrain , the NR2B receptor is dominant early in development , and later both NR2A and NR2B are expressed . <br> In heterologous expression systems , NR2A-containing receptors open more reliably and show much faster opening and closing kinetics than do NR2B-containing receptors . <br> However , conflicting data , showing similar open probabilities , exist for receptors expressed in neurons . <br> Similarly , studies of MeSH_Neuronal_Plasticity have produced divergent results , with some showing that only NR2A-containing receptors can drive MeSH_Long-Term_Potentiation and others showing that either subtype is capable of driving potentiation . <br> In order to address these conflicting results as well as open questions about the number and location of functional receptors in the synapse , we constructed a Monte Carlo model of glutamate release , diffusion , and binding to MeSH_Receptors_N-Methyl-D-Aspartate and of receptor opening and closing as well as a model of the activation of calcium-MeSH_Calcium-Calmodulin-Dependent_Protein_Kinases II , an enzyme critical for induction of MeSH_Neuronal_Plasticity , by NMDA receptor-mediated calcium influx . <br> Our results suggest that the conflicting data concerning receptor open probabilities can be resolved , with NR2A - and NR2B-containing receptors having very different opening probabilities . <br> They also support the conclusion that receptors containing either subtype can drive MeSH_Long-Term_Potentiation . <br> We also are able to estimate the number of functional receptors at a synapse from experimental data . <br> Finally , in our models , the opening of NR2B-containing receptors is highly dependent on the location of the receptor relative to the site of glutamate release whereas the opening of NR2A-containing receptors is not . <br> These results help to clarify the previous findings and suggest future experiments to address open questions concerning NMDA receptor function . |
 | [**token_replacement**](nlpre/token_replacement.py) |  MeSH_N-Methylaspartate receptors are widely expressed in the brain and are critical for many forms of MeSH_Neuronal_Plasticity . <br> NMDA . <br> Subtypes of the NMDA receptor NR2 subunit are differentially expressed during development ; in the forebrain , the NR2B receptor is dominant early in development , and later both NR2A and NR2B are expressed . <br> In heterologous expression systems , NR2A-containing receptors open more reliably and show much faster opening and closing kinetics than do NR2B-containing receptors . <br> However , conflicting data , showing similar open probabilities , exist for receptors expressed in neurons . <br> Similarly , studies of MeSH_Neuronal_Plasticity have produced divergent results , with some showing that only NR2A-containing receptors can drive MeSH_Long-Term_Potentiation and others showing that either subtype is capable of driving potentiation . <br> In order to address these conflicting results as well as open questions about the number and location of functional receptors in the synapse , we constructed a Monte Carlo model of glutamate release , diffusion , and binding to MeSH_Receptors_N-Methyl-D-Aspartate and of receptor opening and closing as well as a model of the activation of calcium-MeSH_Calcium-Calmodulin-Dependent_Protein_Kinases II , an enzyme critical for induction of MeSH_Neuronal_Plasticity , by NMDA receptor-mediated calcium influx . <br> Our results suggest that the conflicting data concerning receptor open probabilities can be resolved , with NR2A - and NR2B-containing receptors having very different opening probabilities . <br> They also support the conclusion that receptors containing either subtype can drive MeSH_Long-Term_Potentiation . <br> We also are able to estimate the number of functional receptors at a synapse from experimental data . <br> Finally , in our models , the opening of NR2B-containing receptors is highly dependent on the location of the receptor relative to the site of glutamate release whereas the opening of NR2A-containing receptors is not . <br> These results help to clarify the previous findings and suggest future experiments to address open questions concerning NMDA receptor function . |
 | [**decaps_text**](nlpre/decaps_text.py) | MeSH_N-Methylaspartate receptors are widely expressed in the brain and are critical for many forms of MeSH_Neuronal_Plasticity . <br> NMDA . <br> Subtypes of the NMDA receptor NR2 subunit are differentially expressed during development ; in the forebrain , the NR2B receptor is dominant early in development , and later both NR2A and NR2B are expressed . <br> In heterologous expression systems , NR2A-containing receptors open more reliably and show much faster opening and closing kinetics than do NR2B-containing receptors . <br> However , conflicting data , showing similar open probabilities , exist for receptors expressed in neurons . <br> Similarly , studies of MeSH_Neuronal_Plasticity have produced divergent results , with some showing that only NR2A-containing receptors can drive MeSH_Long-Term_Potentiation and others showing that either subtype is capable of driving potentiation . <br> In order to address these conflicting results as well as open questions about the number and location of functional receptors in the synapse , we constructed a Monte Carlo model of glutamate release , diffusion , and binding to MeSH_Receptors_N-Methyl-D-Aspartate and of receptor opening and closing as well as a model of the activation of calcium-MeSH_Calcium-Calmodulin-Dependent_Protein_Kinases II , an enzyme critical for induction of MeSH_Neuronal_Plasticity , by NMDA receptor-mediated calcium influx . <br> Our results suggest that the conflicting data concerning receptor open probabilities can be resolved , with NR2A - and NR2B-containing receptors having very different opening probabilities . <br> They also support the conclusion that receptors containing either subtype can drive MeSH_Long-Term_Potentiation . <br> We also are able to estimate the number of functional receptors at a synapse from experimental data . <br> Finally , in our models , the opening of NR2B-containing receptors is highly dependent on the location of the receptor relative to the site of glutamate release whereas the opening of NR2A-containing receptors is not . <br> These results help to clarify the previous findings and suggest future experiments to address open questions concerning NMDA receptor function . |
-| [**pos_tokenizer**](nlpre/pos_tokenizer.py) | MeSH_N-Methylaspartate receptor brain critical many form MeSH_Neuronal_Plasticity <br> NMDA <br> subtype NMDA receptor NR2 subunit development forebrain NR2B receptor dominant development NR2A NR2B <br> heterologou expression system receptor faster open kinetic NR2B-containing receptor <br> datum similar open probability receptor neuron <br> study MeSH_Neuronal_Plasticity divergent result show NR2A-containing receptor MeSH_Long-Term_Potentiation other subtype capable potentiation <br> order result open question number location functional receptor synapse monte carlo model glutamate release diffusion bound MeSH_Receptors_N-Methyl-D-Aspartate receptor open close model activation calcium-MeSH_Calcium-Calmodulin-Dependent_Protein_Kinases Ius enzyme critical induction MeSH_Neuronal_Plasticity NMDA receptor-mediated calcium influx <br> result datum receptor open probability NR2A NR2B-containing receptor different open probability <br> conclusion receptor subtype MeSH_Long-Term_Potentiation <br> able number functional receptor synapse experimental datum <br> model open NR2B-containing receptor dependent location receptor relative site glutamate release open NR2A-containing receptor <br> result previou find future experiment open question NMDA receptor function |
+| [**pos_tokenizer**](nlpre/pos_tokenizer.py) | MeSH_N-Methylaspartate receptor brain critical many form MeSH_Neuronal_Plasticity <br> NMDA <br> subtype NMDA receptor NR2 subunit development forebrain NR2B receptor dominant development NR2A NR2B <br> heterologous expression system receptor faster open kinetic NR2B-containing receptor <br> datum similar open probability receptor neuron <br> study MeSH_Neuronal_Plasticity divergent result show NR2A-containing receptor MeSH_Long-Term_Potentiation other subtype capable potentiation <br> order result open question number location functional receptor synapse monte carlo model glutamate release diffusion bound MeSH_Receptors_N-Methyl-D-Aspartate receptor open close model activation calcium-MeSH_Calcium-Calmodulin-Dependent_Protein_Kinases Ius enzyme critical induction MeSH_Neuronal_Plasticity NMDA receptor-mediated calcium influx <br> result datum receptor open probability NR2A NR2B-containing receptor different open probability <br> conclusion receptor subtype MeSH_Long-Term_Potentiation <br> able number functional receptor synapse experimental datum <br> model open NR2B-containing receptor dependent location receptor relative site glutamate release open NR2A-containing receptor <br> result previou find future experiment open question NMDA receptor function |