Table 2

Illustration example for the system workflow of protein coreference resolution
Example text (PMID-7964516) T cell hybridomas respond to activation signals by undergoing apoptotic cell death, and this is likely to represent comparable events related to tolerance induction in immature and mature T cells in vivo. Previous studies using antisense oligonucleotides implicated the c-Myc protein in the phenomenon of activation-induced apoptosis. This role for c-Myc in apoptosis is now confirmed in studies using a dominant negative form of its heterodimeric binding partner, Max, which we show here inhibits activation-induced apoptosis.
Preprocessing results: sentences and chunks (partially) (Step 0) S1: T cell hybridomas respond to activation signals by undergoing apoptotic cell death, and this is likely to represent comparable events related to tolerance induction in immature and mature T cells in vivo. S2: Previous studies using antisense oligonucleotides implicated the c-Myc protein in the phenomenon of activation-induced apoptosis. S3: [This [[role] for [c-Myc] in [apoptosis]]] is now confirmed in [[studies] using a dominant negative form of its heterodimeric binding partner, Max, which we show here inhibits activation-induced apoptosis].
Markables (Step 1) S1: [T cell hybridomas] respond to [activation signals] by undergoing [apoptotic cell death], and this is likely to represent [comparable events related to tolerance induction] in [immature and mature T cells [in vivo]]. S2: [Previous studies using [antisense oligonucleotides]] implicated [the c-Myc protein] in [the phenomenon of [activation-induced apoptosis]]. S3: [This role for [c-Myc] in [apoptosis]] is now confirmed in [studies] using a [dominant negative form of [[its] heterodimeric binding partner,[Max]]], [which] [we] show here inhibits [activation-induced apoptosis].
Anaphors (Step 2) S1: T cell hybridomas respond to activation signals by undergoing apoptotic cell death, and [this] is likely to represent comparable events related to tolerance induction in immature and mature T cells in vivo. S2: Previous studies using antisense oligonucleotides implicated the c-Myc protein in the phenomenon of activation-induced apoptosis. S3: This role for c-Myc in apoptosis is now confirmed in studies using a dominant negative form of [its] heterodimeric binding partner, Max, [which] we show here inhibits activation-induced apoptosis.
Antecedent candidates of its (Step 3) S1: [T cell hybridomas] respond to [activation signals] by undergoing [apoptotic cell death], and this is likely to represent [comparable events related to tolerance induction] in [immature and mature T cells [in vivo]]. S2: [Previous studies using [antisense oligonucleotides]] implicated [the c-Myc protein] in [the phenomenon of [activation-induced apoptosis]]. S3: [This role for [c-Myc] in [apoptosis]] is now confirmed in [studies] using [a dominant negative form of its heterodimeric binding partner, Max], which we show here inhibits activation-induced apoptosis.
Predicted antecedent of its (Step 4) S1: T cell hybridomas respond to activation signals by undergoing apoptotic cell death, and this is likely to represent comparable events related to tolerance induction in immature and mature T cells in vivo. S2: Previous studies using antisense oligonucleotides implicated the c-Myc protein in the phenomenon of activation-induced apoptosis. S3: This role for [c-Myc] in apoptosis is now confirmed in studies using a dominant negative form of its heterodimeric binding partner, Max, which we show here inhibits activation-induced apoptosis.

The resulted items of each step are shown in square brackets, and the whole syntactic parse tree of the sentence S3 is shown in a separated figure.

Nguyen et al.

Nguyen et al. BMC Bioinformatics 2012 13:304   doi:10.1186/1471-2105-13-304

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