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silkwormbase

Id Subject Object Predicate Lexical cue
T1 56-64 Species:7091 denotes silkworm
T2 260-268 Species:7091 denotes silkworm
T3 335-343 Species:7091 denotes silkworm
T4 1882-1923 Gene:100101180;100037426 denotes actin-depolymerizing factor 1 and enolase
T5 2124-2143 Disease:MESH:D012769 denotes heat shock proteins

sentences

Id Subject Object Predicate Lexical cue
T1 0-120 Sentence denotes Expression profiling and regulation of genes related to silkworm posterior silk gland development and fibroin synthesis.
T2 121-269 Sentence denotes The posterior silk gland (PSG) is the most important suborgan responsible for the synthesis and secretion of silk core fibroin proteins in silkworm.
T3 270-504 Sentence denotes Here, we performed genome-scale expression profiling analysis of silkworm PSG at the fourth molting (M4) and at day 1 (V1), day 3 (V3), day 5 (V5), and wandering stage (W) of the fifth instar by microarray analysis with 22 987 probes.
T4 505-746 Sentence denotes We found that the five genes of silk proteins secreted from PSG including fibroin heavy (H) and light (L) chains, P25, seroin 1, and seroin 2 basically showed obvious up-regulation at V3 which lasted to V5, while slight down-regulation at W.
T5 747-941 Sentence denotes The expression of translation-related genes including ribosomal proteins and translation initiation factors generally remained stable from M4 to V5, whereas it showed clear down-regulation at W.
T6 942-1220 Sentence denotes Clustering analysis of the 643 significantly differentially expressed transcripts revealed that 43 of the important genes including seroin 1 and sugar transporter protein had co-expression patterns which were consistent with the rate changes of fibroin synthesis and PSG growth.
T7 1221-1335 Sentence denotes Pathway analysis disclosed that the genes in different clusters might have co-regulations and direct interactions.
T8 1336-1416 Sentence denotes These genes were supposed to be involved in the fibroin synthesis and secretion.
T9 1417-1568 Sentence denotes The differential expression of several hormone-related genes also suggested their functions on the regulation of PSG development and fibroin synthesis.
T10 1569-1804 Sentence denotes 2D gel-based proteomics and phosphoproteomics profiling revealed that the phosphorylated proteins accounted for no more than one-sixth of the total proteins at each stage, which was much lower than the level in normal eukaryotic cells.
T11 1805-1993 Sentence denotes Changes in the phosphorylation status and levels of several proteins such as actin-depolymerizing factor 1 and enolase might be deeply involved in fibroin secretion and tissue development.
T12 1994-2339 Sentence denotes Shotgun proteomic profiling combined with label-free quantification analysis on the PSG at V3, V5, and W revealed that many small heat shock proteins (sHSP) were specially expressed at W, which was substantially consistent with the results from 2-DE analysis, and implied the close correlations of sHSP with the physiological states of PSG at W.
T13 2340-2588 Sentence denotes A majority of significantly up-regulated proteins at V5 were related to ribosome pathway, which was different from the microarray results, implying that the translation-level regulation of ribosomal proteins might be critical for fibroin synthesis.
T14 2589-2787 Sentence denotes In contrast, the ubiquitin-proteasome pathway related proteins appeared obviously up-regulated at W, suggesting that the programmed cell death process of PSG cells might be started before cocooning.
T1 0-120 Sentence denotes Expression profiling and regulation of genes related to silkworm posterior silk gland development and fibroin synthesis.
T2 121-269 Sentence denotes The posterior silk gland (PSG) is the most important suborgan responsible for the synthesis and secretion of silk core fibroin proteins in silkworm.
T3 270-504 Sentence denotes Here, we performed genome-scale expression profiling analysis of silkworm PSG at the fourth molting (M4) and at day 1 (V1), day 3 (V3), day 5 (V5), and wandering stage (W) of the fifth instar by microarray analysis with 22 987 probes.
T4 505-746 Sentence denotes We found that the five genes of silk proteins secreted from PSG including fibroin heavy (H) and light (L) chains, P25, seroin 1, and seroin 2 basically showed obvious up-regulation at V3 which lasted to V5, while slight down-regulation at W.
T5 747-941 Sentence denotes The expression of translation-related genes including ribosomal proteins and translation initiation factors generally remained stable from M4 to V5, whereas it showed clear down-regulation at W.
T6 942-1220 Sentence denotes Clustering analysis of the 643 significantly differentially expressed transcripts revealed that 43 of the important genes including seroin 1 and sugar transporter protein had co-expression patterns which were consistent with the rate changes of fibroin synthesis and PSG growth.
T7 1221-1335 Sentence denotes Pathway analysis disclosed that the genes in different clusters might have co-regulations and direct interactions.
T8 1336-1416 Sentence denotes These genes were supposed to be involved in the fibroin synthesis and secretion.
T9 1417-1568 Sentence denotes The differential expression of several hormone-related genes also suggested their functions on the regulation of PSG development and fibroin synthesis.
T10 1569-1804 Sentence denotes 2D gel-based proteomics and phosphoproteomics profiling revealed that the phosphorylated proteins accounted for no more than one-sixth of the total proteins at each stage, which was much lower than the level in normal eukaryotic cells.
T11 1805-1993 Sentence denotes Changes in the phosphorylation status and levels of several proteins such as actin-depolymerizing factor 1 and enolase might be deeply involved in fibroin secretion and tissue development.
T12 1994-2339 Sentence denotes Shotgun proteomic profiling combined with label-free quantification analysis on the PSG at V3, V5, and W revealed that many small heat shock proteins (sHSP) were specially expressed at W, which was substantially consistent with the results from 2-DE analysis, and implied the close correlations of sHSP with the physiological states of PSG at W.
T13 2340-2588 Sentence denotes A majority of significantly up-regulated proteins at V5 were related to ribosome pathway, which was different from the microarray results, implying that the translation-level regulation of ribosomal proteins might be critical for fibroin synthesis.
T14 2589-2787 Sentence denotes In contrast, the ubiquitin-proteasome pathway related proteins appeared obviously up-regulated at W, suggesting that the programmed cell death process of PSG cells might be started before cocooning.

Glycosmos6-MAT

Id Subject Object Predicate Lexical cue
T1 80-85 http://purl.obolibrary.org/obo/MAT_0000021 denotes gland
T2 140-145 http://purl.obolibrary.org/obo/MAT_0000021 denotes gland

silkworm

Id Subject Object Predicate Lexical cue
T1 56-64 Species:7091 denotes silkworm
T2 260-268 Species:7091 denotes silkworm
T3 335-343 Species:7091 denotes silkworm
T4 1882-1923 Gene:100101180;100037426 denotes actin-depolymerizing factor 1 and enolase
T5 2124-2143 Disease:MESH:D012769 denotes heat shock proteins

Allie

Id Subject Object Predicate Lexical cue
SS1_21657221_1_0 125-145 expanded denotes posterior silk gland
SS2_21657221_1_0 147-150 abbr denotes PSG
SS1_21657221_11_0 2118-2143 expanded denotes small heat shock proteins
SS2_21657221_11_0 2145-2149 abbr denotes sHSP
AE1_21657221_1_0 SS1_21657221_1_0 SS2_21657221_1_0 abbreviatedTo posterior silk gland,PSG
AE1_21657221_11_0 SS1_21657221_11_0 SS2_21657221_11_0 abbreviatedTo small heat shock proteins,sHSP

Anatomy-MAT

Id Subject Object Predicate Lexical cue mat_id
T1 80-85 Body_part denotes gland http://purl.obolibrary.org/obo/MAT_0000021
T2 140-145 Body_part denotes gland http://purl.obolibrary.org/obo/MAT_0000021

HP-phenotype

Id Subject Object Predicate Lexical cue hp_id
T1 2129-2134 Phenotype denotes shock HP:0031273

NCBITAXON

Id Subject Object Predicate Lexical cue db_id
T1 56-64 OrganismTaxon denotes silkworm 7091
T2 260-268 OrganismTaxon denotes silkworm 7091
T3 335-343 OrganismTaxon denotes silkworm 7091

Anatomy-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T1 65-74 Body_part denotes posterior http://purl.obolibrary.org/obo/UBERON_0001353
T2 75-85 Body_part denotes silk gland http://purl.obolibrary.org/obo/UBERON_0011146
T3 125-134 Body_part denotes posterior http://purl.obolibrary.org/obo/UBERON_0001353
T4 135-145 Body_part denotes silk gland http://purl.obolibrary.org/obo/UBERON_0011146
T5 230-234 Body_part denotes silk http://purl.obolibrary.org/obo/UBERON_0012245
T6 296-301 Body_part denotes scale http://purl.obolibrary.org/obo/UBERON_0002542
T7 537-541 Body_part denotes silk http://purl.obolibrary.org/obo/UBERON_0012245
T8 1787-1803 Body_part denotes eukaryotic cells http://purl.obolibrary.org/obo/CL_0000255
T9 1974-1980 Body_part denotes tissue http://purl.obolibrary.org/obo/UBERON_0000479
T10 2412-2420 Body_part denotes ribosome http://purl.obolibrary.org/obo/GO_0005840

CL-cell

Id Subject Object Predicate Lexical cue cl_id
T1 1787-1803 Cell denotes eukaryotic cells http://purl.obolibrary.org/obo/CL:0000255