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were deeply anesthetized with sodium pentobarbital (100 mg/kg i.p.). Kidneys and brain were removed and pulverized in liquid N2. Temporal bones were removed and two preparations of inner ear tissues were obtained by microdissection: (1) stria vascularis without spiral ligament, and (2) spiral ganglia including the surrounding bone and the organ of Corti. The dissection medium was changed twice during the microdissection and isolated tissues were washed three times to minimize cross-contamination. The Slc26a4-/-genotype was verified by the observation of large otoconia in the utricular macula [14]. Total RNA was isolated and residual DNA contamination was removed by enzymatic digestion (RNeasy micro, Qiagen, Valencia, CA). Quality and quantity of 18S rRNA obtained from kidneys and brain were determined (Nano Assay, 2100 Bioanalyzer, Agilent, Palo Alto, CA). Further, the quality of RNA preparations obtained from stria vascularis and spiral ganglia was assessed (Pico Assay, 2100 Bioanalyzer). Real time RT-PCR was performed on RNA obtained from individual animals (OneStep RT-PCR, Qiagen; Smart Cycler, Cepheid, Sunnyvale, CA) in the presence of 0.2× SYBR green I (Molecular Probes). Transcripts of 18S rRNA and mRNA for the K+ channels KCNJ10, KCNQ1 and KCNQ4 were amplified using gene-specific primers (Table 1). RT was performed for 30 min at 50°C and 15 min at 95°C. PCR consisted of 50 cycles of 1 min at 60°C, 1 min at 72°C, 7s heating to hot-measurement temperature, 13s hot-measurement at 3–5°C below product melting temperature (Table 1) and 1 min at 94°C. Hot-measurements were performed to eliminate the detection of primer-dimers that had melting temperatures between 72 and 75°C [15]. PCR was followed by a melt (60 to 95°C). The generation of a single product of appropriate size was routinely checked by the presence of a single melt peak and by agarose gel-electrophoresis. Product identity was confirmed by sequencing."}
craft-ca-core-ex-dev
{"project":"craft-ca-core-ex-dev","denotations":[{"id":"T2141","span":{"begin":0,"end":7},"obj":"NCBITaxon:33208"},{"id":"T2142","span":{"begin":20,"end":32},"obj":"CHEBI_EXT:anaesthetic_process"},{"id":"T2143","span":{"begin":38,"end":58},"obj":"CHEBI:7984"},{"id":"T2144","span":{"begin":77,"end":84},"obj":"UBERON:0002113"},{"id":"T2145","span":{"begin":89,"end":94},"obj":"UBERON:0000955"},{"id":"T2146","span":{"begin":133,"end":135},"obj":"CHEBI:17997"},{"id":"T2147","span":{"begin":137,"end":151},"obj":"UBERON:0001678"},{"id":"T2148","span":{"begin":189,"end":198},"obj":"UBERON:0001846"},{"id":"T2149","span":{"begin":199,"end":206},"obj":"UBERON:0000479"},{"id":"T2150","span":{"begin":245,"end":261},"obj":"UBERON:0002282"},{"id":"T2151","span":{"begin":270,"end":285},"obj":"UBERON:0006725"},{"id":"T2152","span":{"begin":295,"end":309},"obj":"UBERON:0000395"},{"id":"T2153","span":{"begin":336,"end":340},"obj":"UBERON_EXT:bone_element_or_tissue"},{"id":"T2154","span":{"begin":349,"end":363},"obj":"UBERON:0002227"},{"id":"T2155","span":{"begin":445,"end":452},"obj":"UBERON:0000479"},{"id":"T2156","span":{"begin":514,"end":521},"obj":"PR_EXT:000015039"},{"id":"T2157","span":{"begin":521,"end":522},"obj":"SO_EXT:sequence_nullness_or_absence"},{"id":"T2158","span":{"begin":523,"end":524},"obj":"SO_EXT:sequence_nullness_or_absence"},{"id":"T2159","span":{"begin":524,"end":532},"obj":"SO_EXT:genotype_or_entity_with_genotype"},{"id":"T2160","span":{"begin":574,"end":582},"obj":"UBERON:0002280"},{"id":"T2161","span":{"begin":590,"end":606},"obj":"UBERON:0002214"},{"id":"T2162","span":{"begin":619,"end":622},"obj":"CHEBI_SO_EXT:RNA"},{"id":"T2163","span":{"begin":649,"end":652},"obj":"CHEBI_SO_EXT:DNA"},{"id":"T2164","span":{"begin":682,"end":691},"obj":"CHEBI_GO_SO_EXT:enzyme"},{"id":"T2165","span":{"begin":764,"end":772},"obj":"SO_EXT:0000407"},{"id":"T2167","span":{"begin":787,"end":794},"obj":"UBERON:0002113"},{"id":"T2168","span":{"begin":799,"end":804},"obj":"UBERON:0000955"},{"id":"T2169","span":{"begin":901,"end":904},"obj":"CHEBI_SO_EXT:RNA"},{"id":"T2170","span":{"begin":932,"end":948},"obj":"UBERON:0002282"},{"id":"T2171","span":{"begin":953,"end":967},"obj":"UBERON:0000395"},{"id":"T2172","span":{"begin":1023,"end":1025},"obj":"GO_EXT:reverse_transcription_or_reverse_transcriptase"},{"id":"T2173","span":{"begin":1047,"end":1050},"obj":"CHEBI_SO_EXT:RNA"},{"id":"T2174","span":{"begin":1076,"end":1083},"obj":"NCBITaxon:33208"},{"id":"T2175","span":{"begin":1093,"end":1095},"obj":"GO_EXT:reverse_transcription_or_reverse_transcriptase"},{"id":"T2176","span":{"begin":1171,"end":1183},"obj":"CHEBI:51461"},{"id":"T2177","span":{"begin":1185,"end":1194},"obj":"CHEBI_EXT:polyatomic_entity_or_group"},{"id":"T2178","span":{"begin":1195,"end":1201},"obj":"CHEBI_SO_EXT:molecular_probe"},{"id":"T2179","span":{"begin":1204,"end":1215},"obj":"SO_EXT:0000673"},{"id":"T2180","span":{"begin":1219,"end":1227},"obj":"SO_EXT:0000407"},{"id":"T2181","span":{"begin":1223,"end":1227},"obj":"CHEBI_SO_EXT:rRNA"},{"id":"T2182","span":{"begin":1232,"end":1236},"obj":"CHEBI_SO_EXT:mRNA"},{"id":"T2183","span":{"begin":1245,"end":1247},"obj":"CHEBI:29103"},{"id":"T2184","span":{"begin":1245,"end":1256},"obj":"GO_EXT:0005267"},{"id":"T2185","span":{"begin":1257,"end":1263},"obj":"PR_EXT:000001979"},{"id":"T2186","span":{"begin":1265,"end":1270},"obj":"PR_EXT:000000728"},{"id":"T2187","span":{"begin":1275,"end":1280},"obj":"PR_EXT:000000731"},{"id":"T2188","span":{"begin":1302,"end":1306},"obj":"SO_EXT:0000704"},{"id":"T2189","span":{"begin":1316,"end":1323},"obj":"SO_EXT:0000112"},{"id":"T2190","span":{"begin":1335,"end":1337},"obj":"GO_EXT:reverse_transcription_or_reverse_transcriptase"},{"id":"T2191","span":{"begin":1537,"end":1544},"obj":"GO:0032508"},{"id":"T2192","span":{"begin":1648,"end":1654},"obj":"SO_EXT:0000112"},{"id":"T2193","span":{"begin":1655,"end":1661},"obj":"GO_EXT:dimer_macromolecular_complex"},{"id":"T2194","span":{"begin":1671,"end":1678},"obj":"GO:0032508"},{"id":"T2195","span":{"begin":1740,"end":1744},"obj":"GO:0032508"},{"id":"T2196","span":{"begin":1864,"end":1868},"obj":"GO:0032508"},{"id":"T2197","span":{"begin":1881,"end":1888},"obj":"CHEBI:2511"},{"id":"T2166","span":{"begin":768,"end":772},"obj":"CHEBI_SO_EXT:rRNA"}],"text":"Animals were deeply anesthetized with sodium pentobarbital (100 mg/kg i.p.). Kidneys and brain were removed and pulverized in liquid N2. Temporal bones were removed and two preparations of inner ear tissues were obtained by microdissection: (1) stria vascularis without spiral ligament, and (2) spiral ganglia including the surrounding bone and the organ of Corti. The dissection medium was changed twice during the microdissection and isolated tissues were washed three times to minimize cross-contamination. The Slc26a4-/-genotype was verified by the observation of large otoconia in the utricular macula [14]. Total RNA was isolated and residual DNA contamination was removed by enzymatic digestion (RNeasy micro, Qiagen, Valencia, CA). Quality and quantity of 18S rRNA obtained from kidneys and brain were determined (Nano Assay, 2100 Bioanalyzer, Agilent, Palo Alto, CA). Further, the quality of RNA preparations obtained from stria vascularis and spiral ganglia was assessed (Pico Assay, 2100 Bioanalyzer). Real time RT-PCR was performed on RNA obtained from individual animals (OneStep RT-PCR, Qiagen; Smart Cycler, Cepheid, Sunnyvale, CA) in the presence of 0.2× SYBR green I (Molecular Probes). Transcripts of 18S rRNA and mRNA for the K+ channels KCNJ10, KCNQ1 and KCNQ4 were amplified using gene-specific primers (Table 1). RT was performed for 30 min at 50°C and 15 min at 95°C. PCR consisted of 50 cycles of 1 min at 60°C, 1 min at 72°C, 7s heating to hot-measurement temperature, 13s hot-measurement at 3–5°C below product melting temperature (Table 1) and 1 min at 94°C. Hot-measurements were performed to eliminate the detection of primer-dimers that had melting temperatures between 72 and 75°C [15]. PCR was followed by a melt (60 to 95°C). The generation of a single product of appropriate size was routinely checked by the presence of a single melt peak and by agarose gel-electrophoresis. Product identity was confirmed by sequencing."}
craft-ca-core-dev
{"project":"craft-ca-core-dev","denotations":[{"id":"T2094","span":{"begin":0,"end":7},"obj":"NCBITaxon:33208"},{"id":"T2095","span":{"begin":38,"end":58},"obj":"CHEBI:7984"},{"id":"T2096","span":{"begin":77,"end":84},"obj":"UBERON:0002113"},{"id":"T2097","span":{"begin":89,"end":94},"obj":"UBERON:0000955"},{"id":"T2098","span":{"begin":133,"end":135},"obj":"CHEBI:17997"},{"id":"T2099","span":{"begin":137,"end":151},"obj":"UBERON:0001678"},{"id":"T2100","span":{"begin":189,"end":198},"obj":"UBERON:0001846"},{"id":"T2101","span":{"begin":199,"end":206},"obj":"UBERON:0000479"},{"id":"T2102","span":{"begin":245,"end":261},"obj":"UBERON:0002282"},{"id":"T2103","span":{"begin":270,"end":285},"obj":"UBERON:0006725"},{"id":"T2104","span":{"begin":295,"end":309},"obj":"UBERON:0000395"},{"id":"T2105","span":{"begin":349,"end":363},"obj":"UBERON:0002227"},{"id":"T2106","span":{"begin":445,"end":452},"obj":"UBERON:0000479"},{"id":"T2107","span":{"begin":514,"end":521},"obj":"PR:000015039"},{"id":"T2108","span":{"begin":574,"end":582},"obj":"UBERON:0002280"},{"id":"T2109","span":{"begin":590,"end":606},"obj":"UBERON:0002214"},{"id":"T2110","span":{"begin":764,"end":772},"obj":"SO:0000407"},{"id":"T2111","span":{"begin":787,"end":794},"obj":"UBERON:0002113"},{"id":"T2112","span":{"begin":799,"end":804},"obj":"UBERON:0000955"},{"id":"T2113","span":{"begin":932,"end":948},"obj":"UBERON:0002282"},{"id":"T2114","span":{"begin":953,"end":967},"obj":"UBERON:0000395"},{"id":"T2115","span":{"begin":1076,"end":1083},"obj":"NCBITaxon:33208"},{"id":"T2116","span":{"begin":1171,"end":1183},"obj":"CHEBI:51461"},{"id":"T2117","span":{"begin":1204,"end":1215},"obj":"SO:0000673"},{"id":"T2118","span":{"begin":1219,"end":1227},"obj":"SO:0000407"},{"id":"T2119","span":{"begin":1245,"end":1247},"obj":"CHEBI:29103"},{"id":"T2120","span":{"begin":1257,"end":1263},"obj":"PR:000001979"},{"id":"T2121","span":{"begin":1265,"end":1270},"obj":"PR:000000728"},{"id":"T2122","span":{"begin":1275,"end":1280},"obj":"PR:000000731"},{"id":"T2123","span":{"begin":1302,"end":1306},"obj":"SO:0000704"},{"id":"T2124","span":{"begin":1316,"end":1323},"obj":"SO:0000112"},{"id":"T2125","span":{"begin":1537,"end":1544},"obj":"GO:0032508"},{"id":"T2126","span":{"begin":1648,"end":1654},"obj":"SO:0000112"},{"id":"T2127","span":{"begin":1671,"end":1678},"obj":"GO:0032508"},{"id":"T2128","span":{"begin":1740,"end":1744},"obj":"GO:0032508"},{"id":"T2129","span":{"begin":1864,"end":1868},"obj":"GO:0032508"},{"id":"T2130","span":{"begin":1881,"end":1888},"obj":"CHEBI:2511"}],"text":"Animals were deeply anesthetized with sodium pentobarbital (100 mg/kg i.p.). Kidneys and brain were removed and pulverized in liquid N2. Temporal bones were removed and two preparations of inner ear tissues were obtained by microdissection: (1) stria vascularis without spiral ligament, and (2) spiral ganglia including the surrounding bone and the organ of Corti. The dissection medium was changed twice during the microdissection and isolated tissues were washed three times to minimize cross-contamination. The Slc26a4-/-genotype was verified by the observation of large otoconia in the utricular macula [14]. Total RNA was isolated and residual DNA contamination was removed by enzymatic digestion (RNeasy micro, Qiagen, Valencia, CA). Quality and quantity of 18S rRNA obtained from kidneys and brain were determined (Nano Assay, 2100 Bioanalyzer, Agilent, Palo Alto, CA). Further, the quality of RNA preparations obtained from stria vascularis and spiral ganglia was assessed (Pico Assay, 2100 Bioanalyzer). Real time RT-PCR was performed on RNA obtained from individual animals (OneStep RT-PCR, Qiagen; Smart Cycler, Cepheid, Sunnyvale, CA) in the presence of 0.2× SYBR green I (Molecular Probes). Transcripts of 18S rRNA and mRNA for the K+ channels KCNJ10, KCNQ1 and KCNQ4 were amplified using gene-specific primers (Table 1). RT was performed for 30 min at 50°C and 15 min at 95°C. PCR consisted of 50 cycles of 1 min at 60°C, 1 min at 72°C, 7s heating to hot-measurement temperature, 13s hot-measurement at 3–5°C below product melting temperature (Table 1) and 1 min at 94°C. Hot-measurements were performed to eliminate the detection of primer-dimers that had melting temperatures between 72 and 75°C [15]. PCR was followed by a melt (60 to 95°C). The generation of a single product of appropriate size was routinely checked by the presence of a single melt peak and by agarose gel-electrophoresis. Product identity was confirmed by sequencing."}
2_test
{"project":"2_test","denotations":[{"id":"15320950-11152663-12070954","span":{"begin":608,"end":610},"obj":"11152663"},{"id":"15320950-10079033-12070955","span":{"begin":1713,"end":1715},"obj":"10079033"}],"text":"Animals were deeply anesthetized with sodium pentobarbital (100 mg/kg i.p.). Kidneys and brain were removed and pulverized in liquid N2. Temporal bones were removed and two preparations of inner ear tissues were obtained by microdissection: (1) stria vascularis without spiral ligament, and (2) spiral ganglia including the surrounding bone and the organ of Corti. The dissection medium was changed twice during the microdissection and isolated tissues were washed three times to minimize cross-contamination. The Slc26a4-/-genotype was verified by the observation of large otoconia in the utricular macula [14]. Total RNA was isolated and residual DNA contamination was removed by enzymatic digestion (RNeasy micro, Qiagen, Valencia, CA). Quality and quantity of 18S rRNA obtained from kidneys and brain were determined (Nano Assay, 2100 Bioanalyzer, Agilent, Palo Alto, CA). Further, the quality of RNA preparations obtained from stria vascularis and spiral ganglia was assessed (Pico Assay, 2100 Bioanalyzer). Real time RT-PCR was performed on RNA obtained from individual animals (OneStep RT-PCR, Qiagen; Smart Cycler, Cepheid, Sunnyvale, CA) in the presence of 0.2× SYBR green I (Molecular Probes). Transcripts of 18S rRNA and mRNA for the K+ channels KCNJ10, KCNQ1 and KCNQ4 were amplified using gene-specific primers (Table 1). RT was performed for 30 min at 50°C and 15 min at 95°C. PCR consisted of 50 cycles of 1 min at 60°C, 1 min at 72°C, 7s heating to hot-measurement temperature, 13s hot-measurement at 3–5°C below product melting temperature (Table 1) and 1 min at 94°C. Hot-measurements were performed to eliminate the detection of primer-dimers that had melting temperatures between 72 and 75°C [15]. PCR was followed by a melt (60 to 95°C). The generation of a single product of appropriate size was routinely checked by the presence of a single melt peak and by agarose gel-electrophoresis. Product identity was confirmed by sequencing."}