EMBO/SourceData huggingface dataset:
Figure legend: "(G) Immunoprecipitation of SMAD3 in 293T cells co-transfected with GFP-SMAD3, HA-Ub and Flag-OTUD1 and then challenged with 10 μM MG132 for 6 h. Ubiquitinated SMAD3 was detected by immunoblotting using anti-HA antibody. (H) Immunoprecipitation of SMAD3 in 293T cells co-transfected with GFP-SMAD3, HA-Ub, and Flag-OTUD1 or Flag-OTUD1(C320S), and then challenged with 10 μM MG132 for 6 h. Ubiquitinated SMAD3 was detected by immunoblotting using anti-HA antibody. (I) Immunoprecipitation of SMAD3 in 293T cells co-transfected with GFP-SMAD3, Flag-OTUD1, and HA-Ub, HA-Ub-K48 (K48 only), or HA-Ub-K63 (K63 only), respectively, and then challenged with 10 μM MG132 for 6 h. Ubiquitinated SMAD3 was detected by immunoblotting using anti-HA antibody."
NCBI gene IDs:
"Flag: 
GFP: 
HA: 
OTUD1: 220213
SMAD3: 4088
Ub: 7316///7314"
Figure legend: "(A-B) 293T cells were transfected with various amount of Flag-OTUD1. Western blot analysis (A) and densitometric quantification (B) of SMAD3. GAPDH was used as the loading control (n=3 biological replicates)."
NCBI gene IDs:
"Flag: 
OTUD1: 220213"
Figure legend: "(G) Co-immunoprecipitation of SMAD3 and SMAD4 in 293T cells co-transfected with GFP-SMAD3, HA-Ub, and HA-Ub-K63 (K63 only), respectively, and then challenged with 10 μM MG132 for 6 h. Exogenous SMAD3 was immunoprecipitated by anti-GFP antibody."
NCBI gene IDs:
"GFP: 
HA: 
SMAD3: 4088
Ub: 7316///7314"
Figure legend: "(H) Co-immunoprecipitation of SMAD3 and SMAD4 in 293T cells co-transfected with GFP-SMAD3 and Flag-OTUD1 and then challenged with 10 μM MG132 for 6 h. Exogenous SMAD3 was immunoprecipitated by anti-GFP antibody. IgG, immunoglobulin G."
NCBI gene IDs:
"Flag: 
GFP: 
OTUD1: 220213
SMAD3: 4088"
Figure legend: "A. Representative pseudo colour images of sypHy    fluorescence in WT and BsnGT hippocampal neurons at rest, upon stimulation with 40 and 900 APs at 20Hz (in the presence of bafilomycin A1) and upon application of NH4Cl to visualise SVs  that were refractory to electrical stimulation. B. Average traces of the normalised fluorescence change (ΔF/F0) of sypHy    in WT (black) and  BsnGT (red) neurons  as described in A. Intensities were normalized to the peak of NH4Cl response. C. Quantifications of mean RRP   fraction in WT and BsnGT. D. Frequency distribution histograms of the response amplitudes of 1050 individual synaptic  puncta (from 6 independent experiments) to stimulation with 40 AP. The distribution is shifted to lower values in BsnGT. E. Quantifications of mean TRP   fraction in WT and BsnGT. F. Frequency distribution histograms of synaptic  response amplitudes in BsnGT and WT neurons  stimulated with 900 AP. Note the shift in distribution between genotypes. Data information: In the plots, the interquartile range and median are depicted as boxes, minimal and maximal values as whiskers, and + indicates mean. In the frequency distribution histograms (D and F) black lines depict superimposed Gaussian fits for each group. The sample size n (in parentheses) corresponds to the number of analysed imaging experiments (B, C, E) In D and F, the data of 1050 synapses per genotype were processed. Data is obtained from 6 (A-F) independent culture preparations. Significance was assessed with Student's t-test; *** p &lt; 0.001. Scale bar is 2 µm in A"
NCBI gene IDs:
"Bsn: 12217"
Figure legend: "G, Representative images of Syt1Ab  uptake (magenta) driven by endogenous network activity in  hippocampal neurons (18 DIV) from WT and BsnGT mice. VGLUT1  (green) marks  excitatory presynapses  (upper panels) and VGAT   the inhibitory  ones (lower panels). H. Quantification of normalized IF  of Syt1Ab  uptake in excitatory  (red boxes) and inhibitory  (pink boxes) synapses  on experiments in G. I. Quantification of fraction of active (Syt1Ab-labelled) excitatory  and inhibitory synapses on experiments illustrated in G. Data information: In the plots, the interquartile range and median are depicted as boxes, minimal and maximal values as whiskers, and + indicates mean. The dashed lines in H depict IF  in WT that were used for normalization. The sample size n (in parentheses) corresponds to the number of analysed images (G, Data is obtained from independent culture preparations. Significance was assessed with Student's t-test; *** p &lt; 0.001. Scale bar is 5 µm in G"
NCBI gene IDs:
"Bsn: 12217"
Figure legend: "A, B. Representative pseudo colour images (A) and average traces (B) of sypHy  fluorescence plotted for WT and BsnGT neurons  treated with a CDK5  inhibitor roscovitine  (rosc, 100µM, gray and pink trace) or vehicle (black and red trace) for 30 minutes before stimulation with 40 and 900 APs in the presence of  bafilomycin A. C, D. Plots show mean values of RRP  (C) and TRP  (D) fraction for both genotypes before and after treatment. E. Roscovitine  treatment has a significantly higher effect on RRP  and TRP  in BsnGT neurons compared to WT. Data information: n corresponding to the number of imaging experiments done on 4 independent cell preparations is given in brackets for each analysis. In the plots, the interquartile range and median are depicted as boxes, minimal and maximal values as whiskers, and + indicates mean. Significance was assessed by two-way ANOVA with Tukey´s multiple comparison test (C, D) and by Student's t-test (E) *p≤0.05, **p &lt; 0.01, ***p&lt; 0.001. Scale bar is 2µm."
NCBI gene IDs:
"Bsn: 12217"
Figure legend: "A. Representative immunoblot  with antibody against CDK5-dependent pSer551 of Syn1  (pSer551Syn1) and total Syn1  and total protein stain  used as loading control for quantification of Syn1  on P2 fractions prepared from hippocampal  tissue lysates of WT and BsnGT mice. B, C. Quantification of pSer551Syn1 / Syn1  ratio (in B) and total Syn1  (in C) abundance on blots  from A. Data information: In the plots, the interquartile range and median are depicted as boxes, minimal and maximal values as whiskers and + indicates mean. The sample size n (in brackets) corresponds to the number of independently processed animals in B and C For statistics, student's t-test in B and C were used, *p≤0.05, **p &lt; 0.01, ***p&lt; 0.001."
NCBI gene IDs:
"Bsn: 12217"
Figure legend: "E. Representative images of 19 DIV cultured hippocampal neurons from WT and BsnGT immunostained  for pSer551Syn1  and total Syn1. F. Quantification of IF  intensity of pSer551Syn1 in synapses  from WT,  BsnGT, and WT cells treated with roscovitine. Data information: In the plots, the interquartile range and median are depicted as boxes, minimal and maximal values as whiskers and + indicates mean. The sample size n (in brackets) corresponds to the number of independent images (E, quantified from two (F) independent cultures per condition. For statistics, one-way ANOVA with Sidak´s multiple comparisons test in F were used, *p≤0.05, **p &lt; 0.01, ***p&lt; 0.001. Scale bar is 5 µm in"
NCBI gene IDs:
"Bsn: 12217"
Figure legend: "G. Representative images of 21 DIV hippocampal WT and BsnGT neurons  at baseline activity, upon network activity silencing (TTX, 1 µM, 72 h) or in conditions of increased activity (BIC, 30 µM, 48 h) H. Quantification of experiment in G. Data information: In the plots, the interquartile range and median are depicted as boxes, minimal and maximal values as whiskers and + indicates mean. The sample size n (in brackets) corresponds to the number of independent images , G) quantified from four (H) independent cultures per condition. For statistics two-way ANOVA with Tukey´s multiple comparisons test in H were used, *p≤0.05, **p &lt; 0.01, ***p&lt; 0.001. Scale bar is 5 µm in G."
NCBI gene IDs:
"Bsn: 12217"
Figure legend: "A, B. Representative pseudo colour images (A) and average traces (B) of sypHy  fluorescence plotted from WT and  BsnGT hippocampal neurons treated with calcineurin  inhibitor FK506. Data information: Scale bar is 2 µm."
NCBI gene IDs:
"Bsn: 12217"
Figure legend: "C, D. Quantification of the RRP  and TRP  fractions in WT and  BsnGT neurons  from experiment in A, B. Data information: In all plots, the interquartile range and median are depicted as boxes, minimal and maximal values as whiskers, and + indicates mean. The sample size is given in brackets for each quantification and reflect the number of analysed imaging experiments done on 3 independently prepared cultures per genotype Statistical significance was assessed using two-way ANOVA with Tukey´s multiple comparison test for C and D significance is depicted as follows: *p≤0.05, **p &lt; 0.01, ***p&lt; 0.001."
NCBI gene IDs:
"Bsn: 12217"
Figure legend: "E. Representative Western blot  on P2 fractions prepared from hippocampal  tissue of WT and BsnGT mice  probed with antibodies against SNAP25 phosphorylated  onThr138 and total SNAP25. F. Quantification of blot  in E shows lower pThr138SNAP25 to total SNAP25 IF  ratio in BsnGT compared to WT. Data information: In all plots, the interquartile range and median are depicted as boxes, minimal and maximal values as whiskers, and + indicates mean. The sample size is given in brackets for each quantification and reflect the number of animals per genotype used for WB  in F Statistical significance was assessed using Student's t-test in F, significance is depicted as follows: *p≤0.05, **p &lt; 0.01, ***p&lt; 0.001."
NCBI gene IDs:
"Bsn: 12217"
Figure legend: "A, B. Representative pseudo colour images (A) and average traces (B) of sypHy  fluorescence plotted for WT and  BsnGT neurons  without treatment (black and red) and upon treatment with adenylyl cyclase activator forskolin  (gray and pink) or PKA  inhibitor H89  (light grey and orange). Data information: The scale bar is 2 µm in A"
NCBI gene IDs:
"Bsn: 12217"
Figure legend: "E. Representative immunoblot  with antibody against pSer9Syn1 and total Syn1  and total protein stain  of hippocampal  P2 fraction from WT and BsnGT mice  prepared in the presence of KN 93 to isolate PKA-dependent regulation of pSer9Syn1. F, G. Quantification of pSer9Syn1/Syn1  ratio (in F) and Syn1  (in G) on blots  from E. Data information: In the plots, the interquartile range and median are depicted as boxes, minimal and maximal values as whiskers and + indicates mean. The sample size is given in brackets and corresponds to the number of analysed independent imaging experiments samples prepared from individual animals in F and G, The statistical significance was assessed in F and G using Student's t-test as is depicted in graphs as *p≤0.05, **p &lt; 0.01, ***p&lt; 0.001."
NCBI gene IDs:
"Bsn: 12217"
Figure legend: "H. Representative images of  hippocampal neurons from WT and  BsnGT mice  labelled with antibodies against pSer9Syn1 and total Syn1. Neurons  were pre-treated (4 µM, 1hr) with KN93 to isolate PKA-dependent phosphorylation  and then treated in addition with forskolin  or H89  before fixation. I. Quantification of staining  in H. Data information: In the plots, the interquartile range and median are depicted as boxes, minimal and maximal values as whiskers and + indicates mean. The sample size is given in brackets and corresponds to the independent visual fields obtained from 2 independent culture preparations in I. The statistical significance was assessed in I using two-way ANOVA with Tukey´s multiple comparison test as *p≤0.05, **p &lt; 0.01, ***p&lt; 0.001. The scale bar is 5 µm in H."
NCBI gene IDs:
"Bsn: 12217"
Figure legend: "A, B. Representative pseudo colour images (A) and average traces (B) of sypHy  fluorescence plotted for untreated WT and BsnGT neurons  (black and red) and cultures treated with of 6-Bnz-cAMPS (50 µM, 1 hour; gray and pink) and rolipram  (1 µM, 30 min, light grey and orange). Data information: Scale bar is 2µm."
NCBI gene IDs:
"Bsn: 12217"
Figure legend: "I. Representative immunoblot  with antibody against CDK5-dependent pSer145PDE4B and total PDE4B  on hippocampal  tissue from WT and BsnGT animals."
NCBI gene IDs:
"Bsn: 12217"
Figure legend: "A. Immunoblotting of c-MYC and ATF4 in melanoma cells treated with NT-siRNA (-) or siASNS (#1 or #2) for 72 hr."
NCBI gene IDs:
"ASNS: 440"
Figure legend: "Reverse transcription with quantitative PCR (RT-qPCR) of the indicated transcripts in melanoma cells 36 hr after treatment with siASNS (#1 or #2) (B)"
NCBI gene IDs:
"ASNS: 440"
Figure legend: "C. Reverse transcription with quantitative PCR (RT-qPCR) of the indicated transcripts in melanoma cells 36 hr after treatment with siASNS, siATF4, or both (C)."
NCBI gene IDs:
"ASNS: 440
ATF4: 468"
Figure legend: "D. Immunoblotting of ATF4 and ASNS in melanoma cells 72 hr after treatment with siASNS, siATF4, or both."
NCBI gene IDs:
"ASNS: 440
ATF4: 468"
Figure legend: "E. Proliferation of melanoma cells over indicated times after treatment with siASNS, siATF4, or both."
NCBI gene IDs:
"ASNS: 440
ATF4: 468"
Figure legend: "F. RT-qPCR analysis of indicated transcripts in melanoma cells 36 hr after treatment with siASNS (#1 or #2)."
NCBI gene IDs:
"ASNS: 440"
Figure legend: "Immunoblotting of c-MYC in melanoma cells treated for 72 hr with siASNS, L-Asn, or both (G)"
NCBI gene IDs:
"ASNS: 440"
Figure legend: "A. Immunoblotting of c-MYC in A375 cells treated with NT-siRNA or siASNS for 24 hr followed by cycloheximide treatment for indicated timepoints (left). Plot showing relative protein levels of c-MYC (y-axis) as a function of time lapsed (x-axis) in the left panel (right)."
NCBI gene IDs:
"ASNS: 440"
Figure legend: "Immunoblotting of indicated proteins in melanoma cells 72 hr after treatment with NT-siRNA (-) or siASNS (#1 or #2) (B and C)"
NCBI gene IDs:
"ASNS: 440"
Figure legend: "Immunoblotting of indicated proteins in melanoma cells 72 hr after treatment with siASNS, PLX-4032, or both (D)."
NCBI gene IDs:
"ASNS: 440"
Figure legend: "F. A375 cells were treated with siASNS, SCH772984, or both for 72 hr followed by immunoblotting of phosphorylated and total GSK3-β."
NCBI gene IDs:
"ASNS: 440"
Figure legend: "G. A375 cells were treated with siASNS, HA-GSK3-β (S9A), or both for 72 hr followed by immunoblotting of indicated proteins."
NCBI gene IDs:
"HA: 
ASNS: 440
GSK3-β: 2932"
Figure legend: "H. RT-qPCR analysis of indicated transcripts in melanoma cells 36 hr after treatment with siASNS, HA-GSK3-β (S9A), or both."
NCBI gene IDs:
"HA: 
ASNS: 440
GSK3-β: 2932"
Figure legend: "A. Immunoblotting of indicated proteins in melanoma cells treated with siASNS, sicMYC (#1 or #2), or a combination of siASNS and sicMYC (#1 or #2) for 72 hr."
NCBI gene IDs:
"ASNS: 440
cMYC: 4609"
Figure legend: "B. RT-qPCR analysis of indicated transcripts in melanoma cells 36 hr after treatment with siASNS, sicMYC, or both."
NCBI gene IDs:
"ASNS: 440
cMYC: 4609"
Figure legend: "C. Immunoblotting of indicated proteins in melanoma cells 72 hr after treatment with siASNS, sicMYC, PLX-4032, or a combination of siASNS and sicMYC, or siASNS and PLX-4032."
NCBI gene IDs:
"ASNS: 440
cMYC: 4609"
Figure legend: "D. Immunoblotting of indicated proteins in A375 cells 72 hr after treatment with siASNS, HA-GSK3-β (S9A), or both."
NCBI gene IDs:
"HA: 
ASNS: 440
GSK3-β: 2932"
Figure legend: "E. RT-qPCR analysis of indicated transcripts in melanoma cells after 36 hr treatment with siASNS, HA-GSK3-β (S9A), or both."
NCBI gene IDs:
"HA: 
ASNS: 440
GSK3-β: 2932"
Figure legend: "Proliferation of melanoma cells over indicated times after treatment with siASNS, sicMYC, or both (G),"
NCBI gene IDs:
"ASNS: 440
cMYC: 4609"
Figure legend: "Proliferation of melanoma cells over indicated times after treatment with siASNS, HA-GSK3-β (S9A), or both (H)."
NCBI gene IDs:
"HA: 
ASNS: 440
GSK3-β: 2932"
Figure legend: "A. Immunoblotting of indicated proteins in A375 cells 72 hr after treatment with siASNS, siSLC1A5, siSLC7A5, or a combination of siASNS and siSLC1A5, or siASNS and siSLC7A5."
NCBI gene IDs:
"ASNS: 440
SLC1A5: 6510
SLC7A5: 8140"
Figure legend: "B. RT-qPCR analysis of indicated transcripts in melanoma cells after 36 hr treatment with siASNS, siSLC7A5, or both."
NCBI gene IDs:
"ASNS: 440
SLC7A5: 8140"
Figure legend: "C. Proliferation of melanoma cells over indicated times after treatment with siASNS, siSLC7A5, or both."
NCBI gene IDs:
"ASNS: 440
SLC7A5: 8140"
Figure legend: "D. GC-MS-based estimation of intracellular amino acid levels in A375 cells treated with siASNS, siATF4, or both (top left); siASNS, sicMYC, or both (top right); siASNS, siSLC1A5, or both (bottom left); or siASNS, siSLC7A5, or both (bottom right). The fold change is relative to NT-siRNA-treated A375 cells."
NCBI gene IDs:
"ASNS: 440
ATF4: 468
cMYC: 4609
SLC1A5: 6510
SLC7A5: 8140"
Figure legend: "Immunoblotting of indicated proteins in A375 cells 72 hr after , treatment with siASNS, sicMYC, or both"
NCBI gene IDs:
"ASNS: 440
cMYC: 4609"
Figure legend: "Immunoblotting of indicated proteins in A375 cells 72 hr after indicated treatment with , siASNS, siSLC7A5, or both (G)"
NCBI gene IDs:
"ASNS: 440
SLC7A5: 8140"
Figure legend: "Immunoblotting of indicated proteins in A375 cells 72 hr after indicated treatment with siASNS, BCH, or both (H)"
NCBI gene IDs:
"ASNS: 440"
Figure legend: "Immunoblotting of indicated proteins in A375 cells 72 hr after indicated treatment with siASNS, HA-GSK3-β (S9A), or both (I)"
NCBI gene IDs:
"HA: 
ASNS: 440
GSK3-β: 2932"
Figure legend: "Immunoblotting of indicated proteins in A375 cells 72 hr after indicated treatment with , siASNS or indicated combinations (J)"
NCBI gene IDs:
"ASNS: 440"
Figure legend: "Immunoblotting of indicated proteins in A375 cells 72 hr after indicated treatment with siASNS, siSLC3A2, or both (K)."
NCBI gene IDs:
"ASNS: 440
SLC3A2: 6520"
Figure legend: "L. RT-qPCR analysis of indicated transcripts in melanoma cells after 36 hr treatment with siASNS, siSLC3A2, or both."
NCBI gene IDs:
"ASNS: 440
SLC3A2: 6520"
Figure legend: "M. Proliferation of melanoma cells over indicated times after treatment with siASNS, siSLC3A2, or both."
NCBI gene IDs:
"ASNS: 440
SLC3A2: 6520"
Figure legend: "E: Immunofluorescent detection and quantification of total Nanog and Esrrb protein in E14Tg2a ESCs overexpressing Nanog (left) or Esrrb (right) cultured for three days in GMEMβ/FCS/LIF. Parental E14Tg2as are shown as a reference. The red lines indicate the negative thresholds defined by staining ESCs differentiatied for 3 days in the absence of LIF and presence of retinoic acid."
NCBI gene IDs:
"Esrrb: 26380
Nanog: 71950"
Figure legend: "G: Histograms showing expression levels of Esrrb-GFP and Nanog-mCherry from the respective targeted endogenous alleles in SSEA1+ NER ESCs overexpressing Nanog (left) or Esrrb (right) cultured for three days in GMEMβ/FCS/LIF. Parental NER ESCs are shown as a reference, and wild-type E14Tg2a set the negative thresholds."
NCBI gene IDs:
"Esrrb: 26380
Nanog: 71950"
Figure legend: "H: Comparative flow cytometric analysis of Esrrb-2a-tdTomato and Nanog:GFP expression in undifferentiated SSEA-1+ TNG E-2a-tdT or Nanog-null ES∆N E-2a-tdT ESCs cultured for three days in GMEMβ/FCS/LIF. Data are shown as dot plots (top) and histogram (bottom)."
NCBI gene IDs:
"Nanog: 71950"
Figure legend: ": Sorted SSEA-1+ and Esrrb-GFPhigh/Nanog-mCherryhigh NER ESCs were replated in GMEMβ/FCS/LIF and SSEA-1+ cells were analysed daily for Esrrb-GFP and Nanog-mCherry expression. Wild-type E14Tg2a set the negative thresholds."
NCBI gene IDs:
"Esrrb: 26380
Nanog: 71950"
Figure legend: "C: Quantitative Esrrb mRNA expression analysis of populations sorted Error bars: standard deviation of gene expression values measured in four independent experiments."
NCBI gene IDs:
"Esrrb: 26380"
Figure legend: "A: Percentage of methylated CpG dinucleotides profiled across the Esrrb and Nanog enhancer and the Nanog promoter in sorted SSEA-1+ / EsrrbHi, EsrrbMed or EsrrbNeg E-GFPd1 ESCs and TNG E-2a-tdT EpiSC. CpG methylation was assessed by measuring protection from digestion of the HpaII, AciI, Hin6I or TaqI restriction sites (indicated by vertical lines in the gene structure maps derived from the mouse reference genome (mm9) and expressed relative to the TSS in ESCs Values represent total CpG methylation levels (5mC + 5hmC). Error bars: standard deviation of the measures in four independent experiments."
NCBI gene IDs:
"AciI: 
Hin6I: 
HpaII: 
TaqI: 
Esrrb: 26380
Nanog: 71950"
Figure legend: "B: Methylated CpG dinucleotides across the Esrrb enhancer were assessed SSEA-1+ / EsrrbHi E-GFPd1 ESCs were sorted and placed back in culture overnight before resorting and methylation analysis relative to Esrrb- E-GFPd1 ESCs. Error bars: standard deviation of the measures in three independent experiments."
NCBI gene IDs:
"Esrrb: 26380"
Figure legend: "D: Quantitative ChIP-PCR analysis of OCT4, NANOG and ESRRB binding and histone modifications at the Esrrb and Nanog enhancers and the Nanog promoter in the sorted populations Error bars: standard deviation of the measures in two (NANOG, ESRRB, H3K27ac) or three (OCT4, H3K4me3, H3K4me1) independent ChIP experiments, each performed on pooled chromatin from at least three independently sorted samples. The diagrams at the bottom show the approximate position of the regions analysed for transcription factor binding or histone modifications (in color or black), along with the relative control genomic locations (grey)."
NCBI gene IDs:
"Esrrb: 26380
Nanog: 71950"
Figure legend: "H, I: Binding profiles of OCT4 and NANOG in the proximity of two genes representative of (H) Class I (Tet2) or (I) Class II (Sall1) in EsrrbHi, EsrrbMed or EsrrbNeg E-GFPd1 ESCs. The relative occupancies of NANOG and OCT4 at Tet2 or Sall1 (positions highlighted by hatched boxes) alongside expression levels of Tet2 and Sall1 mRNAs in EsrrbHi (EH), EsrrbMed (EM) or EsrrbNeg (EN) GFPd1 ESCs and EpiSC (Epi) is shown at the bottom. Oct4 binding data from EpiSC"
NCBI gene IDs:
"Sall1: 58198
Tet2: 214133"
Figure legend: ": Average binding profile of ESRRB, KLF4, NANOG, OCT4 and SOX2 to Class I (green), Class II (orange) or all Nanog and Oct4 bound (grey dashed line) elements in ESCs. Read counts per base pair were normalised by library size and by subtracting the background (IgG) signal."
NCBI gene IDs:
"Nanog: 71950
Oct4: 18999"
Figure legend: "(E) Representative images (Left) of smFISH in DRG section, tSNE plot of 10x Genomics (Middle), and quantitative result (Right) showed that C530044C16Rik was co-localized with Gal-Cre; Ai9 tdTomato neurons (n = 7), but not with Sst-Cre neurons (n = 6). (F) Representative smFISH images (Left), tSNE plot of 10x Genomics (Middle), and quantitative result (Right) showed that CLAP was co-localized with Sst-Cre; Ai9 tdTomato neurons (n = 6), but not with Gal-Cre neurons (n = 29). (G) Representative smFISH images (Left), tSNE plot of 10x Genomics (Middle), and quantitative result (Right) showed that Gm11549 was co-localized with Slc17a8-Cre; Ai9 tdTomato neurons (n = 5), but not with Mrgprd-Cre neurons (n = 6). (H) Representative smFISH images (Left), tSNE plot of 10x Genomics (Middle), and quantitative result (Right) showed that 2310002F09Rik was co-localized with Slc17a8-Cre; Ai9 tdTomato neurons (n = 6), but not with Slc17a8-Cre neurons (n = 6)."
NCBI gene IDs:
"tdTomato: 
2310002F09Rik: 100504720
CLAP: 12042
C530044C16Rik: 319981
Cre: 2777477
Gal: 855828
Mrgprd: 211578
Slc17a8: 216227
Gm11549: 100503068
Sst: 20604"
Figure legend: "(I-K) Representative images (Right) of double smFISH showed that 2310002F09Rik was rarely co-localized with C530044C16Rik (I), CLAP (J) and Gm11549 (K). Scale bar, 10 µm."
NCBI gene IDs:
"2310002F09Rik: 100504720
CLAP: 12042
C530044C16Rik: 319981
Gm11549: 100503068"
Figure legend: "(D) Representative smFISH images in DRG sections and quantitative results showed that 2310002F09Rik and Gm14273 were more enriched in the nucleus, whereas CLAP and Gm11549 were mainly distributed in the cytoplasm. DAPI served as a nuclear marker. Scale bar, 10 μm."
NCBI gene IDs:
"2310002F09Rik: 100504720
CLAP: 12042
Gm14273: 102639473
Gm11549: 100503068"
Figure legend: "(B) Sequence conservation analysis of lincRNA CLAP and upstream mRNA Pirt in 9 different species including mouse, human, chimpanzee, rhesus monkey, rat, cow, dog, chicken and zebrafish, which were visualized with the VISTA browser. CDS, coding sequence. UTR, untranslated region."
NCBI gene IDs:
"CLAP: 12042
Pirt: 193003"