EMBO/SourceData huggingface dataset:
Figure legend: "miR-499-5p qPCR analysis of total RNA isolated from PBMCs of healthy control subjects (-CMT, n=17) and healthy subjects with a history of childhood maltreatment (+CMT, n=17). (****p&lt;0.0001, Mann-Whitney U test). CMT: Childhood maltreatment. Data are presented as violin plots with median, quartiles and data points."
NCBI gene IDs:
"miR-499-5p: 574501"
Figure legend: "Association of miR-499-5p expression and GMV in HC (n=23): miR-499-5p levels were negatively correlated with a GMV cluster comprising parts of the left Wernicke language area (i.e. transverse temporal gyrus, the left parietal operculum and the left superior temporal gyrus) (in blue) at p&lt;.05 cluster-level family wise error-corrected (FWE) for multiple comparisons after an initial threshold of p&lt;.001 uncorrected (k=1090, x/y/z=-42/-30/15, t= 4.7, p=.045)."
NCBI gene IDs:
"miR-499-5p: 100314091"
Figure legend: "(A) p53-dependent dephosphorylation of Ulk1 at Ser637. p53+/+ and p53−/−MEFs were treated with etoposide (10 µM), and the expression of each protein was examined by western blotting. Dead cells (%) indicates the population of apoptotic cells assessed by propidium iodide (PI) staining. α-Tubulin was used as a loading control. A semiquantitative analysis of protein expression is shown in Fig. EV1."
NCBI gene IDs:
"p53: 22059"
Figure legend: "(B, C) PPM1D-dependent dephosphorylation of Ulk1 at Ser637 and the induction of autophagy. PPM1D+/+MEFs and PPM1D−/−MEFs were treated with etoposide (10 µM), and the expression of each protein was examined by western blotting. Dead cells (%) indicates the population of apoptotic cells."
NCBI gene IDs:
"PPM1D: 53892"
Figure legend: "(B, C) PPM1D-dependent dephosphorylation of Ulk1 at Ser637 and the induction of autophagy. PPM1D+/+MEFs and PPM1D−/−MEFs were treated with etoposide (10 µM), and the expression of each protein was examined by western blotting. Dead cells (%) indicates the population of apoptotic cells. (C) Semiquantitative analysis of protein expression is shown (n = 3; mean ± SD). *p &lt; 0.05, **p &lt; 0.01, NS: not significant. (D-I) Suppression of etoposide-induced autophagy in PPM1D−/−MEFs."
NCBI gene IDs:
"PPM1D: 53892"
Figure legend: "(D, E) The indicated MEFs were treated with etoposide (10 µM) for 6 hr and then immunostained with an anti-LC3 antibody (green). Representative images are shown in (D). LC3 puncta are observed in etoposide-treated PPM1D+/+MEFs. (E) The proportion of cells with LC3 puncta was calculated (n &gt; 100 cells in each experiment). Data are shown as the mean  ±  SD (n = 3 experiments). *p &lt; 0.05, **p &lt; 0.01."
NCBI gene IDs:
"PPM1D: 53892"
Figure legend: "(F, G) The indicated MEFs were treated with etoposide (10 µM) for 6 hr and then analyzed using electron microscopy. Representative images are shown in (F). Many autophagic vacuoles (arrows) can be seen in etoposide-treated PPM1D+/+cells (upper panel). \"N\" indicates the nucleus. Bar = 2 µm. A representative autophagosome (AP) and autolysosome (AL) are shown in the insets. (G) The number of autophagosomes and autolysosomes in each cell were counted (n &gt; 8 cells). Red lines indicate the mean value. *p &lt; 0.05."
NCBI gene IDs:
"PPM1D: 53892"
Figure legend: "(A, B) Effect of stable expression of PPM1D in PPM1D−/−MEFs. PPM1D−/−MEFs and PPM1D-transfected PPM1D−/−MEFs were treated with etoposide (10 µM), and the expression of each protein was examined by western blotting. (B) Semiquantitative analyses of protein expression in (A) (n = 3; mean ±  SD). *p &lt; 0.05, **p &lt; 0.01, NS: not significant."
NCBI gene IDs:
"PPM1D: 53892"
Figure legend: "(E, F) Effect of the transient overexpression of PPM1D. PPM1D+/+MEFs were transfected with a PPM1D-Flag plasmid in the presence or absence of bafilomycin A1 (10 nM), and the expression of each protein was examined by western blotting. (F) Semiquantitative analyses of protein expression in (E) (n = 3; mean  ±  SD). *p &lt; 0.05, **p &lt; 0.01, NS: not significant."
NCBI gene IDs:
"PPM1D: 53892"
Figure legend: "(B) Interaction between endogenous Ulk1 and recombinant PPM1D. Lysates from healthy PPM1D+/+ MEFs were incubated with GST-PPM1D or GST. Binding molecules were then analyzed by western blotting using anti-Ulk1 and anti-GST antibodies. \"Total lysate\" indicates 7% of the lysates that were incubated with GST fusion protein."
NCBI gene IDs:
"PPM1D: 53892"
Figure legend: "(C) In vitro Ulk1 dephosphorylation assay. Immunoprecipitated Ulk1 from PPM1D+/+ MEF lysates was incubated with GST-PPM1D (1 µg) with or without a phosphatase inhibitor cocktail for 1 hr. Then, the extent of Ulk1 dephosphorylation was analyzed by western blotting using anti-phospho-Ulk1637 and anti-phospho-Ulk1757 antibodies. Semiquantitative analyses are shown in Fig. EV2B."
NCBI gene IDs:
"PPM1D: 53892"
Figure legend: "(F-J) The crucial role of Ulk1 dephosphorylation at Ser637 in etoposide-induced autophagy. (F-H) Ulk1/Ulk2 DKO MEFs that were stably transfected with HA-Ulk1 or its mutants, S637D and S637A, were treated with etoposide (10 µM). Then, the cell lysates were collected time-dependently, and the expression of each protein was examined by western blotting. Asterisks in the Ulk1 blots are nonspecific bands. Semiquantitative analyses are shown in Fig. EV2E."
NCBI gene IDs:
"Ulk1: 22241
Ulk2: 29869"
Figure legend: "(F-J) The crucial role of Ulk1 dephosphorylation at Ser637 in etoposide-induced autophagy. (I, J) The indicated MEFs were treated with or without etoposide (10 µM) for 6 hr, followed by immunostaining with an anti-LC3 antibody. Representative images are shown in (I). LC3 puncta are markedly observed in DKO MEFs transfected with wild-type HA-Ulk1. Puncta were absent and weakly observed in MEFs expressing the mutants S637D and S637A, respectively. (J) The population of cells with LC3 puncta was calculated (n &gt; 100 cells in each experiment). Data are shown as the mean  ±  SD (n = 3 experiments). *p &lt; 0.05, **p &lt; 0.01."
NCBI gene IDs:
"Ulk1: 22241"
Figure legend: "(A-D) Ulk1 puncta formation was induced by etoposide in a PPM1D-dependent manner. The indicated MEFs were treated with etoposide (10 µM) with or without GSK2830371 (20 µM) for the indicated times, followed by immunostaining with an anti-Ulk1 antibody. Representative images are shown in (A). Ulk1 puncta are observed in etoposide-treated PPM1D+/+MEFs. (B-D) The proportion of cells with Ulk1 puncta was calculated (n &gt; 100 cells in each experiment). Data are shown as the mean  ± SD (n = 3 experiments). *p &lt; 0.05, **p &lt; 0.01, NS: not significant."
NCBI gene IDs:
"PPM1D: 53892"
Figure legend: "(E-I) Role of the dephosphorylation of Ulk1 at Ser637 on etoposide-induced Ulk1 puncta formation and Atg13 phosphorylation. Ulk1/Ulk2 DKO MEFs stably transfected with HA-Ulk1 or its mutants, S637D and S637A, were treated with etoposide (10 µM) for the indicated times. (E, F) Cells were immunostained with an anti-Ulk1 antibody (E), and the population of cells with Ulk1 puncta was calculated (n &gt; 100 cells in each experiment) (F). Data are shown as the mean  ±  SD (n = 3 experiments). *p &lt; 0.05, **p &lt; 0.01."
NCBI gene IDs:
"Ulk1: 22241
Ulk2: 29869"
Figure legend: "(E-I) Role of the dephosphorylation of Ulk1 at Ser637 on etoposide-induced Ulk1 puncta formation and Atg13 phosphorylation. Ulk1/Ulk2 DKO MEFs stably transfected with HA-Ulk1 or its mutants, S637D and S637A, were treated with etoposide (10 µM) for the indicated times. (G-I) Cell lysates were collected in a time-dependent manner, and Atg13 protein levels and its phosphorylation at Ser317 were examined by western blotting. Semiquantitative analyses are shown in Fig. EV3D."
NCBI gene IDs:
"Ulk1: 22241
Ulk2: 29869"
Figure legend: "(J) EGFP-DFCP1-expressing PPM1D+/+MEFs were treated with etoposide (10 µM) for the indicated times, followed by immunostaining with an anti-Ulk1 antibody. Representative images of EGFP-DFCP1 (green; left), anti-Ulk1 (red; center), and a merged image (right) are shown. The nuclei were stained with Hoechst 33342 in the merged image. A magnified image of the area within the dashed square is also shown. Arrowheads indicate DFCP1 puncta localized close to Ulk1 puncta."
NCBI gene IDs:
"PPM1D: 53892"
Figure legend: "(K, L) The role of Ulk1 dephosphorylation at Ser637 on etoposide-induced DFCP1 puncta formation. Ulk1/Ulk2 DKO MEFs stably transfected with HA-Ulk1 or its mutants, S637D and S637A, were transfected with EGFP-DFCP1 and treated with etoposide (10 µM) for the indicated hours, followed by immunostaining with an anti-HA antibody. Representative merged images of EGFP-DFCP1 (green), anti-HA (red), and Hoechst 33342 (blue) are shown in (K). Arrowheads indicate DFCP1 puncta localized close to Ulk1 puncta. The number of DFCP1 puncta in each cell was calculated and is shown in (L) (n &gt; 8 cells in each experiment). Red lines indicate the mean values. **p &lt; 0.01, NS: not significant."
NCBI gene IDs:
"Ulk1: 22241
Ulk2: 29869"
Figure legend: "(A) PPM1D-dependent dephosphorylation of Ulk1 at Ser637, induction of autophagy, and degradation of Noxa. PPM1D+/+ and PPM1D−/− primary thymocytes were X-rayirradiated (5 Gy), and 3 hr later, thymocytes were lysed and the expression of each protein was examined by western blotting. α-Tubulin was used as a loading control. Semiquantitative analyses are shown in Fig. EV5B."
NCBI gene IDs:
"PPM1D: 53892"
Figure legend: "(B-F) Suppression of X-ray-induced autophagy in PPM1D−/−thymocytes. (B, C) The indicated thymocytes were X-rayirradiated (5 Gy), and 3 hr later, thymocytes were immunostained with an anti-LC3 antibody. Nuclei were stained with Hoechst 33342. Representative images are shown in (B). LC3 puncta can be seen in irradiatedPPM1D+/+thymocytes (arrowheads). In (C), the proportion of cells with LC3 puncta was calculated (n &gt; 100 cells in each experiment). Data are shown as the mean  ± SD (n = 3 experiments). *p &lt; 0.05."
NCBI gene IDs:
"PPM1D: 53892"
Figure legend: "(B-F) Suppression of X-ray-induced autophagy in PPM1D−/−thymocytes. (D) The indicated thymocytes were X-ray irradiated (5 Gy), and 3 hr later, thymocytes were subjected to EM analysis. An autophagic vacuole (arrowhead) can be seen in an irradiated PPM1D+/+thymocyte."
NCBI gene IDs:
"PPM1D: 53892"
Figure legend: "(B-F) Suppression of X-ray-induced autophagy in PPM1D−/−thymocytes. (E) The indicated thymocytes were X-ray irradiated (5 Gy), and 3 hr later, thymocytes were stained with Cyto-IDTM. Representative flow cytometry data are shown. Quantitative data are shown in Fig. EV5C. Cyto-ID fluorescence in irradiated PPM1D+/+thymocytes was higher than that in the other thymocytes."
NCBI gene IDs:
"PPM1D: 53892"
Figure legend: "(B-F) Suppression of X-ray-induced autophagy in PPM1D−/−thymocytes. (F) Analysis of autophagic flux. The indicated thymocytes were X-rayirradiated (5 Gy) in the presence or absence of chloroquine (120 µM), and the expression of each protein was examined by western blotting. α-Tubulin was included as a loading control. Semiquantitative analyses are shown in Figure EV4D."
NCBI gene IDs:
"PPM1D: 53892"
Figure legend: "(G-J) Contribution of PPM1D/Ulk1-dependent autophagy to irradiation-induced apoptosis. (G) Thymocytes were X-ray irradiated (5 Gy), and 6 hr later, cell death was determined using the PI assay. Data represent the mean  ± SD (n = 3 independent thymi). *p &lt; 0.05, **p &lt; 0.01, NS: not significant."
NCBI gene IDs:
"PPM1D: 53892
Ulk1: 22241"
Figure legend: "(G-J) Contribution of PPM1D/Ulk1-dependent autophagy to irradiation-induced apoptosis. (H, I) Thymocytes were X-rayirradiated (5 Gy), and 3 hr later, the expression of each protein was examined by western blotting. α-Tubulin was included as a loading control. (I) Semiquantitative analyses are shown (n = 3; mean  ±  SD). *p &lt; 0.05, **p &lt; 0.01."
NCBI gene IDs:
"PPM1D: 53892
Ulk1: 22241"
Figure legend: "(G-J) Contribution of PPM1D/Ulk1-dependent autophagy to irradiation-induced apoptosis. (J) Indicated thymocytes were X-ray irradiated (5 Gy), and 3 hr later, caspase3/7 activity was examined using the Caspase-Glo 3/7 assay (Promega) according to the manufacturer's protocol. Data are shown as the mean  ± SD (n = 3 experiments). *p &lt; 0.05, **p &lt; 0.01."
NCBI gene IDs:
"PPM1D: 53892
Ulk1: 22241"
Figure legend: "(K) The effect of Noxa siRNA on thymocytes. The indicated thymocytes were transfected with the pmaxGFP vector and siRNAs. After 12 hr, cells were X-ray irradiated (5 Gy), and 6 hr or 10 hr later, the population of dead cells among the GFP-positive cells was determined using the PI assay. Data are shown as the mean  ± SD (n = 3 experiments). *p &lt; 0.05, NS: not significant."
NCBI gene IDs:
"Noxa: 58801"
Figure legend: "A. Up: The schematic diagram of PGCs induced from  chicken ESCs in vitro. Down: Morphological observation of the number of  embryoid bodies  in the in vitro PGCs induction model after LncBMP4overexpression and interference; oeLncBMP4 indicates the overexpression of LncBMP4; shLncBMP4 indicates the interference of LncBMP4; BMP4 induction was regarded as the control. Scale bar: 60 µm (n = 3 independent experiments)."
NCBI gene IDs:
"BMP4: 396165"
Figure legend: "B. The expression  of reproductive marker genes (Cvh  and C-kit), LncBMP4, and BMP4 were detected by  qRT-PCR after LncBMP4 overexpression and interference, in vitro (Data are shown as mean ± SEM, n = 3 independent experiments, * p &lt; 0.05, ** p &lt; 0.01, *** p &lt; 0.001, **** p &lt; 0.0001, one-way ANOVA) ."
NCBI gene IDs:
"BMP4: 396165
Cvh: 395447
C-kit: 378783"
Figure legend: "A. The results of IHC examining using anti-DDX4 antibody shows that the overexpression of LncBMP4 increases the  number  of PGCs in the genital ridge, and interference with LncBMP4 reduces the number of PGCs in the genital ridge. The number  of PGCs was counted through the Segmentation module of Image J software. Scale bars:200 μm (top row),40 μm (bottom row) (Data are shown as mean ± SEM, n = 3 independent experiments, * p &lt; 0.05, ** p &lt; 0.01, **** p &lt; 0.0001, one-way ANOVA)."
NCBI gene IDs:
"BMP4: 396165"
Figure legend: "B. The number of PGCs in the  genital ridge, following the overexpression or interference of LncBMP4, as determined by flow cytometry (Data are shown as mean ± SEM, n = 3 independent experiments, **** p &lt; 0.0001, one-way ANOVA)."
NCBI gene IDs:
"BMP4: 396165"
Figure legend: "D. The expression  of reproductive marker genes (Cvh and C-kit), LncBMP4, and BMP4 were detected by qRT-PCR in the  genital ridge after gga-mir-12211  overexpression and interference in vitro (Data are shown as mean ± SEM, n =3 independent experiments, * p &lt; 0.05, ** p &lt; 0.01, *** p &lt; 0.001, **** p &lt; 0.0001, one-way ANOVA)."
NCBI gene IDs:
"BMP4: 396165
Cvh: 395447
C-kit: 378783
mir-12211: 114483374"
Figure legend: "A. A luciferase  reporting system was used to detect the regulatory effects of gga-mir-12211 on the activity of  BMP4-3'UTR (Data are shown as mean ± SEM, n =3 independent experiments, * p &lt; 0.05, **** p &lt; 0.0001, one-way ANOVA)."
NCBI gene IDs:
"luciferase: 
BMP4: 396165
mir-12211: 114483374"
Figure legend: "B.  qRT-PCR was used to detect the regulatory effects of gga-mir-12211  on LncBMP4 expression (Data are shown as mean ± SEM, n =3 independent experiments, *** p &lt; 0.001, **** p &lt; 0.0001, one-way ANOVA)."
NCBI gene IDs:
"BMP4: 396165
mir-12211: 114483374"
Figure legend: "Enrichment levels of  m6A in LncBMP4 were detected by RIP-qPCR (Data are shown as mean ± SEM, n =3 independent experiments, **** p &lt; 0.0001, one-way ANOVA)."
NCBI gene IDs:
"BMP4: 396165"
Figure legend: "H and I. The effects of m6A modifications of LncBMP4 on the ceRNA system were detected by the luciferase reporting system (Data are shown as mean ± SEM, n =3 independent experiments, * p &lt; 0.05, **** p &lt; 0.0001, one-way ANOVA.)."
NCBI gene IDs:
"luciferase: 
BMP4: 396165"
Figure legend: "A. The influence of  m6A on the stability of LncBMP4 was detected by qRT-PCR (Data are shown as mean ± SEM, n =3 independent experiments, **** p &lt; 0.0001, one-way ANOVA)."
NCBI gene IDs:
"BMP4: 396165"
Figure legend: "D. The enrichment level of m6A, for LncBMP4 variants with the progressive accumulation of RRACH site mutations, was detected by RIP-qPCR   (Data are shown as mean ± SEM, n =3 independent experiments, * p &lt; 0.05, ** p &lt; 0.01, one-way ANOVA)."
NCBI gene IDs:
"BMP4: 396165"
Figure legend: "E. The ability of LncBMP4, modified with different levels of  m6A, to bind gga-mir-12211 was detected by the  luciferase  reporting system (Data are shown as mean ± SEM, n =3 independent experiments, ** p &lt; 0.01, **** p &lt; 0.0001, one-way ANOVA.)."
NCBI gene IDs:
"luciferase: 
BMP4: 396165
mir-12211: 114483374"
Figure legend: "D and E. Western blot(Up) was used to detect gga-mir-12211 and  m6A affect the ability of LncBMP4  to translate EPC5. Image J software was used for  gray level analysis(Down) (Data are shown as mean ± SEM, n =3 independent experiments, *** p &lt; 0.001,**** p &lt; 0.0001, one-way ANOVA.)."
NCBI gene IDs:
"BMP4: 396165
mir-12211: 114483374"
Figure legend: "(G) Kaplan-Meier survival plots. Differences between the control group (WT) and the FKN group were evaluated by a two-sided log-rank test."
NCBI gene IDs:
"FKN: 20312"
Figure legend: "(C) Kaplan-Meier survival plots of the indicated groups of mice. Survival differences between the control group (WT + αPD-1) and FKN + αPD-1 were evaluated by a two-sided log-rank test."
NCBI gene IDs:
"FKN: 20312"
Figure legend: "(D) Kaplan-Meier survival plot of the indicated treatment groups. Survival differences between the control group (WT) and FKN were evaluated by two-sided log-rank test."
NCBI gene IDs:
"FKN: 20312"
Figure legend: "(G&amp;H) WT or TRIM21 KO L929  cells were infected with MHV-A59 in the presence of electroporated  polyclonal antiserum (G) or anti-N antibody (H) and quantified by  cell area 48h later. Co-electroporation of Protein  A/G with anti-N antibody into WT cells mimics the TRIM21  KO phenotype. Data information: Data was analysed using a Students t-test. Error bars depict the mean +/- SEM. All data represents at least two independent replicates."
NCBI gene IDs:
"TRIM21: 20821"
Figure legend: "(A&amp;B)  Vero  cells OE ACE2  and TMPRSS2  were infected with SARS-CoV-2 in the presence of IgG or anti-N antibodies added directly into media or electroporated  into cells. Viral replication was then determined by RT-qPCR  (A) or plaque assay (B). Electroporation of anti-N antibodies significantly inhibits SARS-CoV-2 replication (*** = p &lt; 0.0002). Data information: All data represents at least three independent replicates. Error bars depict the mean +/- SEM. Statistical comparisons were performed using a one-way ANOVA."
NCBI gene IDs:
"ACE2: 103231639
TMPRSS2: 103219191"
Figure legend: "(F&amp;G) 293T ACE2 OE/TRIM21  KO cells reconstituted with EV or TRIM21, electroporated  with IgG or anti-N antibodies, and infected with SARS-CoV-2. Viral replication was then determined by RT-qPCR (F) or plaque assay (G). Electroporation of anti-N antibodies significantly inhibits SARS-CoV-2 replication only in  TRIM21-reconstituted cells (* = p &lt; 0.05). Data information: All data represents at least three independent replicates. Error bars depict the mean +/- SEM. Statistical comparisons were performed using two-way ANOVA."
NCBI gene IDs:
"ACE2: 59272
TRIM21: 6737"
Figure legend: "(C)  293T  cells OE ACE2 infected with SARS-CoV-2  in the presence of  electroporated  convalescent  sera. There are statistically significant differences in the ability of serum from different individuals to inhibit viral replication intracellularly (** = p&lt; 0.005, * = p&lt; 0.05). (D) 293T ACE2 OE/TRIM21 KOs reconstituted with either empty vector (EV) or TRIM21-expressing vector (TRIM21) infected with SARS-CoV-2 in the presence of electroporated convalescent  sera. Intracellular neutralization of viral replication is only observed in cells reconstituted with TRIM21 (** = p&lt; 0.005). Data information: All data represents at least three independent replicates. Error bars depict the mean +/- SEM. Statistical comparisons were performed using a one-way (C) or two-way (D) ANOVA."
NCBI gene IDs:
"ACE2: 59272
TRIM21: 6737"
Figure legend: "Immunoblot analysis of p-SMAD2 and total SMAD2 (t-SMAD2) in NMuMG cells with or without Ugcg deficiency and treated with vehicle control or TGF-β for 1 h. Tubulin: loading control."
NCBI gene IDs:
"Ugcg: 22234"
Figure legend: "Immunoblot analysis of E-cadherin and N-cadherin in Ugcg KO NMuMG or control NMuMG cells treated with vehicle control or TGF-β for 48 h. Tubulin: loading control."
NCBI gene IDs:
"Ugcg: 22234"
Figure legend: "Lysates from NMuMG control cells (Cas9-expressing cells) and Ugcg KO cells were subjected to sucrose density gradient ultracentrifugation. The expression levels of flotillin-1, β1-integrin, EEA1, and TβRI in the sucrose gradient fractions were analyzed by immunoblotting. Fractions 3, 4, and 5 contained lipid rafts, whereas fractions 10-12 corresponded to the non-lipid raft fractions. Quantification of TβRI percentages in lipid raft and non-lipid raft fractions from Ugcg KO NMuMG and control cells. Isolation of lipid rafts from other cellular components in A549-VIM-RFP cells treated with the UGCG inhibitor eliglustat (2 μM) for 6 days using sucrose density gradient ultracentrifugation and measurement of flotillin-1, β1-integrin, EEA1, and TβRI levels in the sucrose gradient fractions using immunoblot analysis. Fractions 3-6 contained lipid rafts, whereas fractions 10-12 corresponded to the non-lipid raft fractions. Quantification of TβRI percentages in lipid raft and non-lipid raft fractions from A549-VIM-RFP cells treated with eliglustat (2 μM) for 6 days."
NCBI gene IDs:
"Cas9: 69900935
Ugcg: 22234"
Figure legend: "Ubiquitination of TβRI was detected by immunoprecipitation (IP) of Myc-tagged caTβRI from HA-Ub-transfected HEK293T cells with or without eliglustat (2 μM) treatment for 6 days. All groups were treated with MG132 (5 μM) for 6 h."
NCBI gene IDs:
"HA: 
Myc: 
Ub: 
TβRI: 7046"
Figure legend: "Immunoblot analysis of p-SMAD2, t-SMAD2, and ST3GAL5 in A549-VIM-RFP cells with siRNA-mediated ST3GAL5 knockdown or transfection of nontargeting siRNA and treated with vehicle control or TGF-β for 1 h. Vinculin: loading control.   Quantification of the p-SMAD2 level in A549-VIM-RFP cells transfected with nontargeting or ST3GAL5 siRNA and treated with TGF-β as shown in (B).  "
NCBI gene IDs:
"ST3GAL5: 8869"
Figure legend: "Expression levels of ST3GAL5, the epithelial marker E-cadherin, and mesenchymal markers, including N-cadherin, vimentin, and SNAIL, in siRNA ST3GAL5-depleted and nontargeting siRNA-transfected A549-VIM-RFP cells treated with vehicle control or TGF-β for 48 h. Vinculin: loading control."
NCBI gene IDs:
"ST3GAL5: 8869"
Figure legend: "Immunoblot analysis of p-SMAD2 and t-SMAD2 in A549-VIM-RFP cells transduced with empty vector (pLV-EV) or the ST3GAL5 expression construct and stimulated with vehicle control or TGF-β for 1 h. GAPDH: loading control. Quantification of the p-SMAD2 level in A549-VIM-RFP cells transduced with pLV-EV or the ST3GAL5 overexpression construct and treated with TGF-β, as shown in (F)."
NCBI gene IDs:
"ST3GAL5: 8869"
Figure legend: "Immunoblot analysis of the epithelial marker E-cadherin and mesenchymal markers, including N-cadherin, vimentin, and SNAIL, in A549-VIM-RFP cells transduced with the pLV-EV control or ST3GAL5 expression construct and treated with vehicle control or TGF-β for 48 h. GAPDH: loading control."
NCBI gene IDs:
"ST3GAL5: 8869"
Figure legend: "HEK293T cells transfected with Myc-tagged caTβRI, (HA-Ub, and nontargeting siRNA or ST3GAL5 siRNA were collected for IP with an anti-Myc antibody and immunoblot analysis. All groups were treated with MG132 (5 μM) for 6 h."
NCBI gene IDs:
"HA: 
Myc: 
Ub: 
ST3GAL5: 8869
TβRI: 7046"
Figure legend: "Ubiquitination of TβRI was detected by IP of Myc-tagged caTβRI from HA-Ub-transfected HEK293T cells with or without ST3GAL5 overexpression. All groups were treated with MG132 (5 μM) for 6 h."
NCBI gene IDs:
"HA: 
Myc: 
Ub: 
ST3GAL5: 8869
TβRI: 7046"