EMBO/SourceData huggingface dataset:
Figure legend: "(F) Macrophage  polarization was determined by immunofluorescence  in vehicle, LPS  and LPS+Dex  treated WT and AMPKα1-/- BMDMs, data are expressed as percentage positive cells. Data information: Results are displayed with box and whiskers in which the central band represents the means ± SEM (F). N= 3 (F) biological replicates. Statistical analysis by ANOVA F) * p&lt;0.05, ** p&lt;0.01, *** p&lt;0.001. Bar = 25 µm (F)."
NCBI gene IDs:
"AMPKα1: 105787"
Figure legend: "(F) WT and AMPKα1-/- Bone Marrow Derived Macrophages (BMDMs) were treated with either Dex  or the AMPK  activator 991  and protein phosphorylated  on serine were immunoprecipitated. Westen-blot for FOXO3, AMPKα1, actin  and the phosphorylated  form of FOXO3  were done. Quantification of the band intensity is provided normalized to those of actin  and total FOXO3, a representative example is shown. Data information: results are box and whiskers in which the central band represents the median F, N= 4-5 (F biological replicates. * p&lt;0.05, ** p&lt;0.01, *** p&lt;0.001 **** p&lt;0.0001 using ANOVA and Kruskal-Wallis tests"
NCBI gene IDs:
"AMPKα1: 105787"
Figure legend: "siRNA-mediated knockdown of PHPT1 in HeLa cells (24 h) with reference to GAPDH loading control. NT - non-targeting siRNA control."
NCBI gene IDs:
"PHPT1: 29085"
Figure legend: "Representative SAX profile of trypsin digested HeLa lysate (Abs280 nm). Base peak chromatograms are shown for select SAX fractions following high-resolution LC-MS/MS using an Orbitrap Fusion mass spectrometer: (D) fraction 3 (green); (E) fraction 6 (red); (F) fraction 10 (grey). Peptides were fragmented by HCD, with neutral loss of 98 amu from the precursor ions triggering EThCD (Ferries et al, 2017). Tandem mass spectra were separated according to fragmentation strategy in Proteome Discoverer prior to searching with Mascot. The ptmRS node was used for phosphosite localisation. Analysis was performed on three independent biological replicates for each condition (NT or PHPT1 siRNA)."
NCBI gene IDs:
"PHPT1: 29085"
Figure legend: "D-F.  Immunofluorescence images of the midgut section from the R4 region in Drosophila carrying esgts-GAL4-driven  UAS-lacZ  (D, control), Las RNAi (E), or Las  RNAi in response to ALA  administration (F). esg-GFP (green) indicates ISCs and their differentiating cells. Dl staining (red) was used to visualize ISCs. Data information: DAPI stained nuclei  are shown in blue. Scale bars represent 10 μm"
NCBI gene IDs:
"lacZ: 
GAL4: 
esg: 34903
Las: 40259"
Figure legend: "I-J. Immunofluorescence  images of control (FRT40A, I) and  Las RNAi (J) MARCM clones (green, outlined by white dotted lines) 10 days after clone induction (ACI). Pdm1 staining (red) was used to visualize ECs. K. Quantification of the ratio of Pdm1+ cells per clone of  MARCM clones with indicated genotypes. n is indicated. Each dot corresponds to one clone. L. Quantification of  MARCM clone size of experiments in (I-J). n is indicated. Each dot corresponds to one clone. Data information: DAPI stained nuclei  are shown in blue. Scale bars represent 10 μm (D Error bars represent SDs. Student's t-tests, ****p &lt; 0.0001, and non-significant (NS) represents p &gt; 0.05."
NCBI gene IDs:
"FRT40A: 
Las: 40259"
Figure legend: "A-F. Immunofluorescence images of midgut  sections from the R4 region in Drosophila carrying esgts-GAL4-driven expression of  CAT  cDNA (A), CAT  cDNA with AD4  administration (B), CAT  cDNA with ALA  administration (C), Keap1 RNAi (D), Keap1  RNAi with AD4 administration (E), or Keap1 RNAi with ALA administration (F). esg-GFP (green) represents ISCs and their differentiating cells. Dl staining (red) was used to visualize  ISCs. G. Quantification of the number  of esg-GFP+ cells, Dl+ cells of Drosophila  carrying esgts-GAL4-driven expression of  lacZ  cDNA, CAT  cDNA, CAT  cDNA with AD4  administration, CAT  cDNA with ALA administration, Keap1  RNAi, Keap1  RNAi with AD4 administration, or Keap1 RNAi with ALA administration. n is indicated. The numbers of quantified guts from left to right are 18, 19, 20, 18, 18, 19, 19, 18, 19, 20, 18, 18, 19, and 19. H. Quantification of the number of pH3+ cells and luciferase activity of Drosophila  carrying esgts-GAL4-driven expression of lacZ cDNA, CAT cDNA, CAT cDNA with AD4  administration, CAT cDNA with ALA administration, Keap1 RNAi, Keap1  RNAi with AD4 administration, or Keap1 RNAi with ALA administration. The numbers of quantified  guts from left to right are 18, 19, 20, 18, 18, 19, and 19. I- Data information: DAPI stained nuclei are shown in blue. Scale bars represent 10 μm Error bars represent SDs. Student's t-tests, *p &lt; 0.05, **p &lt; 0.01, ***p &lt; 0.001, ****p &lt; 0.0001, and non-significant (NS) represents p &gt; 0.05."
NCBI gene IDs:
"GAL4: 
lacZ: 
CAT: 40048
esg: 34903
Keap1: 42062"
Figure legend: "I-L. Representative images of the  midgut  section from the R4 region of  Drosophila carrying  esgts-GAL4-driven expression of lacZ cDNA (I),  Las RNAi (J), Las  RNAi and CAT cDNA (K), or Las  RNAi and Keap1  RNAi (L). esg-GFP (green) indicates ISCs and their differentiating cells. Dl staining (red) was used to visualize ISCs. Data information: DAPI stained nuclei are shown in blue. Scale bars represent 10 μm"
NCBI gene IDs:
"GAL4: 
lacZ: 
CAT: 40048
esg: 34903
Keap1: 42062
Las: 40259"
Figure legend: "F-H. Expression of esg-GAL4-driven UAS-GFP-mCherry-Atg8a  in 14-day Drosophila (F), 40-day Drosophila  (G), 40-day Drosophila with  ALA administration started at the middle age (26 days) (H). GFP  (green) and  mCherry (red). The red arrows indicate the autophagosomes. I. Quantification of the dot number  of mCherry in esg positive cells from experiments (F-H). n is indicated. The numbers  of quantified guts from left to right are 11, 10, and 12. J. Quantification of the dot size of mCherry in esg  positive cells from experiments (F-H). n is as indicated. K- Data information: DAPI stained nuclei  are shown in blue. Scale bars represent 2 μm Error bars represent SDs. Student's t-tests, *p &lt; 0.05, **p &lt; 0.01, ***p &lt; 0.001, ****p &lt; 0.0001, and non-significant (NS) represents p &gt; 0.05."
NCBI gene IDs:
"GAL4: 
esg: 34903"
Figure legend: "K-L. Immunofluorescence images of esg-GFP and Lysotracker staining with the midgut  section from the R4 region in 14-day flies carrying esgts-GAL4-driven UAS-lacZ  (K), and 14-day  flies carrying esgts-GAL4-driven  Las RNAi (L). esg-GFP (green; outlined by dotted lines), lysotracker (red). esg-GFP+ cells are outlined by dotted lines. M. Quantification of the dot number of Lysotracker in esg  positive cells from experiments (K-L). n is indicated. The numbers of quantified guts from left to right are 10, and 9. N. Quantification of the dot size of Lysotracker in esg positive cells from experiments (K-L). n is as indicated. O- Data information: DAPI stained nuclei are shown in blue. Scale bars represent 5 μm Error bars represent SDs. Student's t-tests, *p &lt; 0.05, **p &lt; 0.01, ***p &lt; 0.001, ****p &lt; 0.0001, and non-significant (NS) represents p &gt; 0.05."
NCBI gene IDs:
"lacZ: 
GAL4: 
esg: 34903
Las : 40259"
Figure legend: "O-P. Expression of esg-GAL4-driven UAS-GFP-mCherry-Atg8a in 14-day Drosophila carrying esgts-GAL4-driven UAS-lacZ  (flies were cultured at 18 °C and transferred to 29 °C after flies eclosion) (O), and 14-day  Drosophila  with  Las  depleted in ISCs and EBs (flies were cultured at 18 °C and transferred to 29 °C after flies eclosion) (P). GFP (green) and mCherry (red). The red arrows indicate the autophagosomes. Data information: DAPI stained nuclei  are shown in blue. Scale bars represent 2 μm Error bars represent SDs. Student's t-tests, *p &lt; 0.05, **p &lt; 0.01, ***p &lt; 0.001, ****p &lt; 0.0001, and non-significant (NS) represents p &gt; 0.05."
NCBI gene IDs:
"lacZ: 
GAL4: 
esg: 34903
Las: 40259"
Figure legend: "F-I. Representative images of the midgut  section from the R4 region of Drosophila carrying esgts-GAL4-driven expression of  lacZ  cDNA (F, control), Las RNAi (G),  Las RNAi and  Atg5  cDNA (H), or Las  RNAi with spermidine administration (I). GFP  (green) and Dl staining (red) was used to visualize ISCs. Data information: DAPI stained nuclei are shown in blue. Scale bars represent 10 μm"
NCBI gene IDs:
"lacZ: 
GAL4: 
Atg5: 31666
esg: 34903
Las : 40259
Las: 40259"
Figure legend: "N. Survival  (percentage) of female Drosophila with indicated genotypes. The numbers of quantified Drosophila: 100 (UAS-lacZ), 100 (Las RNAi), 100 (Las RNAi + UAS-Atg5), and 100 (Las RNAi + UAS-Atg8a). Three independent experiments were conducted. Data information: Error bars represent SDs. p-values for lifespan curves (N) were calculated by the log-rank test. The statistical tests used in other panels were student's t-tests. *p &lt; 0.05, **p &lt; 0.01, ***p &lt; 0.001, ****p &lt; 0.0001, and non-significant (NS) represents p &gt; 0.05."
NCBI gene IDs:
"lacZ: 
Atg5: 31666
Atg8a: 32001
Las: 40259"
Figure legend: "A-E. Expressions of Rab5-GFP reporter in ISCs of 14-day WT Drosophila (A), 40-day WT Drosophila (B), 40-day Drosophila with ALA administration (C), 14-day Drosophila carrying  esgts-GAL4&gt;UAS-lacZ (D), and 14-day Drosophila carrying esgts-GAL4&gt;Las RNAi (E). GFP (green). F. Quantification of fluorescence intensity of RAB5-GFP in experiments (A-E). Each dot corresponds to one cell. n is indicated. The numbers of quantified guts from left to right are 13, 11, 12, 10 and 13. G Data information: DAPI stained nuclei  are shown in blue. Scale bars represent 2 μm Error bars represent SDs. Student's t-tests, **p &lt; 0.01, ***p &lt; 0.001, ****p &lt; 0.0001, and non-significant (NS) represents p &gt; 0.05."
NCBI gene IDs:
"GAL4: 
lacZ: 
esg: 34903
Las: 40259"
Figure legend: "G-K. Expressions of  Rab7-GFP  reporter in ISCs of 14-day WT Drosophila (G), 40-day WT Drosophila (H), 40-day Drosophila with  ALA administration (I), 14-day Drosophila carrying esgts-GAL4&gt;UAS-lacZ (J), and 14-day Drosophila  carrying esgts-GAL4&gt;Las RNAi (K). GFP (green). L. Quantification of fluorescence intensity of  RAB7-GFP  in experiments (G-K). Each dot corresponds to one cell. n is indicated. The numbers of quantified guts from left to right are 11, 10, 11, 13 and 12. M Data information: DAPI stained nuclei  are shown in blue. Scale bars represent 2 μm Error bars represent SDs. Student's t-tests, **p &lt; 0.01, ***p &lt; 0.001, ****p &lt; 0.0001, and non-significant (NS) represents p &gt; 0.05."
NCBI gene IDs:
"GAL4: 
lacZ: 
esg: 34903
Las: 40259"
Figure legend: "M-Q. Immunofluorescence images of midgut section from the R4 region of Drosophila carrying esgts-GAL4-driven expression of lacZ cDNA (M, control), constitutively active form of RAB5 (N), constitutively active form of  RAB5 with ALA  administration (O), constitutively active form of RAB7 (P), or constitutively active form of RAB7 with ALA  administration (Q). GFP  (green) and  Dl staining (red) was used to visualize ISCs. Data information:  DAPI stained nuclei  are shown in blue. Scale bars represent 10 μm"
NCBI gene IDs:
"GAL4: 
lacZ: 
esg: 34903
RAB5: 33418
RAB7: 42841"
Figure legend: "A-D. Representative images of midgut sections from the R4 region of Drosophila carrying esgts-GAL4-driven expression of lacZ cDNA (A, control), Las  RNAi (B), Las RNAi and RAB5-CA (C), or Las RNAi and RAB7-CA (D). GFP  (green), Dl staining  (red) was used to visualize  ISCs. Data information: DAPI stained nuclei are shown in blue. Scale bars represent 10 μm"
NCBI gene IDs:
"GAL4: 
lacZ: 
esg: 34903
Las: 40259
RAB5: 33418
RAB7: 42841"
Figure legend: "C. Survival (percentage) of female  Drosophila of indicated genotypes. The numbers of quantified Drosophila: 100 (UAS-lacZ), 100 (Las  RNAi), 100 (Las RNAi + UAS-Rab5-CA) and 100 (Las RNAi + UAS-Rab7-CA). Three independent experiments were conducted Data information: Error bars represent SDs. p-values for lifespan curves (C) were calculated by the log-rank test. The statistical tests used in other panels were student's t-tests. *p &lt; 0.05, **p &lt; 0.01, ***p &lt; 0.001, ****p &lt; 0.0001, and non-significant (NS) represents p &gt; 0.05."
NCBI gene IDs:
"lacZ: 
Las: 40259
Rab5: 33418
Rab7: 42841"
Figure legend: "F-I. Immunofluorescence images of dpERK staining of midgut sections of the R4 region of 40-day Drosophila (F), 40-day Drosophila with ALA administration (G), 14-day Drosophila carrying esgts-GAL4-driven UAS-lacZ (H), and Drosophila carrying esgts-GAL4-driven Las RNAi (I). dpERK (red). J. Quantification of the fluorescence intensity of dpERK in experiments (F-I). Each dot corresponds to one cell. n is indicated. The numbers of quantified guts from left to right are 11, 12, 12, and 13. K Data information: DAPI stained nuclei are shown in blue. Scale bars represent 10 μm Error bars represent SDs. The statistical tests used in other panels were student's t-tests. *p &lt; 0.05, **p &lt; 0.01, ***p &lt; 0.001, ****p &lt; 0.0001, and non-significant (NS) represents p &gt; 0.05."
NCBI gene IDs:
"GAL4: 
lacZ: 
esg: 34903
Las: 40259"
Figure legend: "K-M. Representative images of midgut  sections from the R4 region of Drosophila carrying esgts-GAL4-driven expression of lacZ  cDNA (K, control), Las RNAi (L), or Las RNAi and dominant negative form of EGFR (EGFR-DN, M). GFP (green) and Dl staining  (red) was used to visualize ISCs. Data information: DAPI stained nuclei are shown in blue. Scale bars represent 10 μm"
NCBI gene IDs:
"lacZ: 
GAL4: 
EGFR: 37455
esg: 34903
Las: 40259"
Figure legend: "A Histochemical stained roots  from composite plants transformed with proMtNPF6.5:GUS  (left column), proMtNPF6.7:GUS (middle column), proMtNPF6.6:GUS (right column)."
NCBI gene IDs:
"GUS: 
NPF6.5: 
NPF6.6: 
NPF6.7: "
Figure legend: "B Expression of  MtNPFs in  roots after transfer to media containing different levels of NO3- for 30 minutes. C=KCl  control, N=KNO3 (Biological replicates: n = 3 (3 pooled root  organs in each replicate), asterisk denotes significance p&lt;0.05, Student's t-test). The means of all samples were compared to that of their concentration-matched KCl controls. Expression is shown relative to  Ubiquitin."
NCBI gene IDs:
"Ubiquitin: 11430063"
Figure legend: "A, B  I-V responses in oocytes (subtracted of the water injected controls) exposed to 40 mM Cl  at  pH5.8 (A) and pH7.4 (B). The currents were measured while the oocyte plasma membrane  was clamped at -60 mv to between 20 and -140 mv for 120 ms with -20 mv increments for each Cl- concentration. The Cl- -elicited current values in D were obtained by subtracting the currents in water  injected  oocytes from the MtNPF6.5  injected  oocytes at each Cl- concentration Data information: Value = mean ± SEM, biological replicates: n = 4"
NCBI gene IDs:
"NPF6.5: "
Figure legend: "C, D  I-V responses in the (C)  water and (D) MtNPF6.5 (subtracted of the water injected controls) injected oocytes exposed to different concentrations of Cl- at pH5.8. The currents were measured while the  oocyte plasma membrane  was clamped at -60 mv to between 20 and -140 mv for 120 ms with -20 mv increments for each Cl-  concentration. The  Cl-  -elicited current values in D were obtained by subtracting the currents in water  injected oocytes  from the MtNPF6.5 injected oocytes  at each Cl-  concentration. Data information: Value = mean ± SEM, biological replicates: n = 6"
NCBI gene IDs:
"NPF6.5: "
Figure legend: "C  Oocytes were exposed to 1.17 mM 36Cl- for 2h with 1 and 10 mM NO3-. Biological replicates: n=6 (4  oocytes in each sample). D The same data as in C is shown without AtNPF6.3 to allow for better comparison between MtNPFs. Biological replicates: n=6 (4 oocytes in each sample). Data information: Asterisks denote significant difference: **P&lt;0.01, *P&lt;0.05 (Student's t-test). In the boxplots, horizontal black bars represent the median, and black cross represent the mean. Boxes represent the middle 50% of the distribution, and whiskers represent the entire spread of the data. Means were compared using Student's t-test, α= 0.05."
NCBI gene IDs:
"NPF6.3: 837763"
Figure legend: "E Relative MtNPF expression following treatment with 5mM  KNO3 +100mM NaCl Data information: expression shown is relative to Ubiquitin; *p&lt; 0.05, Student's t-test; biological replicates: n= 3 (3 pooled root organs in each replicate) ±SEM."
NCBI gene IDs:
"Ubiquitin: 11430063"
Figure legend: "A The induction of  MtNPF6.7 and repression of  MtNPF6.5 by  NO3- requires MtNLP1. Plants were grown on FP  plates and then treated with 5 mM KNO3. expression shown is relative to UBQ; *p&lt;0.05, Student's t-test; biological replicates: n= 3 (3 pooled  root organs in each replicate)."
NCBI gene IDs:
"NLP1: 
NPF6.5: 
NPF6.7: 
UBQ: 11430063"
Figure legend: "B The switch from Cl-  to NO3-  as the major anion upon NO3- addition is lost in mtnlp1. Plants were grown on FP plates and then treated with 5 mM KNO3 treatment. *p&lt; 0.05, Student's t-test; biological replicates: n=4 (3 pooled root organs in each replicate).C"
NCBI gene IDs:
"nlp1: "
Figure legend: "(a) Effect of steroids on MERS-CoV replication. Vero cells were infected with MERS-CoV at MOI = 0.01 in the presence of steroids for 24 h. The viral titer in the cell supernatant was quantified by standard plaque assay using Vero/TMPRSS2 cells. Cell viability in the presence of steroids was quantified by WST assay at 24 hours post-infection (hpi)."
NCBI gene IDs:
"TMPRSS2: "
Figure legend: "(a) Intracellular SARS-CoV-2 RNA (6 hpi). VeroE6/TMPRSS2 cells were infected with SARS-CoV-2 at MOI = 1 in the presence of 10□μM compounds for 6 h. Cellular viral RNA was quantified by real-time PCR using the E gene primer/probe set."
NCBI gene IDs:
"TMPRSS2: 
E: 43740570"
Figure legend: "(b) Culture Medium SARS-CoV-2 RNA (27 hpi). VeroE6/TMPRSS2 cells were infected with SARS-CoV-2 at MOI = 0.01 in the presence of ciclesonide for 27 h. Viral RNA in culture medium was quantified by real-time PCR using the E gene primer/probe set. Cell viability in the presence of ciclesonide was quantified at 27 hpi by WST assay."
NCBI gene IDs:
"TMPRSS2: 
E: 43740570"
Figure legend: "(A) Expression of all rate-limiting glycolytic isoenzymes in R1 cells after knockdown of Stat3 using three independent shRNAs compared to an empty vector control shRNA (sh-ctrl), as measured by Western blot. β-actin was employed as a loading control throughout. (B-I) Expression of the pluripotency genes c-Myc, Oct-4, Nanog, Klf4 and Sox-2 in R1 cells after knockdown of Hk2 (B), Pfkl (C), Hk1 (D), Hk3 (E), Pfkm (F), Pkm2 (G), Pklr (H) and Pfkp (I) glycolytic enzymes using two or three independent shRNAs, as measured by Western blot. D"
NCBI gene IDs:
"Hk1: 15275
Hk2: 15277
Hk3: 212032
Pfkl: 18641
Pfkm: 18642
Pfkp: 56421
Pklr: 18770
Pkm2: 18746
Stat3: 20848"
Figure legend: "(A-C) Expression of Pfkp mRNA levels (top panels) and Stat3 and Pfkp protein expression (bottom panels) after knockdown of Stat3 using three independent shRNAs in either R1 cells (A) or E14 cells (B) or after overexpression of Stat3 in R1 cells (C), as measured by qPCR and Western blot, respectively. β-actin was employed as a loading control throughout."
NCBI gene IDs:
"Pfkp: 56421
Stat3: 20848"
Figure legend: "ChIP assays against Stat3 p-Stat3 (Y705) or isotype-matched immunoglobulin G (IgG) (F), as measured by PCR, and images were representative of three independent experiments. Nanog promoter is shown as a positive control."
NCBI gene IDs:
"Nanog: 71950"
Figure legend: "(G) Transcriptional activity of the indicated pGL3-based Pfkp promoter or mutant constructs expressed in HEK293T cells with or without overexpression of Stat3, as measured by luciferase reporter assay (top panel). Western blotting was used to verify Stat3 expression (bottom panel)."
NCBI gene IDs:
"Pfkp: 56421
Stat3: 20848"
Figure legend: "(B) Representative images of alkaline phosphatase-stained colonies formed by R1 cells after overexpression of Pfkp. Images were representative of three independent experiments."
NCBI gene IDs:
"Pfkp: 56421"
Figure legend: "(K, L) Representative images of immunofluorescence staining in control and Pfkp knockdown R1 cells for Sox17 following definitive endoderm differentiation (K) or Foxa2 following definitive endoderm differentiation (L). Green staining indicates positive cells with nuclei counterstained with DAPI. Images were representative of three independent experiments. (M, N) Quantitative analysis of Sox17 (M) and Foxa2 (N) in R1 cells from (K) and (L), respectively as determined by flow cytometry. Representative profiles (left panels) and quantitation (right panels) as a percentage of total cells."
NCBI gene IDs:
"Pfkp: 56421"
Figure legend: "(E-F) Co-IP assays mapping interactions between Pfkp and fragments of Lin41 (E), interactions between Lin41 and fragments of Pfkp (F) in HEK293T cells."
NCBI gene IDs:
"Pfkp: 56421
Lin41: 636931"
Figure legend: "(J, K) Expression of Lin41 in control versus Pfkp knockdown R1 cells without or with MG132 treatment (J) or with Lactacyctin treatment (K), as determined by Western blot."
NCBI gene IDs:
"Pfkp: 56421"
Figure legend: "(F) HEK293T cells were co-transfected with the indicated vectors to overexpress Pfkp in combination with HA-ubiquitin (Ub) and the individual wildtype Flag-Lin41 or serine substitution mutants. Lin41 ubiquitination levels were determined using Western blotting against HA (top panels) with input samples analyzed in parallel to verify transfection efficiency (bottom panels)."
NCBI gene IDs:
"Flag: 
HA: 
Ub: 
ubiquitin: 
Pfkp: 56421
Lin41: 636931"
Figure legend: "(G) Control or Pfkp knockdown R1 cells were co-transfected with the individual wildtype Flag-Lin41 or serine substitution mutants and Lin41 ubiquitination levels determined as per (F) using Western blotting against Flag. (H) In vitro ubiquitination assays employing the products from in vitro kinase assays employing recombinant GST-Lin41 and Flag-Pfkp, with Lin41 ubiquitination measured by Western blotting against Lin41. ("
NCBI gene IDs:
"Flag: 
Pfkp: 56421
Lin41: 636931"
Figure legend: "(G-J) RNA pull-down assays measuring interactions between Fgf5 (G), Otx2 (H), Sox1 (I), and Pax2 (J) mRNAs and endogenous Lin41 in R1 cells. Recovery of each mRNA was compared in sense and anti-sense probes using qPCR (top) with Western blotting used to detect Lin41(bottom)."
NCBI gene IDs:
"Fgf5: 14176
Otx2: 18424
Pax2: 18504
Sox1: 20664"
Figure legend: "(K) Relative stability of mRNAs for the ectodermal genes Fgf5, Otx2, Sox1, and Pax2 R1 cells in control and Pfkp knockdown EBs at Day 6, as determined in actinomycin D chase assays. (L) Relative stability of ectodermal gene mRNAs measured as per (K) in Day 6 Pfkp knockdown EBs transfected with or without Lin41."
NCBI gene IDs:
"Fgf5: 14176
Otx2: 18424
Pax2: 18504
Pfkp: 56421
Sox1: 20664
Lin41: 636931"
Figure legend: "The mRNA expression of splicing regulator SRSF2 and splicing factor PCBP2 during hematopoietic differentiation were measured by RT-qPCR. The ACTB gene was used as a control. Results given are mean ± standard deviation (SD). P-values were determined by an unpaired two-tailed Student's t-test. n ≥ 3 biological replicates."
NCBI gene IDs:
"ACTB: 60
PCBP2: 5094
SRSF2: 6427"
Figure legend: "The representative FACS plots show the frequency of CD31+CD34+ EPCs in the GFP+ population at day 5 with 1.25 nM PLB supplementation alone or in combination with NUMB_S ectopic expression from day 2.5. The bar graph denotes the percentage of CD31+CD34+ in GFP+ cells as described in (F). P-values were determined by an unpaired two-tailed Student's t-test."
NCBI gene IDs:
"NUMB_S: 8650"
Figure legend: "On day 5 of hematopoietic differentiation, the inclusion or exclusion of NUMB exon 9 were detected by RT-PCR with 1.25 nM PLB supplementation or SRSF2 exogenous expression alone or their combinational treatment from day 2.5. The bar graph showing the signaling intensity of each specific band from the RT-PCR electropherogram."
NCBI gene IDs:
"NUMB: 8650
SRSF2: 6427"
Figure legend: "The top panel depicts the location of specific primers targeting NUMB_S and NUMB_L isoform. The bottom bar graph showing the expression of NUMB_S and NUMB_L in cells on day 5 of differentiation with 1.25 nM PLB supplementation or SRSF2 exogenous expression alone or their combinational treatment from day 2.5 with RT-qPCR."
NCBI gene IDs:
"NUMB_L: 8650
NUMB_S: 8650
SRSF2: 6427"