Journal: Cell Reports Methods

Article Title: A culture platform to study quiescent hematopoietic stem cells following genome editing

doi: 10.1016/j.crmeth.2022.100354

Figure Lengend Snippet:

Article Snippet: Anti-mouse Ter-119-PerCP-Cy5.5 (clone: TER-119) , TONBO biosciences , Cat# 65-5921-U100.

Techniques: Recombinant, Flow Cytometry, Transfection, cDNA Synthesis, Purification, Expressing, Sequencing, CRISPR, Titration, Software, Spectrophotometry

Journal: bioRxiv

Article Title: Anemia and tissue hypoxia are major determinants of malarial hypelactatemia

doi: 10.1101/2024.10.22.619641

Figure Lengend Snippet: Anemia is one of the main contributors to high lactate. A) Malaria infection (Py17XL and Py17XNL) and anemia (PHZ and anti-TER119) mouse models timeline representation (figure created using Biorender). B) Lactate (mmol/L) levels comparison between Py17XL (n=9) and Py17XNL (n=9). C) Parasitemia (%) comparison between Py17XL (n=9) and Py17XNL (n=9). D) Hematocrit (%) levels at day of culling, E) Lactate (mmol/L) levels at day of culling. Uninfected n=25, Py17xl n=30, Py17XNL=9, PHZ n=14, anti-TER119 n=13. Error bars show median with interquartile range. One-way ANOVA p-value <0.0001, p-values for Tukey’s multiple comparison test: <0.0001= ****, 0.0005=***, <0.001=**. Eight to ten-week-old wild-type female C57BL/6J mice were used in all experiments. Py17XL: P. yoelii 17XL infected mice, Py17XNL : P. yoelii 17XNL infected mice, PHZ: phenylhydrazine treated mice, anti-TER119: anti-TER119 treated mice

Article Snippet: As an isotype control for anti-TER119, 3 mice receive the same concentration of InVivoMAb rat IgG2b isotype control, anti-keyhole limpet hemocyanin (Bio X Cell).

Techniques: Infection, Comparison

Journal: bioRxiv

Article Title: Anemia and tissue hypoxia are major determinants of malarial hypelactatemia

doi: 10.1101/2024.10.22.619641

Figure Lengend Snippet: Liver and kidney dysfunction lead to reduced lactate clearance. A) Mouse plasma ALT levels (ng/ml) Kruskal-Wallis test p-value <0.0001, p-values for Dunn’s multiple comparison test shown on the graph, Uninfected n=19, Py17XL n=20, Py17XL+Art n=12, Py17XL +Art + WB n=10, Py17XNL n= 9, PHZ n=14, anti-TER119 n=10, Error bars show median with interquartile range. B) Mouse plasma AST levels (ng/ml), Kruskal-Wallis test p-value <0.0001, p-values for Dunn’s multiple comparison test shown on the graph, Uninfected n=17, Py17XL n=20, Py17XL+Art n=11, Py17XL +Art + WB n=10, Py17XNL n= 9, PHZ n=12, anti-TER119 n=10, Error bars show median with interquartile range. C) Perls’ Prussian Blue stain in mouse kidney. i-v: transverse kidney image, scale bar:2.5mm, vi-x: zoomed in images, scale bar:250um, blue arrowheads point towards hemosiderin deposits. Images shown representative of: Uninfected n=6, Py17XL n=8, Py17XNL n= 5, PHZ n=4, anti-TER119 n=4, Eight to ten-week-old wild-type female C57BL/6J mice were used in all experiments.

Article Snippet: As an isotype control for anti-TER119, 3 mice receive the same concentration of InVivoMAb rat IgG2b isotype control, anti-keyhole limpet hemocyanin (Bio X Cell).

Techniques: Comparison, Staining

Journal: Molecular and Cellular Biology

Article Title: Mutual Balance of Histone Deacetylases 1 and 2 and the Acetyl Reader ATAD2 Regulates the Level of Acetylation of Histone H4 on Nascent Chromatin of Human Cells

doi: 10.1128/mcb.00421-19

Figure Lengend Snippet: Figure 1. Deletion of HDAC1 is associated with a compensatory increase in the 914

Article Snippet: 425 426 Antibodies 427 Antibodies were as follows: mouse -HDAC1 Cat. No. 5356 (Cell Signaling); rabbit -428 HDAC1 Cat. No. NB100-56340SS (Novus Biologicals); mouse -HDAC2 Cat. No. 5113 (Cell 429 Signaling); rabbit -HDAC2 Cat. No. 57156 (Cell Signaling); -PCNA Cat. No. sc-56 (Santa 430 Cruz); -Nucleolin Cat. No. 396400 (Life Technologies); rabbit -ATAD2 Cat. No.61369 (Active 431 Motif); rabbit -ATAD2 Cat. No 23894-AP (Proteintech); -biotin (mouse) Cat. No. MB-9100 432 (Vector Laboratories); -biotin (rabbit) Cat. NoA150-109A (Bethyl); -H4K12ac Cat. No. 39165 433 on F ebruary 9, 2020 at V LU N D U LU B 2 http://m cb.asm .org/ D ow nloaded from (Active Motif); -H4K5ac Cat. No.39699 (Active Motif); -H3K9ac Cat. No. 9649 (Cell 434 Signaling); rabbit -BrdU Cat. No. GTX128091 (GeneTex); rat -BrdU/CldU Cat. No. NB500-435 169 (Novus Biologicals); mouse -BrdU/IdU Cat. No.347580 (BD Biosciences); mouse -436 RNA/DNA hybrid, clone S9.6 Cat. No. MABE1095 (Millipore-Sigma), rabbit -RNA/DNA hybrid, 437 clone S9.6 Cat. No. Ab01137-23.0 (Absolute Antibody); rabbit -RNAseH1 Cat. No. 15606-1-AP 438 (Proteintech), goat -V5-FITC Cat. No. A190-119F (Bethyl).

Techniques:

Journal: Molecular and Cellular Biology

Article Title: Mutual Balance of Histone Deacetylases 1 and 2 and the Acetyl Reader ATAD2 Regulates the Level of Acetylation of Histone H4 on Nascent Chromatin of Human Cells

doi: 10.1128/mcb.00421-19

Figure Lengend Snippet: Figure 5. Ectopic expression of HDAC2 reverses elevated HDAC1 and histone acetylation 1007

Article Snippet: 425 426 Antibodies 427 Antibodies were as follows: mouse -HDAC1 Cat. No. 5356 (Cell Signaling); rabbit -428 HDAC1 Cat. No. NB100-56340SS (Novus Biologicals); mouse -HDAC2 Cat. No. 5113 (Cell 429 Signaling); rabbit -HDAC2 Cat. No. 57156 (Cell Signaling); -PCNA Cat. No. sc-56 (Santa 430 Cruz); -Nucleolin Cat. No. 396400 (Life Technologies); rabbit -ATAD2 Cat. No.61369 (Active 431 Motif); rabbit -ATAD2 Cat. No 23894-AP (Proteintech); -biotin (mouse) Cat. No. MB-9100 432 (Vector Laboratories); -biotin (rabbit) Cat. NoA150-109A (Bethyl); -H4K12ac Cat. No. 39165 433 on F ebruary 9, 2020 at V LU N D U LU B 2 http://m cb.asm .org/ D ow nloaded from (Active Motif); -H4K5ac Cat. No.39699 (Active Motif); -H3K9ac Cat. No. 9649 (Cell 434 Signaling); rabbit -BrdU Cat. No. GTX128091 (GeneTex); rat -BrdU/CldU Cat. No. NB500-435 169 (Novus Biologicals); mouse -BrdU/IdU Cat. No.347580 (BD Biosciences); mouse -436 RNA/DNA hybrid, clone S9.6 Cat. No. MABE1095 (Millipore-Sigma), rabbit -RNA/DNA hybrid, 437 clone S9.6 Cat. No. Ab01137-23.0 (Absolute Antibody); rabbit -RNAseH1 Cat. No. 15606-1-AP 438 (Proteintech), goat -V5-FITC Cat. No. A190-119F (Bethyl).

Techniques: Expressing

Journal: Molecular and Cellular Biology

Article Title: Mutual Balance of Histone Deacetylases 1 and 2 and the Acetyl Reader ATAD2 Regulates the Level of Acetylation of Histone H4 on Nascent Chromatin of Human Cells

doi: 10.1128/mcb.00421-19

Figure Lengend Snippet: Figure 12. A working model of the relationship between HDAC1, HDAC2, ATAD2, 1147

Article Snippet: 425 426 Antibodies 427 Antibodies were as follows: mouse -HDAC1 Cat. No. 5356 (Cell Signaling); rabbit -428 HDAC1 Cat. No. NB100-56340SS (Novus Biologicals); mouse -HDAC2 Cat. No. 5113 (Cell 429 Signaling); rabbit -HDAC2 Cat. No. 57156 (Cell Signaling); -PCNA Cat. No. sc-56 (Santa 430 Cruz); -Nucleolin Cat. No. 396400 (Life Technologies); rabbit -ATAD2 Cat. No.61369 (Active 431 Motif); rabbit -ATAD2 Cat. No 23894-AP (Proteintech); -biotin (mouse) Cat. No. MB-9100 432 (Vector Laboratories); -biotin (rabbit) Cat. NoA150-109A (Bethyl); -H4K12ac Cat. No. 39165 433 on F ebruary 9, 2020 at V LU N D U LU B 2 http://m cb.asm .org/ D ow nloaded from (Active Motif); -H4K5ac Cat. No.39699 (Active Motif); -H3K9ac Cat. No. 9649 (Cell 434 Signaling); rabbit -BrdU Cat. No. GTX128091 (GeneTex); rat -BrdU/CldU Cat. No. NB500-435 169 (Novus Biologicals); mouse -BrdU/IdU Cat. No.347580 (BD Biosciences); mouse -436 RNA/DNA hybrid, clone S9.6 Cat. No. MABE1095 (Millipore-Sigma), rabbit -RNA/DNA hybrid, 437 clone S9.6 Cat. No. Ab01137-23.0 (Absolute Antibody); rabbit -RNAseH1 Cat. No. 15606-1-AP 438 (Proteintech), goat -V5-FITC Cat. No. A190-119F (Bethyl).

Techniques:

Journal: JCI Insight

Article Title: Regulation of bile duct epithelial injury by hepatic CD71 + erythroid cells

doi: 10.1172/jci.insight.135751

Figure Lengend Snippet: (A) H&E staining of liver biopsies at the time of diagnosis of biliary atresia shows variable population of extramedullary cells (absent, scarce, or extensive cell clusters). Scale bar: 20 μM. (B) Immunofluorescence staining of surface markers, CD235a and CD71, identifies erythroblasts among hematopoietic cells. Scale bar: 20 μM. (C) Immunohistochemical staining using anti-CD71 antibody shows similar features in livers of a human neonate and newborn mice. The human liver tissue was obtained at the time of autopsy of a neonate without liver disease, and the mouse livers were obtained from saline- or RRV-injected neonatal mice at 1 day old. Scale bar: 20 μM. (D and E) Quantification of hepatic erythroblasts in response to RRV infection by using flow cytometry after incubation with anti-CD71 and anti-TER119 antibodies at days 1, 3, and 7 after injection of RRV or saline. *P < 0.05, ***P < 0.001. Differences in mean values were statistically analyzed by 2-tailed Student’s t test. n = 3–4/group.

Article Snippet: Fluorochrome-conjugated mouse antibodies were as follows: FITC-conjugated CD71 from eBioscience; APC-conjugated Cd8a and Pan-NK (CD49b) from Miltenyi Biotec; PerCP-conjugated CD3, CD4, CD49b, and anti-NKp46 antibody and BV605-conjugated CD3 and CD45 from BioLegend; and PE-conjugated TER119 from R&D Systems. (catalog FAB1125P).

Techniques: Staining, Biomarker Discovery, Immunofluorescence, Immunohistochemical staining, Saline, Injection, Infection, Flow Cytometry, Incubation

Journal: JCI Insight

Article Title: Regulation of bile duct epithelial injury by hepatic CD71 + erythroid cells

doi: 10.1172/jci.insight.135751

Figure Lengend Snippet: (A and B) Flow cytometry plots and graphical quantification of CD71+Ter119+ erythroblasts after anti-CD71 antibody or rat IgG injection within 12 hours of birth. Livers or extrahepatic bile ducts (EHBD) were harvested at day 1 and day 3 after injection. **P < 0.01, ***P < 0.001, ****P < 0.0001, n = 4 for each group. (C) Weight, jaundice, and survival percentage after the administration of anti-CD71 antibody or isotype (rat IgG) into newborn mice, followed by the i.p. administration of RRV 24 hours later. Two-tailed Student’s t test was used for weight comparison, and χ2 test was used for jaundice percentage. *P < 0.05, ***P < 0.001, ****P < 0.0001; Kaplan-Meier survival curve was analyzed by the log-rank (Mantel-Cox) test; n = 16 for Rat IgG group and n = 21 for anti-CD71 antibody group. (D) H&E staining of liver and EHBD at days 7 and 11 after RRV infection. n = 5 for rat IgG–treated group and n = 14 for anti-CD71 antibody–treated group. PV, portal vein. Scale bar: 20 μM.

Article Snippet: Fluorochrome-conjugated mouse antibodies were as follows: FITC-conjugated CD71 from eBioscience; APC-conjugated Cd8a and Pan-NK (CD49b) from Miltenyi Biotec; PerCP-conjugated CD3, CD4, CD49b, and anti-NKp46 antibody and BV605-conjugated CD3 and CD45 from BioLegend; and PE-conjugated TER119 from R&D Systems. (catalog FAB1125P).

Techniques: Flow Cytometry, Injection, Two Tailed Test, Comparison, Staining, Infection

Journal: JCI Insight

Article Title: Regulation of bile duct epithelial injury by hepatic CD71 + erythroid cells

doi: 10.1172/jci.insight.135751

Figure Lengend Snippet: (A–C) Representative plots and quantification of CD71+Ter119+ cells (A), CD4+ T cells and CD8+ T cells (B), and activation marker NKp46 in CD3–CD49b+ cells and total NK cell counts (C) in livers of RRV-infected mice pretreated with either rat IgG or anti-CD71 antibody. Differences in mean values analyzed by 2-tailed Student’s t test; **P < 0.01; ****P < 0.0001; n = 4/group.

Article Snippet: Fluorochrome-conjugated mouse antibodies were as follows: FITC-conjugated CD71 from eBioscience; APC-conjugated Cd8a and Pan-NK (CD49b) from Miltenyi Biotec; PerCP-conjugated CD3, CD4, CD49b, and anti-NKp46 antibody and BV605-conjugated CD3 and CD45 from BioLegend; and PE-conjugated TER119 from R&D Systems. (catalog FAB1125P).

Techniques: Activation Assay, Marker, Infection

Journal: JCI Insight

Article Title: Regulation of bile duct epithelial injury by hepatic CD71 + erythroid cells

doi: 10.1172/jci.insight.135751

Figure Lengend Snippet: (A) Schematic diagram of the injection timeline for anti-CD71 antibodies or rat IgG isotypes into newborn mice. (B) The quantification of hepatic CD71+Ter119+ cells by flow cytometry shows the prevention of the 3-day surge after RRV infection. Data were analyzed by 1-way ANOVA; ***P < 0.001; ****P < 0.0001; n = 4/group. (C) Jaundice and survival differences in 3 groups. Kaplan-Meier survival curve were analyzed by log-rank (Mantel-Cox) test; *P < 0.05; **P < 0.01; n = 8-16 in each group. (D) CD4+ T cells, CD8+ T cells, and NK cells were quantified by flow cytometry. Data were analyzed by 1-way ANOVA; *P < 0.05; **P < 0.01; ***P < 0.001; n = 3–4/group.

Article Snippet: Fluorochrome-conjugated mouse antibodies were as follows: FITC-conjugated CD71 from eBioscience; APC-conjugated Cd8a and Pan-NK (CD49b) from Miltenyi Biotec; PerCP-conjugated CD3, CD4, CD49b, and anti-NKp46 antibody and BV605-conjugated CD3 and CD45 from BioLegend; and PE-conjugated TER119 from R&D Systems. (catalog FAB1125P).

Techniques: Injection, Flow Cytometry, Infection

Journal: The Journal of allergy and clinical immunology

Article Title: RhoA/ROCK Signaling Modulates Lineage Commitment of Mesenchymal Stem Cells in Asthma through Lef1

doi: 10.1016/j.jaci.2018.08.023

Figure Lengend Snippet: Antibodies used for flow cytometry and immunohistochemical studies

Article Snippet: Four to six lung sections from each sample were used for analysis. table ft1 table-wrap mode="anchored" t5 TABLE E2. caption a7 Antibody Clone Species Application Source CD11b M1/70 Rat FC (0.25 μg/10 5 cells) BioLegend CD29 HMβ1–1 Hamster FC (0.25 μg/10 5 cells) BioLegend CD31 390 Rat FC (0.25 μg/10 5 cells) BioLegend CD34 HM34 Hamster FC (0.25 μg/10 5 cells) BioLegend Collagen 1 NB600–408 Rabbit WB (1:1000) Novus Biologicals E-cadherin 24E10 Rabbit IHC (1:200) ICC (1:200) WB (1:1000) Cell Signaling Technology Epi-CAM G8.8 Rat IHC (1:100) ThermoFisher EYFP GF28R Mouse IHC (1:100) ThermoFisher NB600–303 Rabbit IHC (1:100) Novus Biologicals Lef1 C12A5 Rabbit IHC (1:200) Cell Signaling Technology LepR BAF497 Goat FC (1:50) R&D Systems Nestin 1D11H2 Mouse FC (1:100) Proteintech pLef1 SAB4504256 Rabbit WB (1:1000) Sigma-Aldrich RhoA- GTPase 26904 Mouse IHC (1:100) ICC (1:50) WB (1:500) New East Biosciences Sca1 D7 Rat FC (0.25 μg/10 5 cells) BioLegend TER-119 BAM1125 Rat FC (1:50) R&D Systems Vimetin V9 Mouse IHC (1:50) ThermoFisher α-SMA SP171 Rabbit IHC (1:100) ICC (1:100) WB (1:1000) Sigma-Aldrich Open in a separate window IHC, Immunohistochemistry; ICC, Immunocytochemistry; WB, Western blotting; FC, Flow cytrometry Antibodies used for flow cytometry and immunohistochemical studies

Techniques: Flow Cytometry, Immunohistochemical staining