Recombinant:Article Title: Retinoic Acid Regulates Fetoplacental Vascularization via Notch Signaling and a SEMA3E/F-PLEXIND1 Axis
Article Snippet: .. 434 Jo urn al Pr e-p roo f STAR METHODS 435 436 KEY RESOURCES TABLE 437 REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit Anti-Erg Abcam Cat# ab92513 Donkey Anti-Rabbit Alexa Fluor 405 Abcam Cat# ab175664 Rat Anti-CD31 BD Cat# 550274 Donkey Anti-Rat Alexa Fluor 594 Invitrogen Cat# A21209 Goat Anti-DLL4 R&D Systems Cat# AF1389 Donkey Anti-Goat Alexa Fluor 488 Abcam Cat# ab150129 Rat Anti-ENDOMUCIN Fisher Scientific Cat# 14-5851-82 Rat Anti-LAMININ Sigma Cat# MAB1914P FITC-lectin from Bandeiraea simplicifolia (Griffonia simplicifolia) Sigma Cat# L9381 Chemicals, peptides, and recombinant proteins PBS Sigma Cat# T5648 Sucrose Sigma Cat# C8267 OCT Gibco Cat# 10010023 Super Frost Microscope Slides Fisher Scientific Cat# S5-3 Triton X100 Sakura Cat# 4583 BSA Fisher Scientific Cat# 22-037-246 Fluoromount-G Sigma Cat# 9002-93-1 HBSS SouthernBiotech Cat# 0100-01 Collagenase I from Clostridium histolyticum Sigma Cat# C0130 Retinoic acid (RA) Sigma Cat# 302-79-4 DAPT Fisher Scientific Cat #AAJ65864MA Normal Donkey Serum Southern Biotech Cat# 0030-01 All trans retinoic acid (ATRA) Sigma Cat #302-79-4 Furin Inhibitor EMD Millipore Cat #344930-1MG Critical commercial assays Click-iT® EdU Imaging Kit Fisher Scientific Cat# C10337 Emeraldamp® GT PCR Master Mix Takara Bio USA Cat# RR310A CD 45 microbeads Miltenyi Cat# 130-097-418 CD 31 microbeads Miltenyi Cat#130-052-301 Deposited data Single cell RNA sequencing of E9.5 placental cells. .. This Study GEO: GSE304388 Software and algorithms Custom analysis code This paper; GitHub https://github.com/ud p3f/ScRNAseq_E9.5 _placenta Experimental models: Organisms/strains Raldh2 (Niederreither 1999)12 N/A Software and algorithms CellRanger Illumina v8.0.1 R R project v4.3.3 Jo urn al Pr e-p roo f RStudio Posit v2023.12.1+402 Seurat (Zheng 2017; Stuart 2019)20,21 v4.4 Graphpad Prism Graphpad V10 Adobe Illustrator Adobe N/A Angio Tool National Cancer Institute; Zudaire et al. N/A Image J NIH N/A Other Leica DMi8 Lightning Confocal (SP8) Leica RRID:SCR_018169 Next Seq 2000 Illumina RRID:SCR_023614 MiSeq Illumina RRID:SCR_016379 438 EXPERIMENTAL MODEL AND SUBJECT DETAILS 439 440 Mice: 441 442 All animal procedures were approved by the University of Virginia Animal Care and Use 443 Committee (protocol No. 4277) and adhered to all ethical guidelines.
Microscopy:Article Title: Retinoic Acid Regulates Fetoplacental Vascularization via Notch Signaling and a SEMA3E/F-PLEXIND1 Axis
Article Snippet: .. 434 Jo urn al Pr e-p roo f STAR METHODS 435 436 KEY RESOURCES TABLE 437 REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit Anti-Erg Abcam Cat# ab92513 Donkey Anti-Rabbit Alexa Fluor 405 Abcam Cat# ab175664 Rat Anti-CD31 BD Cat# 550274 Donkey Anti-Rat Alexa Fluor 594 Invitrogen Cat# A21209 Goat Anti-DLL4 R&D Systems Cat# AF1389 Donkey Anti-Goat Alexa Fluor 488 Abcam Cat# ab150129 Rat Anti-ENDOMUCIN Fisher Scientific Cat# 14-5851-82 Rat Anti-LAMININ Sigma Cat# MAB1914P FITC-lectin from Bandeiraea simplicifolia (Griffonia simplicifolia) Sigma Cat# L9381 Chemicals, peptides, and recombinant proteins PBS Sigma Cat# T5648 Sucrose Sigma Cat# C8267 OCT Gibco Cat# 10010023 Super Frost Microscope Slides Fisher Scientific Cat# S5-3 Triton X100 Sakura Cat# 4583 BSA Fisher Scientific Cat# 22-037-246 Fluoromount-G Sigma Cat# 9002-93-1 HBSS SouthernBiotech Cat# 0100-01 Collagenase I from Clostridium histolyticum Sigma Cat# C0130 Retinoic acid (RA) Sigma Cat# 302-79-4 DAPT Fisher Scientific Cat #AAJ65864MA Normal Donkey Serum Southern Biotech Cat# 0030-01 All trans retinoic acid (ATRA) Sigma Cat #302-79-4 Furin Inhibitor EMD Millipore Cat #344930-1MG Critical commercial assays Click-iT® EdU Imaging Kit Fisher Scientific Cat# C10337 Emeraldamp® GT PCR Master Mix Takara Bio USA Cat# RR310A CD 45 microbeads Miltenyi Cat# 130-097-418 CD 31 microbeads Miltenyi Cat#130-052-301 Deposited data Single cell RNA sequencing of E9.5 placental cells. .. This Study GEO: GSE304388 Software and algorithms Custom analysis code This paper; GitHub https://github.com/ud p3f/ScRNAseq_E9.5 _placenta Experimental models: Organisms/strains Raldh2 (Niederreither 1999)12 N/A Software and algorithms CellRanger Illumina v8.0.1 R R project v4.3.3 Jo urn al Pr e-p roo f RStudio Posit v2023.12.1+402 Seurat (Zheng 2017; Stuart 2019)20,21 v4.4 Graphpad Prism Graphpad V10 Adobe Illustrator Adobe N/A Angio Tool National Cancer Institute; Zudaire et al. N/A Image J NIH N/A Other Leica DMi8 Lightning Confocal (SP8) Leica RRID:SCR_018169 Next Seq 2000 Illumina RRID:SCR_023614 MiSeq Illumina RRID:SCR_016379 438 EXPERIMENTAL MODEL AND SUBJECT DETAILS 439 440 Mice: 441 442 All animal procedures were approved by the University of Virginia Animal Care and Use 443 Committee (protocol No. 4277) and adhered to all ethical guidelines.
Imaging:Article Title: Retinoic Acid Regulates Fetoplacental Vascularization via Notch Signaling and a SEMA3E/F-PLEXIND1 Axis
Article Snippet: .. 434 Jo urn al Pr e-p roo f STAR METHODS 435 436 KEY RESOURCES TABLE 437 REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit Anti-Erg Abcam Cat# ab92513 Donkey Anti-Rabbit Alexa Fluor 405 Abcam Cat# ab175664 Rat Anti-CD31 BD Cat# 550274 Donkey Anti-Rat Alexa Fluor 594 Invitrogen Cat# A21209 Goat Anti-DLL4 R&D Systems Cat# AF1389 Donkey Anti-Goat Alexa Fluor 488 Abcam Cat# ab150129 Rat Anti-ENDOMUCIN Fisher Scientific Cat# 14-5851-82 Rat Anti-LAMININ Sigma Cat# MAB1914P FITC-lectin from Bandeiraea simplicifolia (Griffonia simplicifolia) Sigma Cat# L9381 Chemicals, peptides, and recombinant proteins PBS Sigma Cat# T5648 Sucrose Sigma Cat# C8267 OCT Gibco Cat# 10010023 Super Frost Microscope Slides Fisher Scientific Cat# S5-3 Triton X100 Sakura Cat# 4583 BSA Fisher Scientific Cat# 22-037-246 Fluoromount-G Sigma Cat# 9002-93-1 HBSS SouthernBiotech Cat# 0100-01 Collagenase I from Clostridium histolyticum Sigma Cat# C0130 Retinoic acid (RA) Sigma Cat# 302-79-4 DAPT Fisher Scientific Cat #AAJ65864MA Normal Donkey Serum Southern Biotech Cat# 0030-01 All trans retinoic acid (ATRA) Sigma Cat #302-79-4 Furin Inhibitor EMD Millipore Cat #344930-1MG Critical commercial assays Click-iT® EdU Imaging Kit Fisher Scientific Cat# C10337 Emeraldamp® GT PCR Master Mix Takara Bio USA Cat# RR310A CD 45 microbeads Miltenyi Cat# 130-097-418 CD 31 microbeads Miltenyi Cat#130-052-301 Deposited data Single cell RNA sequencing of E9.5 placental cells. .. This Study GEO: GSE304388 Software and algorithms Custom analysis code This paper; GitHub https://github.com/ud p3f/ScRNAseq_E9.5 _placenta Experimental models: Organisms/strains Raldh2 (Niederreither 1999)12 N/A Software and algorithms CellRanger Illumina v8.0.1 R R project v4.3.3 Jo urn al Pr e-p roo f RStudio Posit v2023.12.1+402 Seurat (Zheng 2017; Stuart 2019)20,21 v4.4 Graphpad Prism Graphpad V10 Adobe Illustrator Adobe N/A Angio Tool National Cancer Institute; Zudaire et al. N/A Image J NIH N/A Other Leica DMi8 Lightning Confocal (SP8) Leica RRID:SCR_018169 Next Seq 2000 Illumina RRID:SCR_023614 MiSeq Illumina RRID:SCR_016379 438 EXPERIMENTAL MODEL AND SUBJECT DETAILS 439 440 Mice: 441 442 All animal procedures were approved by the University of Virginia Animal Care and Use 443 Committee (protocol No. 4277) and adhered to all ethical guidelines.
Polymerase Chain Reaction:Article Title: Retinoic Acid Regulates Fetoplacental Vascularization via Notch Signaling and a SEMA3E/F-PLEXIND1 Axis
Article Snippet: .. 434 Jo urn al Pr e-p roo f STAR METHODS 435 436 KEY RESOURCES TABLE 437 REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit Anti-Erg Abcam Cat# ab92513 Donkey Anti-Rabbit Alexa Fluor 405 Abcam Cat# ab175664 Rat Anti-CD31 BD Cat# 550274 Donkey Anti-Rat Alexa Fluor 594 Invitrogen Cat# A21209 Goat Anti-DLL4 R&D Systems Cat# AF1389 Donkey Anti-Goat Alexa Fluor 488 Abcam Cat# ab150129 Rat Anti-ENDOMUCIN Fisher Scientific Cat# 14-5851-82 Rat Anti-LAMININ Sigma Cat# MAB1914P FITC-lectin from Bandeiraea simplicifolia (Griffonia simplicifolia) Sigma Cat# L9381 Chemicals, peptides, and recombinant proteins PBS Sigma Cat# T5648 Sucrose Sigma Cat# C8267 OCT Gibco Cat# 10010023 Super Frost Microscope Slides Fisher Scientific Cat# S5-3 Triton X100 Sakura Cat# 4583 BSA Fisher Scientific Cat# 22-037-246 Fluoromount-G Sigma Cat# 9002-93-1 HBSS SouthernBiotech Cat# 0100-01 Collagenase I from Clostridium histolyticum Sigma Cat# C0130 Retinoic acid (RA) Sigma Cat# 302-79-4 DAPT Fisher Scientific Cat #AAJ65864MA Normal Donkey Serum Southern Biotech Cat# 0030-01 All trans retinoic acid (ATRA) Sigma Cat #302-79-4 Furin Inhibitor EMD Millipore Cat #344930-1MG Critical commercial assays Click-iT® EdU Imaging Kit Fisher Scientific Cat# C10337 Emeraldamp® GT PCR Master Mix Takara Bio USA Cat# RR310A CD 45 microbeads Miltenyi Cat# 130-097-418 CD 31 microbeads Miltenyi Cat#130-052-301 Deposited data Single cell RNA sequencing of E9.5 placental cells. .. This Study GEO: GSE304388 Software and algorithms Custom analysis code This paper; GitHub https://github.com/ud p3f/ScRNAseq_E9.5 _placenta Experimental models: Organisms/strains Raldh2 (Niederreither 1999)12 N/A Software and algorithms CellRanger Illumina v8.0.1 R R project v4.3.3 Jo urn al Pr e-p roo f RStudio Posit v2023.12.1+402 Seurat (Zheng 2017; Stuart 2019)20,21 v4.4 Graphpad Prism Graphpad V10 Adobe Illustrator Adobe N/A Angio Tool National Cancer Institute; Zudaire et al. N/A Image J NIH N/A Other Leica DMi8 Lightning Confocal (SP8) Leica RRID:SCR_018169 Next Seq 2000 Illumina RRID:SCR_023614 MiSeq Illumina RRID:SCR_016379 438 EXPERIMENTAL MODEL AND SUBJECT DETAILS 439 440 Mice: 441 442 All animal procedures were approved by the University of Virginia Animal Care and Use 443 Committee (protocol No. 4277) and adhered to all ethical guidelines.
Single Cell:Article Title: Retinoic Acid Regulates Fetoplacental Vascularization via Notch Signaling and a SEMA3E/F-PLEXIND1 Axis
Article Snippet: .. 434 Jo urn al Pr e-p roo f STAR METHODS 435 436 KEY RESOURCES TABLE 437 REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit Anti-Erg Abcam Cat# ab92513 Donkey Anti-Rabbit Alexa Fluor 405 Abcam Cat# ab175664 Rat Anti-CD31 BD Cat# 550274 Donkey Anti-Rat Alexa Fluor 594 Invitrogen Cat# A21209 Goat Anti-DLL4 R&D Systems Cat# AF1389 Donkey Anti-Goat Alexa Fluor 488 Abcam Cat# ab150129 Rat Anti-ENDOMUCIN Fisher Scientific Cat# 14-5851-82 Rat Anti-LAMININ Sigma Cat# MAB1914P FITC-lectin from Bandeiraea simplicifolia (Griffonia simplicifolia) Sigma Cat# L9381 Chemicals, peptides, and recombinant proteins PBS Sigma Cat# T5648 Sucrose Sigma Cat# C8267 OCT Gibco Cat# 10010023 Super Frost Microscope Slides Fisher Scientific Cat# S5-3 Triton X100 Sakura Cat# 4583 BSA Fisher Scientific Cat# 22-037-246 Fluoromount-G Sigma Cat# 9002-93-1 HBSS SouthernBiotech Cat# 0100-01 Collagenase I from Clostridium histolyticum Sigma Cat# C0130 Retinoic acid (RA) Sigma Cat# 302-79-4 DAPT Fisher Scientific Cat #AAJ65864MA Normal Donkey Serum Southern Biotech Cat# 0030-01 All trans retinoic acid (ATRA) Sigma Cat #302-79-4 Furin Inhibitor EMD Millipore Cat #344930-1MG Critical commercial assays Click-iT® EdU Imaging Kit Fisher Scientific Cat# C10337 Emeraldamp® GT PCR Master Mix Takara Bio USA Cat# RR310A CD 45 microbeads Miltenyi Cat# 130-097-418 CD 31 microbeads Miltenyi Cat#130-052-301 Deposited data Single cell RNA sequencing of E9.5 placental cells. .. This Study GEO: GSE304388 Software and algorithms Custom analysis code This paper; GitHub https://github.com/ud p3f/ScRNAseq_E9.5 _placenta Experimental models: Organisms/strains Raldh2 (Niederreither 1999)12 N/A Software and algorithms CellRanger Illumina v8.0.1 R R project v4.3.3 Jo urn al Pr e-p roo f RStudio Posit v2023.12.1+402 Seurat (Zheng 2017; Stuart 2019)20,21 v4.4 Graphpad Prism Graphpad V10 Adobe Illustrator Adobe N/A Angio Tool National Cancer Institute; Zudaire et al. N/A Image J NIH N/A Other Leica DMi8 Lightning Confocal (SP8) Leica RRID:SCR_018169 Next Seq 2000 Illumina RRID:SCR_023614 MiSeq Illumina RRID:SCR_016379 438 EXPERIMENTAL MODEL AND SUBJECT DETAILS 439 440 Mice: 441 442 All animal procedures were approved by the University of Virginia Animal Care and Use 443 Committee (protocol No. 4277) and adhered to all ethical guidelines.
RNA Sequencing:Article Title: Retinoic Acid Regulates Fetoplacental Vascularization via Notch Signaling and a SEMA3E/F-PLEXIND1 Axis
Article Snippet: .. 434 Jo urn al Pr e-p roo f STAR METHODS 435 436 KEY RESOURCES TABLE 437 REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit Anti-Erg Abcam Cat# ab92513 Donkey Anti-Rabbit Alexa Fluor 405 Abcam Cat# ab175664 Rat Anti-CD31 BD Cat# 550274 Donkey Anti-Rat Alexa Fluor 594 Invitrogen Cat# A21209 Goat Anti-DLL4 R&D Systems Cat# AF1389 Donkey Anti-Goat Alexa Fluor 488 Abcam Cat# ab150129 Rat Anti-ENDOMUCIN Fisher Scientific Cat# 14-5851-82 Rat Anti-LAMININ Sigma Cat# MAB1914P FITC-lectin from Bandeiraea simplicifolia (Griffonia simplicifolia) Sigma Cat# L9381 Chemicals, peptides, and recombinant proteins PBS Sigma Cat# T5648 Sucrose Sigma Cat# C8267 OCT Gibco Cat# 10010023 Super Frost Microscope Slides Fisher Scientific Cat# S5-3 Triton X100 Sakura Cat# 4583 BSA Fisher Scientific Cat# 22-037-246 Fluoromount-G Sigma Cat# 9002-93-1 HBSS SouthernBiotech Cat# 0100-01 Collagenase I from Clostridium histolyticum Sigma Cat# C0130 Retinoic acid (RA) Sigma Cat# 302-79-4 DAPT Fisher Scientific Cat #AAJ65864MA Normal Donkey Serum Southern Biotech Cat# 0030-01 All trans retinoic acid (ATRA) Sigma Cat #302-79-4 Furin Inhibitor EMD Millipore Cat #344930-1MG Critical commercial assays Click-iT® EdU Imaging Kit Fisher Scientific Cat# C10337 Emeraldamp® GT PCR Master Mix Takara Bio USA Cat# RR310A CD 45 microbeads Miltenyi Cat# 130-097-418 CD 31 microbeads Miltenyi Cat#130-052-301 Deposited data Single cell RNA sequencing of E9.5 placental cells. .. This Study GEO: GSE304388 Software and algorithms Custom analysis code This paper; GitHub https://github.com/ud p3f/ScRNAseq_E9.5 _placenta Experimental models: Organisms/strains Raldh2 (Niederreither 1999)12 N/A Software and algorithms CellRanger Illumina v8.0.1 R R project v4.3.3 Jo urn al Pr e-p roo f RStudio Posit v2023.12.1+402 Seurat (Zheng 2017; Stuart 2019)20,21 v4.4 Graphpad Prism Graphpad V10 Adobe Illustrator Adobe N/A Angio Tool National Cancer Institute; Zudaire et al. N/A Image J NIH N/A Other Leica DMi8 Lightning Confocal (SP8) Leica RRID:SCR_018169 Next Seq 2000 Illumina RRID:SCR_023614 MiSeq Illumina RRID:SCR_016379 438 EXPERIMENTAL MODEL AND SUBJECT DETAILS 439 440 Mice: 441 442 All animal procedures were approved by the University of Virginia Animal Care and Use 443 Committee (protocol No. 4277) and adhered to all ethical guidelines.
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