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35 protocols using ldn193189

1

Calcium Signaling Compound Procurement

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Ru360 was purchased from Calbiochem (Sigma-Millipore; 557440–1 SET). CGP37157, forskolin, SB431542, IWP2, DAPT and LDN193189 were purchased from Tocris (Biotechne; 1114–10 mg). Fura-2A/M (F1201) and Calcium Green 5-N (C3737) were purchased from Thermofisher. Percoll was purchased from GE Healthcare Bio-Sciences (17–0891-01). All other reagents were purchased from Sigma-Aldrich/RPI .
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2

Differentiation of Human Sensory Neurons

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Human sensory neuron differentiation was performed using a modified version of a published protocol [12 (link); 13 (link)]. In brief, iPSCs were seeded on a Matrigel coated plate and maintained in mTeSR medium (Stem Cell Technology). Neural induction started once the cells reached 80% confluence by adding KSR medium consisting of Knockout DMEM and Knockout Serum Replacement (Gibco). 100nM LDN-193189 and 10μM SB-431054 (Tocris) were added from day 0 to 5 (DD0-DD5). N2 media consisting of Neurobasal media (Gibco) and 1X N2 Supplement (Gibco) were added starting at day 4 in concentration increments of 25% every other day, reaching 100% at day 10. Nociceptor induction started on day 2 by adding 3μM CHIR99021, 10μM SU5402, and 10μM DAPT (Tocris). Starting on day 11 (DD10) the cells were maintained in N2 media supplemented with 25ng/ml of human β-NGF, BDNF, and GDNF (Peprotech).
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3

Compound Serial Dilution Assays

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Serial dilutions of compounds were made in appropriate solvents (DMSO or H2O) and corresponding carrier controls were included in the assays. Serial dilutions were made for single soluble factor titrations; FGF4, sodium (ortho)vanadate (Sigma-Aldrich, S6508), PD0325901, PD98059 (Sigma, P215), activin A, TGFβ1, A83-01 (Tocris, 2939), Nodal (R&D systems, 1315-ND-025), SB431542 (Tocris, 1614), retinoic acid (Sigma-Aldrich, R2625), DL-epinephrine HCl (Sigma-Aldrich, E4642), 8Br-cAMP, SC144 (Tocris, 4963/10), IL6 (Peprotech, 216-16), IL11, Lif, BMP4 (Peprotech, 315-27), BMP7, LDN 193189 (Tocris, 6053), ML347 (Selleckchem, S7148), Noggin (Peprotech, 250-38), CHIR99021, IWP2 (Selleckchem, S7085) and XAV-939 (Selleckchem, S1180). Compounds with end concentrations that were used for XEn/Epi EpiC modulation: PI3K inhibitor ZSTK474 (Selleckchem, S1072) at 1 μM, insulin at 50 ng/ml, XAV-939 at 20 μM.
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4

Differentiation of hESCs into Cortical and Dopaminergic Neurons

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H7 hESCs were maintained in BD Matrigel-coated plates in mTesR1 medium (StemCell Technologies) and passaged every 3–4 days. Monolayer neuronal differentiation was performed to induce cortical glutamatergic and midbrain dopaminergic neurons, respectively, according to published literatures8 (link)29 (link). Briefly, hESCs were subjected to dual SMAD inhibition with SB431542 (10 uM, Tocris) from day 0 to day 3, LDN193189 (100 nM, Tocris) and Dorsomorphin (200 nM, Tocris) from day 0 to day10. For cortical differentiation, cultures were then maintained in N2B27 media until the end of differentiation without additional patterning molecules. For generating dopamine neurons, cells were exposed to the MEK inhibitor PD0325901 (1 mM, Axon) between days 3–7, followed by Shh (200 ng/ml, C25 II-N, R&D), Purmorphamine (1 μM, Tocris) and FGF8b (100 ng/ml, Peprotech) from day 7 to day 11. Postmitotic dopaminergic neurons were maintained in N2B27 media supplemented with BDNF (10 ng/ml Peprotech), GDNF (10 ng/ml, Peprotech) and AA (0.2 mM, Sigma). At days 10 and 20, cells were passaged on Fibronectin and Poly-d-lysine/laminin-coated dishes, respectively.
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5

Biolaminin-Mediated Cardiomyocyte Differentiation

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Biolaminin (Biolamina) was applied to 35-mm dishes and the coated dishes were pre-incubated overnight at 4 °C. After seeding approximately 25 × 103 cells per cm2, cells are incubated for 24 h in respective cell maintenance medium. Subsequently, the tissue was washed with PBS and supplemented with 1 ml of medium containing either Ad.MyoD. After 30 min incubation (37 °C, 5% CO2), adenoviral supernatant was removed and 3 ml of differentiation medium supplemented with 7.5 µM CHIR99021 (Tocris) and 0.5 µM LDN193189 (Tocris) added. After 72 h, cells were washed with PBS and the differentiation medium was renewed supplemented with 20 ng/µl FGF-2 (Tocris). Every second day until day 14 of the experiment, differentiation medium was refreshed, and from day 7 to 14 electric pulse stimulation (EPS) was applied to the cells. See Supplemental Information Table S1 for the differentiation medium composition.
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6

Directed Differentiation of hESCs into Endoderm

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H1-AAVS1-TetOn-dCas9-KRAB hESCs were split to single cells with
TrypLE Express (Thermo, 12604). Cells were resuspended in mTeSR1
supplemented with 10 μM Y27632 (Tocris, 1254) and 500 ng/mL
doxycycline. 2 × 106 cells were plated into each well of a
6-well plate pre-coated with Growth Factor Reduced Matrigel (Corning,
356231). On Day 1, cells were fed with mTeSR1. On Day 2, cells were fed with
RPMI1640 (Thermo, 21870) supplemented with 0.2% Hyclone FBS (GE Healthcare,
SH30070.03), 100 ng/mL Activin A (R&D Systems, 338-AC-01M), 3 μM
CHIR 99021 (Tocris, 4423), and 50 nM PI 103 (Tocris, 2930). On Days 3 and 4,
cells were fed with RPMI1640 supplemented with 0.2% Hyclone FBS, 100 ng/mL
Activin A, and 250 nM LDN-193189 (Tocris, 6053). Media was changed every 24
hours. For perturbation experiments and CRISPRi screening, the media was
supplemented with 500 ng/mL doxycycline daily.
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7

Interneuron Differentiation from Human H9 ESCs

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The interneuron induction was performed as previously described [48 (link)]. Human H9 ESCs were trypsinized and cultured as floating spheres in low adherent flasks in KSR medium (DMEM, 15% knockout serum [GIBCO, 10828028]) replacement, 2 mM GlutaMax, and 10 μM β-mercaptoethanol (Sigma, M3148) from day 0 to day 14. Rock inhibitor (Y-27632, 10 μM, Tocris,1254) was treated at day 1. For MGE-derived interneuron differentiation, from day 0 to day 7, LDN-193189 (100 nM Stemgent, 04–0074), SB431542 (10 μM, Tocris, 1614), SAG (0.1 μM, EMD Millipore, 566660), and IWP2 (5 μM, EMD Millipore, 681671) were treated in the culture medium. From day 8 to day 14, cells were treated with LDN-193189 and SAG. From day 15 to day 21, the culture medium was changed with B27 medium (neurobasal with B27-supplement [2%, GBICO, 17504–044], GlutaMax [1%, GIBCO, 35050–061], and ascorbic acid [200 μM, Sigma]), and we added FGF8 (100 ng/ml, PEPROTECH, AF-100-25) and SAG. After 3 weeks, B27 medium was supplemented with 10 ng/ml GDNF (PEPROTECH, AF-450-02) and 10 ng/ml BDNF (PEPROTECH, AF-450-10) for neuronal maturation. After 6–7 weeks of differentiation, cells were trypsinized and seeded for analysis.
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8

hiPS Cell Neural Induction Protocol

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hiPS cells were seeded onto flasks coated with Matrigel at a density of 0.5–1 × 104 cells per cm2 in primed hiPS cell medium (KSR/FGF2). After 48 h, the medium was changed to neural induction medium containing DMEM/F12, B27 without vitamin A supplement (Gibco, ThermoFisher Scientific), N2 supplement (Gibco, ThermoFisher Scientific), 0.1% β-mercaptoethanol (Gibco, ThermoFisher Scientific), 0.66% bovine serum albumin (Sigma-Aldrich), 1% sodium pyruvate (Gibco, ThermoFisher Scientific), 1% non-essential amino acids (Gibco, ThermoFisher Scientific), 1% penicillin and streptomycin, 100 ng ml−1 LDN193189 (Tocris Bioscience, Bio-Techne) for 14 days.
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9

Protocol for Neural Crest Induction from Human Pluripotent Stem Cells

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For neural crest induction, human ESC/iPSC colonies were treated with Accutase cell detachment solution (STEMCELL Technologies) and re-suspended in induction medium plus 3 μM CHIR 99021 and 10 μM ROCK inhibitor, Y-27632 (Tocris Bioscience) plated at the 20,000 cells/cm2 density on Matrigel-coated surfaces. Induction medium contained DMEM/F12 medium supplemented with 2% B27 supplement (Gibco), 1X Glutamax (Gibco) and 0.5% bovine serum albumin (wt/vol) (Sigma-Aldrich). CHIR and ROCK inhibitor Y-27632 were added for the first two days, induction media without CHIR and ROCK inhibitor was used for next 3-days. For non-neural ectodermal differentiation, basal media with 2% B27, 1x Glutamax, and 0.5% BSA was used for 5 days (Leung et al., 2016 (link)). For neuroectodermal differentiation, DMEM/F12 medium with 2% B27 supplement, 1 × Glutamax, 100 nM LDN-193189 (Tocris) and 10 μM SB431542 (Tocris) was used for 5 days (Leung et al., 2019 (link)). For mesoderm induction, DMEM/F12 supplemented with 2.5 ng/ml FGF basic (Tocris Bioscience) with 3 μM CHIR was used for 3 days, while for endoderm induction DMEM/F12 supplemented with 1% FBS and 10 ng/ml Activin A (Tocris Bioscience) with 3 μM CHIR was used for first day and without CHIR next two days. Plating density for all differentiation were maintained at 20,000 cells/cm2. Small molecules and medium were replenished daily.
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10

hiPS Cell Neural Induction Protocol

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hiPS cells were seeded onto flasks coated with Matrigel at a density of 0.5–1 × 104 cells per cm2 in primed hiPS cell medium (KSR/FGF2). After 48 h, the medium was changed to neural induction medium containing DMEM/F12, B27 without vitamin A supplement (Gibco, ThermoFisher Scientific), N2 supplement (Gibco, ThermoFisher Scientific), 0.1% β-mercaptoethanol (Gibco, ThermoFisher Scientific), 0.66% bovine serum albumin (Sigma-Aldrich), 1% sodium pyruvate (Gibco, ThermoFisher Scientific), 1% non-essential amino acids (Gibco, ThermoFisher Scientific), 1% penicillin and streptomycin, 100 ng ml−1 LDN193189 (Tocris Bioscience, Bio-Techne) for 14 days.
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