Review



medium fluoromount g  (SouthernBiotech)


Bioz Verified Symbol SouthernBiotech is a verified supplier  
  • Logo
  • About
  • News
  • Press Release
  • Team
  • Advisors
  • Partners
  • Contact
  • Bioz Stars
  • Bioz vStars
    • 97
      Buy from Supplier

    Structured Review

    SouthernBiotech medium fluoromount g
    Medium Fluoromount G, supplied by SouthernBiotech, used in various techniques. Bioz Stars score: 97/100, based on 11206 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/fluoromount+g+southernbiotech/Fluoromount-G/pmc12954845-83-21-23
    Average 97 stars, based on 11206 article reviews
    medium fluoromount g - by Bioz Stars, 2026-11
    97/100 stars

    Images

    Related Articles

    Recombinant:

    Article Title: In utero exposure to NMDA receptor autoantibodies disrupts hippocampal circuit maturation.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Human IgG1 anti-NR1 (clone #003–102) Kreye et al. 49 N/A Human non-reactive IgG1 (clone #mGO53) Wardemann et al. 50 N/A Goat anti-human IgG (H + L) Cross-Absorbed Secondary Antibody, Alexa Fluor 647 Invitrogen Cat#A-21445; RRID: AB_2535862 mouse anti-human IgG (clone MT145) Mabtech RRID: AB_10697677 mouse anti-human IgG-ALP (clone MT78) Mabtech RRID: AB_10697678 Chemicals, peptides, and recombinant proteins DNQX Tocris Bioscience Cat#0189; Cas#2379-57-9 Gabazine (SR 95531 hydrobromide) Tocris Bioscience Cat#1262; Cas#104104-50-9 D-APV Tocris Bioscience Cat#0106; Cas#79055-68-8 DL-APV Tocris Bioscience Cat#0105; Cas#76326-31-3 DL-APV HelloBio Cat#HB0251; Cas#76326-31-3 Nifedipine Sigma-Aldrich Cat#N7634; Cas#21829-25-4 NMDA Tocris Bioscience Cat#0114; Cas#6384-92-5 Tetrodotoxin citrate (TTX) Biotrend Cat# ARCD-0640-1; Cas#18660-81-6 Tetrodotoxin citrate (TTX) HelloBio Cat#HB1035; Cas#18660-81-6 Triton X-100 Sigma-Aldrich Cas#9036-19-5 2-methylbutane Merck KGaA Cas#78-78-4 DAPI Sigma-Aldrich Cas#28718-90-3 Fluoromount-G SouthernBiotech Cat#0100-01 Agarose Sigma-Aldrich Cas#9012-36-6 Normal donkey serum (NDS) Merck KGaA Cat#566460 Experimental models: Organisms/strains Mouse line (B6.129S2-Emx1 tm1(cre)Krj /J or Emx1 IREScre ) The Jackson Laboratory RRID: IMSR_JAX:005628 Mouse line (B6;129S6Gt(ROSA)26Sor tm96(CAG- GCaMP6s)Hze /J or GCaMP6s LSL ) The Jackson Laboratory RRID: IMSR_JAX:024106 Mouse line (C57BL/6J) The Jackson Laboratory RRID: IMSR_JAX:000664 Software and algorithms LabChart 8 ADInstruments RRID: SCR_023643 MES 8.3 Femtonics RRID: N/A MESc 3.5 Femtonics RRID: N/A ZEN 3.1 Carl Zeiss AG RRID: N/A pClamp (Clampfit) Molecular Devices RRID: SCR_011323 Patchmaster HEKA Elektronik RRID: SCR_000034 Mini Analysis Program Synaptosoft RRID: SCR_002184 OriginPro OriginLab RRID: SCR_014212 IBM SPSS Statistics IBM RRID: SCR_016479 MATLAB Mathworks RRID: SCR_001622 Fiji fiji.sc/ RRID: SCR_002285 ComDet package in Fiji imagej.net/plugins/spots-colocalization- comdet N/A (Continued on next page) Cell Reports 45, 117022, March 24, 2026 15 ..

    Article Title: Protocol to study juxtacrine signaling in human vascular cells using a fluorescence labeling co-culture approach.
    Article Snippet: Herrera & Komatsu, STAR Protocols 6, 103785 June 20, 2025 a 2025 The Endothelial cells interact closely with adjacent endothelial cells and pericytes.. The intercellular crosstalk between these cells is essential for angiogenesis, maturation, and vascular homeostasis.. This protocol outlines a method to study these interactions using a co-culture system.

    Article Title: 3D-generation of high-purity midbrain dopaminergic progenitors and lineage-guided refinement of grafts supports Parkinson's disease cell therapy.
    Article Snippet: In brief Chen and colleagues present a 3D differentiation method for the efficient and robust generation of mDAP-enriched donor cells from hPSCs.. They mapped the clonal lineages between donor cells and their derivatives within grafts following transplantation, which facilitates further refinement of the differentiation method and the elimination of off-target lineage cells.. Predictable lineage outcomes of individual progenitors Reconstructed cellular lineage Lineage based optimization Efficient and robust generation of mDAPs

    Article Title: A TLR4-dependent fibroblast-monocyte axis in tumor-draining lymph nodes contributes to metastasis in triple-negative breast cancer.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Trypsin-EDTA solution Sigma Aldrich Cat#T4049 Trypan blue Thermo Fisher Scientific Cat#T10282 Corning® Matrigel® Growth Factor Reduced (GFR) Corning Cat#354230 Insulin solution human Sigma Aldrich Cat#I9278 Phosphate buffered saline (PBS) Sigma Aldrich Cat#P2272 CryoStor® CS10 cell cryopreservation media Sigma Aldrich Cat#C2874 Tissue-Tek® O.C.T. .. Compound Sakura Finetek USA Cat#4583 Bovine Serum Albumin (BSA) Sigma Aldrich Cat#9048-46-8 Fluoromount-G® SouthernBiotech Cat#0100-01 Donkey serum Merck Millipore Cat#S30-100ML Acid black 2 (India Ink) Angene Cat#8005-03-6 Formaldehyde Solution 16%, Methanol free Thermo Fisher Scientific Cat#28908 Acetic acid 100% Carl Roth Cat#6755.1 TLR4i (TAK-242) Sigma Aldrich Cat#614316-5MG MYD88i (TJ-M2010-5) MedChemExpress Cat#HY-139397 Collagenase A (from Clostridium histolyticum) Sigma Aldrich Cat#10103578001 Collagenase D (from Clostridium histolyticum) Sigma Aldrich Cat#11088858001 DNase I (grade II, from bovine pancreas) Sigma Aldrich Cat#10104159001 EDTA, 500mM solution Merck Millipore Cat#324504 ACK Lysing Buffer Thermo Fisher Scientific Cat#A10492-01 Bovine Serum Albumin Fraction V Merck Cat#10735086001 Lipopolysaccharides (LPS, from Escherichia coli O127:B8) Sigma Aldrich Cat#L4516 Recombinant Mouse Interferon Gamma (rm IFN-gamma) Immunotools Cat#12343534 NG-Methyl-L-arginine acetate salt (L-NMMA) Sigma Aldrich Cat#M7033 S100A9 recombinant mouse R&D Systems Cat#2065-S9 Fibronectin Sigma Aldrich Cat#F2518 Recombinant Mouse CCL7 (MCP-3) (carrier-free) Biolegend Cat#86102 Recombinant Mouse CCL2 (MCP-1) (carrier-free) Biolegend Cat#578402 Recombinant Human Apo-SAA1 Peprotech Cat#300-53 Recombinant Murine PDGF-BB Peprotech Cat#315-18 Recombinant Mouse NGAL (Lipocalin-2) (carrier-free) Biolegend Cat#588002 Recombinant Mouse Biglycan Protein, CF Biotechne/RnD Cat#8128-CM-050 Mouse Tenascin C (TNC) Protein 10 ug Hö lzel Cat#abx168355-10 Recombinant Mouse Osteopontin (carrier-free) Biolegend Cat#763604 TWEEN® 20 Sigma Aldrich Cat#P1379 Ethanol Sigma Aldrich Cat#32205-M Isoflurane Cp pharma Cat#1214 Critical commercial assays RNeasy micro kit Qiagen Cat#74004 First Strand cDNA Synthesis Kit Thermo Fisher Scientific Cat#K1612 (Continued on next page) Immunity 58, 1–17.e1–e15, December 9, 2025 e6 .. REAGENT or RESOURCE SOURCE IDENTIFIER TaqManTM Fast Advanced Master Mix Thermo Fisher Scientific Cat#4444554 FOXP3 Fix/Perm Buffer Set BioLegend Cat#421403 Chromium Next GEM Single Cell 3ʹ Kit v3.1 10x Genomics Cat#PN-1000123 Dual Index Kit TT Set A, 96 rxns 10x Genomics Cat#PN-1000215 Dual Index Kit NT Set A, 96 rxns 10x Genomics Cat#PN-1000242 Chromium Next GEM Chip G Single Cell Kit 10x Genomics Cat#PN-1000120 Library Construction Kit 10x Genomics Cat#PN-1000190 Chromium GEM-X Single Cell 5’ GEM Kit v3 4 rxns 10x Genomics Cat#PN-1000697 Library Construction Kit C 10x Genomics Cat#PN- 1000689 5’ Gel Bead Kit v3 4-plex 10x Genomics Cat#PN-1000750 5’ OCM Chip & Gaskets 10x Genomics Cat#PN- 2001100 High Sensitivity DNA Kit Agilent Cat#5067-4626 The NEBNext Poly(A) mRNA Magnetic Isolation Module New England Biolabs Cat#E7490 NEBNext Ultra II Directional RNA Library Prep Kit for Illumina New England Biolabs Cat#E7760 SuperScriptTM IV Single Cell/Low-Input cDNA PreAmp Kit Thermo Fisher Scientific Cat#11752096 Mouse MCP-1 ProQuantum Immunoassay Kit Thermo Fisher Scientific Cat#A44837 HAEMA – Quick-Stain LT-SYS ® (Diff-Quick) LT-SYS Cat#LT 005 Deposited data Raw data – bulkRNA-seq (mouse) This paper GEO: GSE267533 Raw data – spatial transcriptomics (mouse) This paper GEO: GSE267534 Raw data – scRNA-seq (mouse) This paper GEO: GSE267535 Human GRCh38 (GENCODE v44/ Ensembl110 annotations) 10x Genomics https://www.10xgenomics.com/support/ software/cell-ranger/latest/release-notes/ cr-reference-release-notes#2020-a Mouse GRCm39 (GENCODE vM33/ Ensembl110 annotations) 10x Genomics https://www.10xgenomics.com/support/ software/cell-ranger/latest/release-notes/ cr-reference-release-notes#2020-a Human Healthy Bone Marrow Zhang et al. 42 https://www.nature.com/articles/s41590- 024-01782-4 Experimental models: Cell lines Mouse: 67NR cell line Fred Miller N/A Mouse: 4T1 cell line Fred Miller N/A Mouse: AT-3 cell line ATCC N/A Mouse: FRC cell line Jacqueline Shields N/A Human: HCC10806 cell line N/A Human: MDA-MB-231 cell line ATCC N/A Human: MDA-MB-468 cell line N/A Human: Hs578T cell line N/A Human: MCF7 cell line N/A Human: T47D cell line N/A Experimental models: Organisms/strains C57BL/6J mice Envigo Laboratory Cat#5705F BALB/c OlaHsd Envigo Laboratory Cat#16205F Oligonucleotides Taqman Probe for mouse Ccl7 Thermo Fisher Scientific Mm00443113_m1 (Continued on next page) e7 Immunity 58, 1–17.e1–e15, December 9, 2025

    Article Title: Single-cell delineation of the microbiota-gut-brain axis: Probiotic intervention in Chd8 haploinsufficient mice.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-CHD8 Abcam Cat#ab114126; RRID:AB_10858797 HRP-conjugated anti-GAPDH Easybio Cat#BE0034 Goat Anti-Rabbit IgG (H&L)-HRP Conjugated Easybio Cat#BE0101-100 KLF4 Antibody Pierce Cat#PA1095; RRID:AB_2539864 Ezrin Antibody (3C12) Pierce Cat#MA513862; RRID:AB_10979020 Donkey anti-Rabbit IgG (H + L) Invitrogen Cat#A31572; RRID:AB_162553 CD3 Monoclonal Antibody (17A2) eBioscience Cat#11-0032-82; RRID:AB_2572431 PE anti-mouse/human CD45R/B220 Antibody biolegend Cat#103028 CD45 Monoclonal Antibody (30-F11) eBioscience Cat#17-0451-82; RRID:AB_469392 Goat anti-Rabbit IgG (H + L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 594 Invitrogen Cat#A-11012; RRID:AB_2534079 Goat anti-Mouse IgG (H + L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 488 Invitrogen Cat#A-11001; RRID:AB_2534069 Cleaved Caspase-3 (Asp175) (5A1E) Rabbit mAb Cell Signaling Technology Cat#9664S; RRID:AB_2070042 Bacterial and virus strains Lactobacillus murinus Cultured anaerobically in Gifu Anaerobic Broth (GAM Broth) N/A Biological samples C57BL/6JGpt mice GemPharmatech N/A Chemicals, peptides, and recombinant proteins Gifu Anaerobic Broth (GAM Broth) Hopebio Cat#HB8518 PBS HyClone Cat#SH30256.01 Papain sigmaaldrich Cat#P3125-100MG DNase I coolaber Cat#CD4871 Collagenase I sigmaaldrich Cat#C0130-100MG Collagenase II sigmaaldrich Cat#C6885-100MG Collagenase IV sigmaaldrich Cat#C5138-100MG RIPA Lysis Buffer Beyotime Cat#P0013B PMSF Beyotime Cat#ST506 Protease Inhibitor Cocktail Beyotime Cat#P1010 SDS-PAGE Buffer Beyotime Cat#P0015 RPMI Medium 1640 GIBCO Cat#11875-093 MACS Tissue Storage Solution miltenyi Cat#130-100-008 Debris Removal Solution miltenyi Cat#130-107-677 Fluoromount-G SouthernBiotech Cat#0100-01 DAPI Fluoromount-G SouthernBiotech Cat#0100-20 TRIzolTM Reagent Invitrogen Cat#15596018 acridine orange Invitrogen Cat#A3568 propidium iodide invitrogen Cat#P3566 (Continued on next page) Cell Genomics 5, 100768, February 12, 2025 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Fetal Bovine Serum (FBS) Gibco Cat#A5670701 Bovine Serum Albumin (BSA) sigmaaldrich Cat#A1933-25G dithiothreitol (DTT) solarbio Cat# D8220 EDTA-Na2 solarbio Cat# E8030 Neutral balsam solarbio Cat#G8590 Water suitable for HPLC sigmaaldrich Cat#270733-2.5L Methanol suitable for UHPLC sigmaaldrich Cat#1037261002 Paraformaldehyde, 4% solarbio Cat#P1110 optimal cutting temperature (O.C.T) sakuraus Cat#4853 DAPI beyotime Cat#C1002 enhanced chemiluminescence (ECL) substrate Easybio Cat#BE6706 Critical commercial assays Chromium Single Cell 30 Kit v2 10x Genomics Cat#CG00052 Adult Brain Dissociation Kit Miltenyi Biotec Cat#130-107-677 Modified Hematoxylin-Eosin(H&E) Stain Kit solarbio Cat#G1121 Deposited data scRNA-seq data This paper https://ngdc.cncb.ac.cn/search/ specific?db=biosample&q=PR PRJCA034312 Experimental models: Organisms/strains Chd8 mutant mice Nanjing Biomedical Research Institute of Nanjing University (NBRI) N/A Chd8 intestinal conditional knockout mice GemPharmatech N/A Cre-positive: C57BL/6JGpt-H11-Vil1-iCre GemPharmatech Cat#T004714 Chd8loxP: C57BL/6JGpt-Chd8em1Cflox/Gpt GemPharmatech Cat#T009485 Oligonucleotides Primers for genotyping, see Table S1 This paper N/A Software and algorithms Cell Ranger v3.1.0 10x Genomics https://support.10xgenomics.com/ single-cell-gene-expression/ software/downloads/latest scanpy v1.6.0 Wof et al.62 https://scanpy.readthedocs.io SCENIC v0.10.3 Van et al.64 https://github.com/aertslab/SCENIC MAST v1.14.0 Finak et al.65 https://rglab.github.io/MAST/ scrublet v0.2.2 Wolock et al.63 https://github.com/swolock/scrublet Scran v1.16.0 Lun et al.66 https://bioconductor.org/packages/ release/bioc/html/scran.html harmonypy v0.0.5 Korsunsky et al.67 https://github.com/immunogenomics/harmony scVelo v0.2.2 Bergen et al.38 https://scvelo.readthedocs.io/en/stable/ scCODA Buttner et al.68 https://sccoda.readthedocs.io/en/ latest/getting_started.html Augur Skinnider et al.25 https://github.com/neurorestore/Augur Cellchat v0.5.0 Jin et al.69 https://github.com/sqjin/CellChat GSEApy v0.10.1 Mootha et al.70 https://gseapy.readthedocs.io/ en/latest/index.html MSigDB Subramanian et al.28 https://www.gsea-msigdb.org/gsea/msigdb g:Profiler Raudvere et al.71 https://biit.cs.ut.ee/gprofiler/ PAGA Wolf et al.72 https://github.com/theislab/paga e2 Cell Genomics 5, 100768, February 12, 2025 OPEN ACCESS OPEN ACCESS

    other:


    Software:

    Article Title: STUB1-VCP/p97 complex regulates mitophagy via fine-tuning of PINK1 levels.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER pCDNA4-STUB1-K30A-3XFLAG This paper N/A pCDNA4-STUB1-N65S-3XFLAG This paper N/A Software and algorithms GraphPad Prism (https://www.graphpad.com/features) GraphPad Software Version 8.0 FlowJo (https://www.flowjo.com/) Tree Star Software Version 10.0 Adobe Illustrator (http://www.adobe.com/cn/) Adobe Systems Version 26.0 ImageJ (https://imagej.nih.gov/ij/) Java Version 1.8.0 Other RIPA lysis buffer Bioon Cat#R0127 1 X PBS Bio-Channel Cat#BC-BPBS-01 Anti-Flag magnetic beads Selleck Cat#B26102 Protein A/G magnetic beads Selleck Cat#B23201 Protein A/G Agarose Thermo Fisher Scientific Cat#202422 not-fat milk Biosharp Cat#BS102-500g Protease Inhibitor Cocktail TargetMol Cat#C0001-1 mL Phosphatase Inhibitor Cocktail III TargetMol Cat#C0004-2 mL Stripping Buffer CWBIO Cat#CW0056 Fluoromount-G SouthernBiotech Cat#0100-01 Electron Microscope Fixative Servicebio Cat#G1102-100ML Seahorse XF DMEM medium Agilent Cat#103575-100 24 Cell Reports 45, 117183, April 28, 2026 Samples from human brains were gathered and lysed using Triton X-100 cell lysis buffer (including TritonX-100, PBS, phosphatase and protease inhibitors). .. The samples were then incubated on the ice for 30 min. After centrifugation at 13,300 × RPM at 4 ◦ C for 30 min, the normalized supernatant was collected and denatured at 95 ◦ C for 5 min with 4xLDS loading dye (Invitrogen, NP0008).

    Article Title: Protocol to study juxtacrine signaling in human vascular cells using a fluorescence labeling co-culture approach.
    Article Snippet: Herrera & Komatsu, STAR Protocols 6, 103785 June 20, 2025 a 2025 The Endothelial cells interact closely with adjacent endothelial cells and pericytes.. The intercellular crosstalk between these cells is essential for angiogenesis, maturation, and vascular homeostasis.. This protocol outlines a method to study these interactions using a co-culture system.

    Lysis:

    Article Title: STUB1-VCP/p97 complex regulates mitophagy via fine-tuning of PINK1 levels.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER pCDNA4-STUB1-K30A-3XFLAG This paper N/A pCDNA4-STUB1-N65S-3XFLAG This paper N/A Software and algorithms GraphPad Prism (https://www.graphpad.com/features) GraphPad Software Version 8.0 FlowJo (https://www.flowjo.com/) Tree Star Software Version 10.0 Adobe Illustrator (http://www.adobe.com/cn/) Adobe Systems Version 26.0 ImageJ (https://imagej.nih.gov/ij/) Java Version 1.8.0 Other RIPA lysis buffer Bioon Cat#R0127 1 X PBS Bio-Channel Cat#BC-BPBS-01 Anti-Flag magnetic beads Selleck Cat#B26102 Protein A/G magnetic beads Selleck Cat#B23201 Protein A/G Agarose Thermo Fisher Scientific Cat#202422 not-fat milk Biosharp Cat#BS102-500g Protease Inhibitor Cocktail TargetMol Cat#C0001-1 mL Phosphatase Inhibitor Cocktail III TargetMol Cat#C0004-2 mL Stripping Buffer CWBIO Cat#CW0056 Fluoromount-G SouthernBiotech Cat#0100-01 Electron Microscope Fixative Servicebio Cat#G1102-100ML Seahorse XF DMEM medium Agilent Cat#103575-100 24 Cell Reports 45, 117183, April 28, 2026 Samples from human brains were gathered and lysed using Triton X-100 cell lysis buffer (including TritonX-100, PBS, phosphatase and protease inhibitors). .. The samples were then incubated on the ice for 30 min. After centrifugation at 13,300 × RPM at 4 ◦ C for 30 min, the normalized supernatant was collected and denatured at 95 ◦ C for 5 min with 4xLDS loading dye (Invitrogen, NP0008).

    Article Title: Single-cell delineation of the microbiota-gut-brain axis: Probiotic intervention in Chd8 haploinsufficient mice.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-CHD8 Abcam Cat#ab114126; RRID:AB_10858797 HRP-conjugated anti-GAPDH Easybio Cat#BE0034 Goat Anti-Rabbit IgG (H&L)-HRP Conjugated Easybio Cat#BE0101-100 KLF4 Antibody Pierce Cat#PA1095; RRID:AB_2539864 Ezrin Antibody (3C12) Pierce Cat#MA513862; RRID:AB_10979020 Donkey anti-Rabbit IgG (H + L) Invitrogen Cat#A31572; RRID:AB_162553 CD3 Monoclonal Antibody (17A2) eBioscience Cat#11-0032-82; RRID:AB_2572431 PE anti-mouse/human CD45R/B220 Antibody biolegend Cat#103028 CD45 Monoclonal Antibody (30-F11) eBioscience Cat#17-0451-82; RRID:AB_469392 Goat anti-Rabbit IgG (H + L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 594 Invitrogen Cat#A-11012; RRID:AB_2534079 Goat anti-Mouse IgG (H + L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 488 Invitrogen Cat#A-11001; RRID:AB_2534069 Cleaved Caspase-3 (Asp175) (5A1E) Rabbit mAb Cell Signaling Technology Cat#9664S; RRID:AB_2070042 Bacterial and virus strains Lactobacillus murinus Cultured anaerobically in Gifu Anaerobic Broth (GAM Broth) N/A Biological samples C57BL/6JGpt mice GemPharmatech N/A Chemicals, peptides, and recombinant proteins Gifu Anaerobic Broth (GAM Broth) Hopebio Cat#HB8518 PBS HyClone Cat#SH30256.01 Papain sigmaaldrich Cat#P3125-100MG DNase I coolaber Cat#CD4871 Collagenase I sigmaaldrich Cat#C0130-100MG Collagenase II sigmaaldrich Cat#C6885-100MG Collagenase IV sigmaaldrich Cat#C5138-100MG RIPA Lysis Buffer Beyotime Cat#P0013B PMSF Beyotime Cat#ST506 Protease Inhibitor Cocktail Beyotime Cat#P1010 SDS-PAGE Buffer Beyotime Cat#P0015 RPMI Medium 1640 GIBCO Cat#11875-093 MACS Tissue Storage Solution miltenyi Cat#130-100-008 Debris Removal Solution miltenyi Cat#130-107-677 Fluoromount-G SouthernBiotech Cat#0100-01 DAPI Fluoromount-G SouthernBiotech Cat#0100-20 TRIzolTM Reagent Invitrogen Cat#15596018 acridine orange Invitrogen Cat#A3568 propidium iodide invitrogen Cat#P3566 (Continued on next page) Cell Genomics 5, 100768, February 12, 2025 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Fetal Bovine Serum (FBS) Gibco Cat#A5670701 Bovine Serum Albumin (BSA) sigmaaldrich Cat#A1933-25G dithiothreitol (DTT) solarbio Cat# D8220 EDTA-Na2 solarbio Cat# E8030 Neutral balsam solarbio Cat#G8590 Water suitable for HPLC sigmaaldrich Cat#270733-2.5L Methanol suitable for UHPLC sigmaaldrich Cat#1037261002 Paraformaldehyde, 4% solarbio Cat#P1110 optimal cutting temperature (O.C.T) sakuraus Cat#4853 DAPI beyotime Cat#C1002 enhanced chemiluminescence (ECL) substrate Easybio Cat#BE6706 Critical commercial assays Chromium Single Cell 30 Kit v2 10x Genomics Cat#CG00052 Adult Brain Dissociation Kit Miltenyi Biotec Cat#130-107-677 Modified Hematoxylin-Eosin(H&E) Stain Kit solarbio Cat#G1121 Deposited data scRNA-seq data This paper https://ngdc.cncb.ac.cn/search/ specific?db=biosample&q=PR PRJCA034312 Experimental models: Organisms/strains Chd8 mutant mice Nanjing Biomedical Research Institute of Nanjing University (NBRI) N/A Chd8 intestinal conditional knockout mice GemPharmatech N/A Cre-positive: C57BL/6JGpt-H11-Vil1-iCre GemPharmatech Cat#T004714 Chd8loxP: C57BL/6JGpt-Chd8em1Cflox/Gpt GemPharmatech Cat#T009485 Oligonucleotides Primers for genotyping, see Table S1 This paper N/A Software and algorithms Cell Ranger v3.1.0 10x Genomics https://support.10xgenomics.com/ single-cell-gene-expression/ software/downloads/latest scanpy v1.6.0 Wof et al.62 https://scanpy.readthedocs.io SCENIC v0.10.3 Van et al.64 https://github.com/aertslab/SCENIC MAST v1.14.0 Finak et al.65 https://rglab.github.io/MAST/ scrublet v0.2.2 Wolock et al.63 https://github.com/swolock/scrublet Scran v1.16.0 Lun et al.66 https://bioconductor.org/packages/ release/bioc/html/scran.html harmonypy v0.0.5 Korsunsky et al.67 https://github.com/immunogenomics/harmony scVelo v0.2.2 Bergen et al.38 https://scvelo.readthedocs.io/en/stable/ scCODA Buttner et al.68 https://sccoda.readthedocs.io/en/ latest/getting_started.html Augur Skinnider et al.25 https://github.com/neurorestore/Augur Cellchat v0.5.0 Jin et al.69 https://github.com/sqjin/CellChat GSEApy v0.10.1 Mootha et al.70 https://gseapy.readthedocs.io/ en/latest/index.html MSigDB Subramanian et al.28 https://www.gsea-msigdb.org/gsea/msigdb g:Profiler Raudvere et al.71 https://biit.cs.ut.ee/gprofiler/ PAGA Wolf et al.72 https://github.com/theislab/paga e2 Cell Genomics 5, 100768, February 12, 2025 OPEN ACCESS OPEN ACCESS

    Magnetic Beads:

    Article Title: STUB1-VCP/p97 complex regulates mitophagy via fine-tuning of PINK1 levels.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER pCDNA4-STUB1-K30A-3XFLAG This paper N/A pCDNA4-STUB1-N65S-3XFLAG This paper N/A Software and algorithms GraphPad Prism (https://www.graphpad.com/features) GraphPad Software Version 8.0 FlowJo (https://www.flowjo.com/) Tree Star Software Version 10.0 Adobe Illustrator (http://www.adobe.com/cn/) Adobe Systems Version 26.0 ImageJ (https://imagej.nih.gov/ij/) Java Version 1.8.0 Other RIPA lysis buffer Bioon Cat#R0127 1 X PBS Bio-Channel Cat#BC-BPBS-01 Anti-Flag magnetic beads Selleck Cat#B26102 Protein A/G magnetic beads Selleck Cat#B23201 Protein A/G Agarose Thermo Fisher Scientific Cat#202422 not-fat milk Biosharp Cat#BS102-500g Protease Inhibitor Cocktail TargetMol Cat#C0001-1 mL Phosphatase Inhibitor Cocktail III TargetMol Cat#C0004-2 mL Stripping Buffer CWBIO Cat#CW0056 Fluoromount-G SouthernBiotech Cat#0100-01 Electron Microscope Fixative Servicebio Cat#G1102-100ML Seahorse XF DMEM medium Agilent Cat#103575-100 24 Cell Reports 45, 117183, April 28, 2026 Samples from human brains were gathered and lysed using Triton X-100 cell lysis buffer (including TritonX-100, PBS, phosphatase and protease inhibitors). .. The samples were then incubated on the ice for 30 min. After centrifugation at 13,300 × RPM at 4 ◦ C for 30 min, the normalized supernatant was collected and denatured at 95 ◦ C for 5 min with 4xLDS loading dye (Invitrogen, NP0008).

    Protease Inhibitor:

    Article Title: STUB1-VCP/p97 complex regulates mitophagy via fine-tuning of PINK1 levels.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER pCDNA4-STUB1-K30A-3XFLAG This paper N/A pCDNA4-STUB1-N65S-3XFLAG This paper N/A Software and algorithms GraphPad Prism (https://www.graphpad.com/features) GraphPad Software Version 8.0 FlowJo (https://www.flowjo.com/) Tree Star Software Version 10.0 Adobe Illustrator (http://www.adobe.com/cn/) Adobe Systems Version 26.0 ImageJ (https://imagej.nih.gov/ij/) Java Version 1.8.0 Other RIPA lysis buffer Bioon Cat#R0127 1 X PBS Bio-Channel Cat#BC-BPBS-01 Anti-Flag magnetic beads Selleck Cat#B26102 Protein A/G magnetic beads Selleck Cat#B23201 Protein A/G Agarose Thermo Fisher Scientific Cat#202422 not-fat milk Biosharp Cat#BS102-500g Protease Inhibitor Cocktail TargetMol Cat#C0001-1 mL Phosphatase Inhibitor Cocktail III TargetMol Cat#C0004-2 mL Stripping Buffer CWBIO Cat#CW0056 Fluoromount-G SouthernBiotech Cat#0100-01 Electron Microscope Fixative Servicebio Cat#G1102-100ML Seahorse XF DMEM medium Agilent Cat#103575-100 24 Cell Reports 45, 117183, April 28, 2026 Samples from human brains were gathered and lysed using Triton X-100 cell lysis buffer (including TritonX-100, PBS, phosphatase and protease inhibitors). .. The samples were then incubated on the ice for 30 min. After centrifugation at 13,300 × RPM at 4 ◦ C for 30 min, the normalized supernatant was collected and denatured at 95 ◦ C for 5 min with 4xLDS loading dye (Invitrogen, NP0008).

    Article Title: Single-cell delineation of the microbiota-gut-brain axis: Probiotic intervention in Chd8 haploinsufficient mice.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-CHD8 Abcam Cat#ab114126; RRID:AB_10858797 HRP-conjugated anti-GAPDH Easybio Cat#BE0034 Goat Anti-Rabbit IgG (H&L)-HRP Conjugated Easybio Cat#BE0101-100 KLF4 Antibody Pierce Cat#PA1095; RRID:AB_2539864 Ezrin Antibody (3C12) Pierce Cat#MA513862; RRID:AB_10979020 Donkey anti-Rabbit IgG (H + L) Invitrogen Cat#A31572; RRID:AB_162553 CD3 Monoclonal Antibody (17A2) eBioscience Cat#11-0032-82; RRID:AB_2572431 PE anti-mouse/human CD45R/B220 Antibody biolegend Cat#103028 CD45 Monoclonal Antibody (30-F11) eBioscience Cat#17-0451-82; RRID:AB_469392 Goat anti-Rabbit IgG (H + L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 594 Invitrogen Cat#A-11012; RRID:AB_2534079 Goat anti-Mouse IgG (H + L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 488 Invitrogen Cat#A-11001; RRID:AB_2534069 Cleaved Caspase-3 (Asp175) (5A1E) Rabbit mAb Cell Signaling Technology Cat#9664S; RRID:AB_2070042 Bacterial and virus strains Lactobacillus murinus Cultured anaerobically in Gifu Anaerobic Broth (GAM Broth) N/A Biological samples C57BL/6JGpt mice GemPharmatech N/A Chemicals, peptides, and recombinant proteins Gifu Anaerobic Broth (GAM Broth) Hopebio Cat#HB8518 PBS HyClone Cat#SH30256.01 Papain sigmaaldrich Cat#P3125-100MG DNase I coolaber Cat#CD4871 Collagenase I sigmaaldrich Cat#C0130-100MG Collagenase II sigmaaldrich Cat#C6885-100MG Collagenase IV sigmaaldrich Cat#C5138-100MG RIPA Lysis Buffer Beyotime Cat#P0013B PMSF Beyotime Cat#ST506 Protease Inhibitor Cocktail Beyotime Cat#P1010 SDS-PAGE Buffer Beyotime Cat#P0015 RPMI Medium 1640 GIBCO Cat#11875-093 MACS Tissue Storage Solution miltenyi Cat#130-100-008 Debris Removal Solution miltenyi Cat#130-107-677 Fluoromount-G SouthernBiotech Cat#0100-01 DAPI Fluoromount-G SouthernBiotech Cat#0100-20 TRIzolTM Reagent Invitrogen Cat#15596018 acridine orange Invitrogen Cat#A3568 propidium iodide invitrogen Cat#P3566 (Continued on next page) Cell Genomics 5, 100768, February 12, 2025 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Fetal Bovine Serum (FBS) Gibco Cat#A5670701 Bovine Serum Albumin (BSA) sigmaaldrich Cat#A1933-25G dithiothreitol (DTT) solarbio Cat# D8220 EDTA-Na2 solarbio Cat# E8030 Neutral balsam solarbio Cat#G8590 Water suitable for HPLC sigmaaldrich Cat#270733-2.5L Methanol suitable for UHPLC sigmaaldrich Cat#1037261002 Paraformaldehyde, 4% solarbio Cat#P1110 optimal cutting temperature (O.C.T) sakuraus Cat#4853 DAPI beyotime Cat#C1002 enhanced chemiluminescence (ECL) substrate Easybio Cat#BE6706 Critical commercial assays Chromium Single Cell 30 Kit v2 10x Genomics Cat#CG00052 Adult Brain Dissociation Kit Miltenyi Biotec Cat#130-107-677 Modified Hematoxylin-Eosin(H&E) Stain Kit solarbio Cat#G1121 Deposited data scRNA-seq data This paper https://ngdc.cncb.ac.cn/search/ specific?db=biosample&q=PR PRJCA034312 Experimental models: Organisms/strains Chd8 mutant mice Nanjing Biomedical Research Institute of Nanjing University (NBRI) N/A Chd8 intestinal conditional knockout mice GemPharmatech N/A Cre-positive: C57BL/6JGpt-H11-Vil1-iCre GemPharmatech Cat#T004714 Chd8loxP: C57BL/6JGpt-Chd8em1Cflox/Gpt GemPharmatech Cat#T009485 Oligonucleotides Primers for genotyping, see Table S1 This paper N/A Software and algorithms Cell Ranger v3.1.0 10x Genomics https://support.10xgenomics.com/ single-cell-gene-expression/ software/downloads/latest scanpy v1.6.0 Wof et al.62 https://scanpy.readthedocs.io SCENIC v0.10.3 Van et al.64 https://github.com/aertslab/SCENIC MAST v1.14.0 Finak et al.65 https://rglab.github.io/MAST/ scrublet v0.2.2 Wolock et al.63 https://github.com/swolock/scrublet Scran v1.16.0 Lun et al.66 https://bioconductor.org/packages/ release/bioc/html/scran.html harmonypy v0.0.5 Korsunsky et al.67 https://github.com/immunogenomics/harmony scVelo v0.2.2 Bergen et al.38 https://scvelo.readthedocs.io/en/stable/ scCODA Buttner et al.68 https://sccoda.readthedocs.io/en/ latest/getting_started.html Augur Skinnider et al.25 https://github.com/neurorestore/Augur Cellchat v0.5.0 Jin et al.69 https://github.com/sqjin/CellChat GSEApy v0.10.1 Mootha et al.70 https://gseapy.readthedocs.io/ en/latest/index.html MSigDB Subramanian et al.28 https://www.gsea-msigdb.org/gsea/msigdb g:Profiler Raudvere et al.71 https://biit.cs.ut.ee/gprofiler/ PAGA Wolf et al.72 https://github.com/theislab/paga e2 Cell Genomics 5, 100768, February 12, 2025 OPEN ACCESS OPEN ACCESS

    Stripping Membranes:

    Article Title: STUB1-VCP/p97 complex regulates mitophagy via fine-tuning of PINK1 levels.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER pCDNA4-STUB1-K30A-3XFLAG This paper N/A pCDNA4-STUB1-N65S-3XFLAG This paper N/A Software and algorithms GraphPad Prism (https://www.graphpad.com/features) GraphPad Software Version 8.0 FlowJo (https://www.flowjo.com/) Tree Star Software Version 10.0 Adobe Illustrator (http://www.adobe.com/cn/) Adobe Systems Version 26.0 ImageJ (https://imagej.nih.gov/ij/) Java Version 1.8.0 Other RIPA lysis buffer Bioon Cat#R0127 1 X PBS Bio-Channel Cat#BC-BPBS-01 Anti-Flag magnetic beads Selleck Cat#B26102 Protein A/G magnetic beads Selleck Cat#B23201 Protein A/G Agarose Thermo Fisher Scientific Cat#202422 not-fat milk Biosharp Cat#BS102-500g Protease Inhibitor Cocktail TargetMol Cat#C0001-1 mL Phosphatase Inhibitor Cocktail III TargetMol Cat#C0004-2 mL Stripping Buffer CWBIO Cat#CW0056 Fluoromount-G SouthernBiotech Cat#0100-01 Electron Microscope Fixative Servicebio Cat#G1102-100ML Seahorse XF DMEM medium Agilent Cat#103575-100 24 Cell Reports 45, 117183, April 28, 2026 Samples from human brains were gathered and lysed using Triton X-100 cell lysis buffer (including TritonX-100, PBS, phosphatase and protease inhibitors). .. The samples were then incubated on the ice for 30 min. After centrifugation at 13,300 × RPM at 4 ◦ C for 30 min, the normalized supernatant was collected and denatured at 95 ◦ C for 5 min with 4xLDS loading dye (Invitrogen, NP0008).

    Microscopy:

    Article Title: STUB1-VCP/p97 complex regulates mitophagy via fine-tuning of PINK1 levels.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER pCDNA4-STUB1-K30A-3XFLAG This paper N/A pCDNA4-STUB1-N65S-3XFLAG This paper N/A Software and algorithms GraphPad Prism (https://www.graphpad.com/features) GraphPad Software Version 8.0 FlowJo (https://www.flowjo.com/) Tree Star Software Version 10.0 Adobe Illustrator (http://www.adobe.com/cn/) Adobe Systems Version 26.0 ImageJ (https://imagej.nih.gov/ij/) Java Version 1.8.0 Other RIPA lysis buffer Bioon Cat#R0127 1 X PBS Bio-Channel Cat#BC-BPBS-01 Anti-Flag magnetic beads Selleck Cat#B26102 Protein A/G magnetic beads Selleck Cat#B23201 Protein A/G Agarose Thermo Fisher Scientific Cat#202422 not-fat milk Biosharp Cat#BS102-500g Protease Inhibitor Cocktail TargetMol Cat#C0001-1 mL Phosphatase Inhibitor Cocktail III TargetMol Cat#C0004-2 mL Stripping Buffer CWBIO Cat#CW0056 Fluoromount-G SouthernBiotech Cat#0100-01 Electron Microscope Fixative Servicebio Cat#G1102-100ML Seahorse XF DMEM medium Agilent Cat#103575-100 24 Cell Reports 45, 117183, April 28, 2026 Samples from human brains were gathered and lysed using Triton X-100 cell lysis buffer (including TritonX-100, PBS, phosphatase and protease inhibitors). .. The samples were then incubated on the ice for 30 min. After centrifugation at 13,300 × RPM at 4 ◦ C for 30 min, the normalized supernatant was collected and denatured at 95 ◦ C for 5 min with 4xLDS loading dye (Invitrogen, NP0008).

    Article Title: Immediate-early genes Arc and c-Fos show divergent brain-wide expression following contextual fear conditioning
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Rat monoclonal IgG anti-c-Fos Synaptic Systems Cat#226 017; RRID: AB_2864765 Guinea pig polyclonal anti-c-Fos antiserum Synaptic Systems Cat#226 004; RRID: AB_2619946 Rabbit polyclonal anti-c-Fos Synaptic Systems Cat#226 003; RRID: AB_2231974 Rabbit polyclonal IgG anti-c-Fos Santa Cruz Biotechnology, Inc. Cat#sc-52; RRID: AB_2106783 Rabbit polyclonal anti-Arc Synaptic Systems Cat#156 003; RRID: AB_887694 Mouse monoclonal IgG2a anti-Arc (C-7) Santa Cruz Biotechnology, Inc. Cat#sc-17839; RRID: AB_626696 Mouse monoclonal 1G10.2 anti-GAD1 (GAD67) Sigma-Aldrich; Chemicon® Cat#MAB5406; RRID: AB_2278725 Donkey anti-Rat IgG H&L Alexa Fluor® 647 Abcam Cat#ab150155; RRID: AB_2813835 Donkey anti-Rabbit IgG H&L Alexa Fluor® 488 Abcam Cat#ab150073; RRID: AB_2636877 Donkey anti-Rabbit IgG H&L Alexa Fluor® 647 Abcam Cat#ab150075; RRID: AB_2752244 Donkey Anti-Mouse IgG H&L Alexa Fluor® 488 Abcam Cat#ab150105; RRID: AB_2732856 AffiniPure Donkey Anti-Guinea Pig IgG (H+L) Alexa Fluor® 488 Jackson ImmunoResearch, Inc. Cat#706-545-148; RRID: AB_2340472 AffiniPure Donkey Anti-Mouse IgG (H+L) CyTM3 Jackson ImmunoResearch, Inc. Cat#715-165-150; RRID: AB_2340813 AffiniPure Donkey Anti-Rabbit IgG (H+L) CyTM3 Jackson ImmunoResearch, Inc. Cat#711-165-152; RRID: AB_2307443 AffiniPure Fab Fragment Donkey Anti-Mouse IgG (H+L) Jackson ImmunoResearch, Inc. Cat#715-007-003; RRID: AB_2307338 Hoechst 33342 Thermo Scientific Cat#62249 Fluoromount-G SouthernBiotech Cat#0100-01 Kainic acid monohydrate Sigma-Aldrich Cat#K0250; CAS: 58002-62-3 Mouse: 129S6/SvEvTac Taconic Cat#129S6 FreezeFrame 4 Actimetrics actimetrics.com/products/freezeframe/ Leica Application Suite X (LAS X) Leica Microsystems leica-microsystems.com/products/microscope-software/p/leica-las-x-ls/ Fiji (ImageJ) v2.16.0/1.54p Schindelin et al., 2012 PMCID: PMC3855844 imagej.net/software/fiji/ Prism v10.5.0 GraphPad graphpad.com/features Confocal/multiphoton microscope Leica Microsystems TCS SP8 Contextual fear conditioning (CFC) chambers Med Associates, Inc. med-associates.com/product-category/learning-memory-attention/fear-conditioning/ Supplementary Table 3. ..

    Saline:

    Article Title: Protocol to study juxtacrine signaling in human vascular cells using a fluorescence labeling co-culture approach.
    Article Snippet: Herrera & Komatsu, STAR Protocols 6, 103785 June 20, 2025 a 2025 The Endothelial cells interact closely with adjacent endothelial cells and pericytes.. The intercellular crosstalk between these cells is essential for angiogenesis, maturation, and vascular homeostasis.. This protocol outlines a method to study these interactions using a co-culture system.

    FACS:

    Article Title: Protocol to study juxtacrine signaling in human vascular cells using a fluorescence labeling co-culture approach.
    Article Snippet: Herrera & Komatsu, STAR Protocols 6, 103785 June 20, 2025 a 2025 The Endothelial cells interact closely with adjacent endothelial cells and pericytes.. The intercellular crosstalk between these cells is essential for angiogenesis, maturation, and vascular homeostasis.. This protocol outlines a method to study these interactions using a co-culture system.

    Suspension:

    Article Title: 3D-generation of high-purity midbrain dopaminergic progenitors and lineage-guided refinement of grafts supports Parkinson's disease cell therapy.
    Article Snippet: In brief Chen and colleagues present a 3D differentiation method for the efficient and robust generation of mDAP-enriched donor cells from hPSCs.. They mapped the clonal lineages between donor cells and their derivatives within grafts following transplantation, which facilitates further refinement of the differentiation method and the elimination of off-target lineage cells.. Predictable lineage outcomes of individual progenitors Reconstructed cellular lineage Lineage based optimization Efficient and robust generation of mDAPs

    Cloning:

    Article Title: 3D-generation of high-purity midbrain dopaminergic progenitors and lineage-guided refinement of grafts supports Parkinson's disease cell therapy.
    Article Snippet: In brief Chen and colleagues present a 3D differentiation method for the efficient and robust generation of mDAP-enriched donor cells from hPSCs.. They mapped the clonal lineages between donor cells and their derivatives within grafts following transplantation, which facilitates further refinement of the differentiation method and the elimination of off-target lineage cells.. Predictable lineage outcomes of individual progenitors Reconstructed cellular lineage Lineage based optimization Efficient and robust generation of mDAPs

    RNAscope:

    Article Title: 3D-generation of high-purity midbrain dopaminergic progenitors and lineage-guided refinement of grafts supports Parkinson's disease cell therapy.
    Article Snippet: In brief Chen and colleagues present a 3D differentiation method for the efficient and robust generation of mDAP-enriched donor cells from hPSCs.. They mapped the clonal lineages between donor cells and their derivatives within grafts following transplantation, which facilitates further refinement of the differentiation method and the elimination of off-target lineage cells.. Predictable lineage outcomes of individual progenitors Reconstructed cellular lineage Lineage based optimization Efficient and robust generation of mDAPs

    Single Cell:

    Article Title: 3D-generation of high-purity midbrain dopaminergic progenitors and lineage-guided refinement of grafts supports Parkinson's disease cell therapy.
    Article Snippet: In brief Chen and colleagues present a 3D differentiation method for the efficient and robust generation of mDAP-enriched donor cells from hPSCs.. They mapped the clonal lineages between donor cells and their derivatives within grafts following transplantation, which facilitates further refinement of the differentiation method and the elimination of off-target lineage cells.. Predictable lineage outcomes of individual progenitors Reconstructed cellular lineage Lineage based optimization Efficient and robust generation of mDAPs

    cDNA Synthesis:

    Article Title: A TLR4-dependent fibroblast-monocyte axis in tumor-draining lymph nodes contributes to metastasis in triple-negative breast cancer.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Trypsin-EDTA solution Sigma Aldrich Cat#T4049 Trypan blue Thermo Fisher Scientific Cat#T10282 Corning® Matrigel® Growth Factor Reduced (GFR) Corning Cat#354230 Insulin solution human Sigma Aldrich Cat#I9278 Phosphate buffered saline (PBS) Sigma Aldrich Cat#P2272 CryoStor® CS10 cell cryopreservation media Sigma Aldrich Cat#C2874 Tissue-Tek® O.C.T. .. Compound Sakura Finetek USA Cat#4583 Bovine Serum Albumin (BSA) Sigma Aldrich Cat#9048-46-8 Fluoromount-G® SouthernBiotech Cat#0100-01 Donkey serum Merck Millipore Cat#S30-100ML Acid black 2 (India Ink) Angene Cat#8005-03-6 Formaldehyde Solution 16%, Methanol free Thermo Fisher Scientific Cat#28908 Acetic acid 100% Carl Roth Cat#6755.1 TLR4i (TAK-242) Sigma Aldrich Cat#614316-5MG MYD88i (TJ-M2010-5) MedChemExpress Cat#HY-139397 Collagenase A (from Clostridium histolyticum) Sigma Aldrich Cat#10103578001 Collagenase D (from Clostridium histolyticum) Sigma Aldrich Cat#11088858001 DNase I (grade II, from bovine pancreas) Sigma Aldrich Cat#10104159001 EDTA, 500mM solution Merck Millipore Cat#324504 ACK Lysing Buffer Thermo Fisher Scientific Cat#A10492-01 Bovine Serum Albumin Fraction V Merck Cat#10735086001 Lipopolysaccharides (LPS, from Escherichia coli O127:B8) Sigma Aldrich Cat#L4516 Recombinant Mouse Interferon Gamma (rm IFN-gamma) Immunotools Cat#12343534 NG-Methyl-L-arginine acetate salt (L-NMMA) Sigma Aldrich Cat#M7033 S100A9 recombinant mouse R&D Systems Cat#2065-S9 Fibronectin Sigma Aldrich Cat#F2518 Recombinant Mouse CCL7 (MCP-3) (carrier-free) Biolegend Cat#86102 Recombinant Mouse CCL2 (MCP-1) (carrier-free) Biolegend Cat#578402 Recombinant Human Apo-SAA1 Peprotech Cat#300-53 Recombinant Murine PDGF-BB Peprotech Cat#315-18 Recombinant Mouse NGAL (Lipocalin-2) (carrier-free) Biolegend Cat#588002 Recombinant Mouse Biglycan Protein, CF Biotechne/RnD Cat#8128-CM-050 Mouse Tenascin C (TNC) Protein 10 ug Hö lzel Cat#abx168355-10 Recombinant Mouse Osteopontin (carrier-free) Biolegend Cat#763604 TWEEN® 20 Sigma Aldrich Cat#P1379 Ethanol Sigma Aldrich Cat#32205-M Isoflurane Cp pharma Cat#1214 Critical commercial assays RNeasy micro kit Qiagen Cat#74004 First Strand cDNA Synthesis Kit Thermo Fisher Scientific Cat#K1612 (Continued on next page) Immunity 58, 1–17.e1–e15, December 9, 2025 e6 .. REAGENT or RESOURCE SOURCE IDENTIFIER TaqManTM Fast Advanced Master Mix Thermo Fisher Scientific Cat#4444554 FOXP3 Fix/Perm Buffer Set BioLegend Cat#421403 Chromium Next GEM Single Cell 3ʹ Kit v3.1 10x Genomics Cat#PN-1000123 Dual Index Kit TT Set A, 96 rxns 10x Genomics Cat#PN-1000215 Dual Index Kit NT Set A, 96 rxns 10x Genomics Cat#PN-1000242 Chromium Next GEM Chip G Single Cell Kit 10x Genomics Cat#PN-1000120 Library Construction Kit 10x Genomics Cat#PN-1000190 Chromium GEM-X Single Cell 5’ GEM Kit v3 4 rxns 10x Genomics Cat#PN-1000697 Library Construction Kit C 10x Genomics Cat#PN- 1000689 5’ Gel Bead Kit v3 4-plex 10x Genomics Cat#PN-1000750 5’ OCM Chip & Gaskets 10x Genomics Cat#PN- 2001100 High Sensitivity DNA Kit Agilent Cat#5067-4626 The NEBNext Poly(A) mRNA Magnetic Isolation Module New England Biolabs Cat#E7490 NEBNext Ultra II Directional RNA Library Prep Kit for Illumina New England Biolabs Cat#E7760 SuperScriptTM IV Single Cell/Low-Input cDNA PreAmp Kit Thermo Fisher Scientific Cat#11752096 Mouse MCP-1 ProQuantum Immunoassay Kit Thermo Fisher Scientific Cat#A44837 HAEMA – Quick-Stain LT-SYS ® (Diff-Quick) LT-SYS Cat#LT 005 Deposited data Raw data – bulkRNA-seq (mouse) This paper GEO: GSE267533 Raw data – spatial transcriptomics (mouse) This paper GEO: GSE267534 Raw data – scRNA-seq (mouse) This paper GEO: GSE267535 Human GRCh38 (GENCODE v44/ Ensembl110 annotations) 10x Genomics https://www.10xgenomics.com/support/ software/cell-ranger/latest/release-notes/ cr-reference-release-notes#2020-a Mouse GRCm39 (GENCODE vM33/ Ensembl110 annotations) 10x Genomics https://www.10xgenomics.com/support/ software/cell-ranger/latest/release-notes/ cr-reference-release-notes#2020-a Human Healthy Bone Marrow Zhang et al. 42 https://www.nature.com/articles/s41590- 024-01782-4 Experimental models: Cell lines Mouse: 67NR cell line Fred Miller N/A Mouse: 4T1 cell line Fred Miller N/A Mouse: AT-3 cell line ATCC N/A Mouse: FRC cell line Jacqueline Shields N/A Human: HCC10806 cell line N/A Human: MDA-MB-231 cell line ATCC N/A Human: MDA-MB-468 cell line N/A Human: Hs578T cell line N/A Human: MCF7 cell line N/A Human: T47D cell line N/A Experimental models: Organisms/strains C57BL/6J mice Envigo Laboratory Cat#5705F BALB/c OlaHsd Envigo Laboratory Cat#16205F Oligonucleotides Taqman Probe for mouse Ccl7 Thermo Fisher Scientific Mm00443113_m1 (Continued on next page) e7 Immunity 58, 1–17.e1–e15, December 9, 2025

    Virus:

    Article Title: Single-cell delineation of the microbiota-gut-brain axis: Probiotic intervention in Chd8 haploinsufficient mice.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-CHD8 Abcam Cat#ab114126; RRID:AB_10858797 HRP-conjugated anti-GAPDH Easybio Cat#BE0034 Goat Anti-Rabbit IgG (H&L)-HRP Conjugated Easybio Cat#BE0101-100 KLF4 Antibody Pierce Cat#PA1095; RRID:AB_2539864 Ezrin Antibody (3C12) Pierce Cat#MA513862; RRID:AB_10979020 Donkey anti-Rabbit IgG (H + L) Invitrogen Cat#A31572; RRID:AB_162553 CD3 Monoclonal Antibody (17A2) eBioscience Cat#11-0032-82; RRID:AB_2572431 PE anti-mouse/human CD45R/B220 Antibody biolegend Cat#103028 CD45 Monoclonal Antibody (30-F11) eBioscience Cat#17-0451-82; RRID:AB_469392 Goat anti-Rabbit IgG (H + L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 594 Invitrogen Cat#A-11012; RRID:AB_2534079 Goat anti-Mouse IgG (H + L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 488 Invitrogen Cat#A-11001; RRID:AB_2534069 Cleaved Caspase-3 (Asp175) (5A1E) Rabbit mAb Cell Signaling Technology Cat#9664S; RRID:AB_2070042 Bacterial and virus strains Lactobacillus murinus Cultured anaerobically in Gifu Anaerobic Broth (GAM Broth) N/A Biological samples C57BL/6JGpt mice GemPharmatech N/A Chemicals, peptides, and recombinant proteins Gifu Anaerobic Broth (GAM Broth) Hopebio Cat#HB8518 PBS HyClone Cat#SH30256.01 Papain sigmaaldrich Cat#P3125-100MG DNase I coolaber Cat#CD4871 Collagenase I sigmaaldrich Cat#C0130-100MG Collagenase II sigmaaldrich Cat#C6885-100MG Collagenase IV sigmaaldrich Cat#C5138-100MG RIPA Lysis Buffer Beyotime Cat#P0013B PMSF Beyotime Cat#ST506 Protease Inhibitor Cocktail Beyotime Cat#P1010 SDS-PAGE Buffer Beyotime Cat#P0015 RPMI Medium 1640 GIBCO Cat#11875-093 MACS Tissue Storage Solution miltenyi Cat#130-100-008 Debris Removal Solution miltenyi Cat#130-107-677 Fluoromount-G SouthernBiotech Cat#0100-01 DAPI Fluoromount-G SouthernBiotech Cat#0100-20 TRIzolTM Reagent Invitrogen Cat#15596018 acridine orange Invitrogen Cat#A3568 propidium iodide invitrogen Cat#P3566 (Continued on next page) Cell Genomics 5, 100768, February 12, 2025 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Fetal Bovine Serum (FBS) Gibco Cat#A5670701 Bovine Serum Albumin (BSA) sigmaaldrich Cat#A1933-25G dithiothreitol (DTT) solarbio Cat# D8220 EDTA-Na2 solarbio Cat# E8030 Neutral balsam solarbio Cat#G8590 Water suitable for HPLC sigmaaldrich Cat#270733-2.5L Methanol suitable for UHPLC sigmaaldrich Cat#1037261002 Paraformaldehyde, 4% solarbio Cat#P1110 optimal cutting temperature (O.C.T) sakuraus Cat#4853 DAPI beyotime Cat#C1002 enhanced chemiluminescence (ECL) substrate Easybio Cat#BE6706 Critical commercial assays Chromium Single Cell 30 Kit v2 10x Genomics Cat#CG00052 Adult Brain Dissociation Kit Miltenyi Biotec Cat#130-107-677 Modified Hematoxylin-Eosin(H&E) Stain Kit solarbio Cat#G1121 Deposited data scRNA-seq data This paper https://ngdc.cncb.ac.cn/search/ specific?db=biosample&q=PR PRJCA034312 Experimental models: Organisms/strains Chd8 mutant mice Nanjing Biomedical Research Institute of Nanjing University (NBRI) N/A Chd8 intestinal conditional knockout mice GemPharmatech N/A Cre-positive: C57BL/6JGpt-H11-Vil1-iCre GemPharmatech Cat#T004714 Chd8loxP: C57BL/6JGpt-Chd8em1Cflox/Gpt GemPharmatech Cat#T009485 Oligonucleotides Primers for genotyping, see Table S1 This paper N/A Software and algorithms Cell Ranger v3.1.0 10x Genomics https://support.10xgenomics.com/ single-cell-gene-expression/ software/downloads/latest scanpy v1.6.0 Wof et al.62 https://scanpy.readthedocs.io SCENIC v0.10.3 Van et al.64 https://github.com/aertslab/SCENIC MAST v1.14.0 Finak et al.65 https://rglab.github.io/MAST/ scrublet v0.2.2 Wolock et al.63 https://github.com/swolock/scrublet Scran v1.16.0 Lun et al.66 https://bioconductor.org/packages/ release/bioc/html/scran.html harmonypy v0.0.5 Korsunsky et al.67 https://github.com/immunogenomics/harmony scVelo v0.2.2 Bergen et al.38 https://scvelo.readthedocs.io/en/stable/ scCODA Buttner et al.68 https://sccoda.readthedocs.io/en/ latest/getting_started.html Augur Skinnider et al.25 https://github.com/neurorestore/Augur Cellchat v0.5.0 Jin et al.69 https://github.com/sqjin/CellChat GSEApy v0.10.1 Mootha et al.70 https://gseapy.readthedocs.io/ en/latest/index.html MSigDB Subramanian et al.28 https://www.gsea-msigdb.org/gsea/msigdb g:Profiler Raudvere et al.71 https://biit.cs.ut.ee/gprofiler/ PAGA Wolf et al.72 https://github.com/theislab/paga e2 Cell Genomics 5, 100768, February 12, 2025 OPEN ACCESS OPEN ACCESS

    Cell Culture:

    Article Title: Single-cell delineation of the microbiota-gut-brain axis: Probiotic intervention in Chd8 haploinsufficient mice.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-CHD8 Abcam Cat#ab114126; RRID:AB_10858797 HRP-conjugated anti-GAPDH Easybio Cat#BE0034 Goat Anti-Rabbit IgG (H&L)-HRP Conjugated Easybio Cat#BE0101-100 KLF4 Antibody Pierce Cat#PA1095; RRID:AB_2539864 Ezrin Antibody (3C12) Pierce Cat#MA513862; RRID:AB_10979020 Donkey anti-Rabbit IgG (H + L) Invitrogen Cat#A31572; RRID:AB_162553 CD3 Monoclonal Antibody (17A2) eBioscience Cat#11-0032-82; RRID:AB_2572431 PE anti-mouse/human CD45R/B220 Antibody biolegend Cat#103028 CD45 Monoclonal Antibody (30-F11) eBioscience Cat#17-0451-82; RRID:AB_469392 Goat anti-Rabbit IgG (H + L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 594 Invitrogen Cat#A-11012; RRID:AB_2534079 Goat anti-Mouse IgG (H + L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 488 Invitrogen Cat#A-11001; RRID:AB_2534069 Cleaved Caspase-3 (Asp175) (5A1E) Rabbit mAb Cell Signaling Technology Cat#9664S; RRID:AB_2070042 Bacterial and virus strains Lactobacillus murinus Cultured anaerobically in Gifu Anaerobic Broth (GAM Broth) N/A Biological samples C57BL/6JGpt mice GemPharmatech N/A Chemicals, peptides, and recombinant proteins Gifu Anaerobic Broth (GAM Broth) Hopebio Cat#HB8518 PBS HyClone Cat#SH30256.01 Papain sigmaaldrich Cat#P3125-100MG DNase I coolaber Cat#CD4871 Collagenase I sigmaaldrich Cat#C0130-100MG Collagenase II sigmaaldrich Cat#C6885-100MG Collagenase IV sigmaaldrich Cat#C5138-100MG RIPA Lysis Buffer Beyotime Cat#P0013B PMSF Beyotime Cat#ST506 Protease Inhibitor Cocktail Beyotime Cat#P1010 SDS-PAGE Buffer Beyotime Cat#P0015 RPMI Medium 1640 GIBCO Cat#11875-093 MACS Tissue Storage Solution miltenyi Cat#130-100-008 Debris Removal Solution miltenyi Cat#130-107-677 Fluoromount-G SouthernBiotech Cat#0100-01 DAPI Fluoromount-G SouthernBiotech Cat#0100-20 TRIzolTM Reagent Invitrogen Cat#15596018 acridine orange Invitrogen Cat#A3568 propidium iodide invitrogen Cat#P3566 (Continued on next page) Cell Genomics 5, 100768, February 12, 2025 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Fetal Bovine Serum (FBS) Gibco Cat#A5670701 Bovine Serum Albumin (BSA) sigmaaldrich Cat#A1933-25G dithiothreitol (DTT) solarbio Cat# D8220 EDTA-Na2 solarbio Cat# E8030 Neutral balsam solarbio Cat#G8590 Water suitable for HPLC sigmaaldrich Cat#270733-2.5L Methanol suitable for UHPLC sigmaaldrich Cat#1037261002 Paraformaldehyde, 4% solarbio Cat#P1110 optimal cutting temperature (O.C.T) sakuraus Cat#4853 DAPI beyotime Cat#C1002 enhanced chemiluminescence (ECL) substrate Easybio Cat#BE6706 Critical commercial assays Chromium Single Cell 30 Kit v2 10x Genomics Cat#CG00052 Adult Brain Dissociation Kit Miltenyi Biotec Cat#130-107-677 Modified Hematoxylin-Eosin(H&E) Stain Kit solarbio Cat#G1121 Deposited data scRNA-seq data This paper https://ngdc.cncb.ac.cn/search/ specific?db=biosample&q=PR PRJCA034312 Experimental models: Organisms/strains Chd8 mutant mice Nanjing Biomedical Research Institute of Nanjing University (NBRI) N/A Chd8 intestinal conditional knockout mice GemPharmatech N/A Cre-positive: C57BL/6JGpt-H11-Vil1-iCre GemPharmatech Cat#T004714 Chd8loxP: C57BL/6JGpt-Chd8em1Cflox/Gpt GemPharmatech Cat#T009485 Oligonucleotides Primers for genotyping, see Table S1 This paper N/A Software and algorithms Cell Ranger v3.1.0 10x Genomics https://support.10xgenomics.com/ single-cell-gene-expression/ software/downloads/latest scanpy v1.6.0 Wof et al.62 https://scanpy.readthedocs.io SCENIC v0.10.3 Van et al.64 https://github.com/aertslab/SCENIC MAST v1.14.0 Finak et al.65 https://rglab.github.io/MAST/ scrublet v0.2.2 Wolock et al.63 https://github.com/swolock/scrublet Scran v1.16.0 Lun et al.66 https://bioconductor.org/packages/ release/bioc/html/scran.html harmonypy v0.0.5 Korsunsky et al.67 https://github.com/immunogenomics/harmony scVelo v0.2.2 Bergen et al.38 https://scvelo.readthedocs.io/en/stable/ scCODA Buttner et al.68 https://sccoda.readthedocs.io/en/ latest/getting_started.html Augur Skinnider et al.25 https://github.com/neurorestore/Augur Cellchat v0.5.0 Jin et al.69 https://github.com/sqjin/CellChat GSEApy v0.10.1 Mootha et al.70 https://gseapy.readthedocs.io/ en/latest/index.html MSigDB Subramanian et al.28 https://www.gsea-msigdb.org/gsea/msigdb g:Profiler Raudvere et al.71 https://biit.cs.ut.ee/gprofiler/ PAGA Wolf et al.72 https://github.com/theislab/paga e2 Cell Genomics 5, 100768, February 12, 2025 OPEN ACCESS OPEN ACCESS

    SDS Page:

    Article Title: Single-cell delineation of the microbiota-gut-brain axis: Probiotic intervention in Chd8 haploinsufficient mice.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-CHD8 Abcam Cat#ab114126; RRID:AB_10858797 HRP-conjugated anti-GAPDH Easybio Cat#BE0034 Goat Anti-Rabbit IgG (H&L)-HRP Conjugated Easybio Cat#BE0101-100 KLF4 Antibody Pierce Cat#PA1095; RRID:AB_2539864 Ezrin Antibody (3C12) Pierce Cat#MA513862; RRID:AB_10979020 Donkey anti-Rabbit IgG (H + L) Invitrogen Cat#A31572; RRID:AB_162553 CD3 Monoclonal Antibody (17A2) eBioscience Cat#11-0032-82; RRID:AB_2572431 PE anti-mouse/human CD45R/B220 Antibody biolegend Cat#103028 CD45 Monoclonal Antibody (30-F11) eBioscience Cat#17-0451-82; RRID:AB_469392 Goat anti-Rabbit IgG (H + L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 594 Invitrogen Cat#A-11012; RRID:AB_2534079 Goat anti-Mouse IgG (H + L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 488 Invitrogen Cat#A-11001; RRID:AB_2534069 Cleaved Caspase-3 (Asp175) (5A1E) Rabbit mAb Cell Signaling Technology Cat#9664S; RRID:AB_2070042 Bacterial and virus strains Lactobacillus murinus Cultured anaerobically in Gifu Anaerobic Broth (GAM Broth) N/A Biological samples C57BL/6JGpt mice GemPharmatech N/A Chemicals, peptides, and recombinant proteins Gifu Anaerobic Broth (GAM Broth) Hopebio Cat#HB8518 PBS HyClone Cat#SH30256.01 Papain sigmaaldrich Cat#P3125-100MG DNase I coolaber Cat#CD4871 Collagenase I sigmaaldrich Cat#C0130-100MG Collagenase II sigmaaldrich Cat#C6885-100MG Collagenase IV sigmaaldrich Cat#C5138-100MG RIPA Lysis Buffer Beyotime Cat#P0013B PMSF Beyotime Cat#ST506 Protease Inhibitor Cocktail Beyotime Cat#P1010 SDS-PAGE Buffer Beyotime Cat#P0015 RPMI Medium 1640 GIBCO Cat#11875-093 MACS Tissue Storage Solution miltenyi Cat#130-100-008 Debris Removal Solution miltenyi Cat#130-107-677 Fluoromount-G SouthernBiotech Cat#0100-01 DAPI Fluoromount-G SouthernBiotech Cat#0100-20 TRIzolTM Reagent Invitrogen Cat#15596018 acridine orange Invitrogen Cat#A3568 propidium iodide invitrogen Cat#P3566 (Continued on next page) Cell Genomics 5, 100768, February 12, 2025 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Fetal Bovine Serum (FBS) Gibco Cat#A5670701 Bovine Serum Albumin (BSA) sigmaaldrich Cat#A1933-25G dithiothreitol (DTT) solarbio Cat# D8220 EDTA-Na2 solarbio Cat# E8030 Neutral balsam solarbio Cat#G8590 Water suitable for HPLC sigmaaldrich Cat#270733-2.5L Methanol suitable for UHPLC sigmaaldrich Cat#1037261002 Paraformaldehyde, 4% solarbio Cat#P1110 optimal cutting temperature (O.C.T) sakuraus Cat#4853 DAPI beyotime Cat#C1002 enhanced chemiluminescence (ECL) substrate Easybio Cat#BE6706 Critical commercial assays Chromium Single Cell 30 Kit v2 10x Genomics Cat#CG00052 Adult Brain Dissociation Kit Miltenyi Biotec Cat#130-107-677 Modified Hematoxylin-Eosin(H&E) Stain Kit solarbio Cat#G1121 Deposited data scRNA-seq data This paper https://ngdc.cncb.ac.cn/search/ specific?db=biosample&q=PR PRJCA034312 Experimental models: Organisms/strains Chd8 mutant mice Nanjing Biomedical Research Institute of Nanjing University (NBRI) N/A Chd8 intestinal conditional knockout mice GemPharmatech N/A Cre-positive: C57BL/6JGpt-H11-Vil1-iCre GemPharmatech Cat#T004714 Chd8loxP: C57BL/6JGpt-Chd8em1Cflox/Gpt GemPharmatech Cat#T009485 Oligonucleotides Primers for genotyping, see Table S1 This paper N/A Software and algorithms Cell Ranger v3.1.0 10x Genomics https://support.10xgenomics.com/ single-cell-gene-expression/ software/downloads/latest scanpy v1.6.0 Wof et al.62 https://scanpy.readthedocs.io SCENIC v0.10.3 Van et al.64 https://github.com/aertslab/SCENIC MAST v1.14.0 Finak et al.65 https://rglab.github.io/MAST/ scrublet v0.2.2 Wolock et al.63 https://github.com/swolock/scrublet Scran v1.16.0 Lun et al.66 https://bioconductor.org/packages/ release/bioc/html/scran.html harmonypy v0.0.5 Korsunsky et al.67 https://github.com/immunogenomics/harmony scVelo v0.2.2 Bergen et al.38 https://scvelo.readthedocs.io/en/stable/ scCODA Buttner et al.68 https://sccoda.readthedocs.io/en/ latest/getting_started.html Augur Skinnider et al.25 https://github.com/neurorestore/Augur Cellchat v0.5.0 Jin et al.69 https://github.com/sqjin/CellChat GSEApy v0.10.1 Mootha et al.70 https://gseapy.readthedocs.io/ en/latest/index.html MSigDB Subramanian et al.28 https://www.gsea-msigdb.org/gsea/msigdb g:Profiler Raudvere et al.71 https://biit.cs.ut.ee/gprofiler/ PAGA Wolf et al.72 https://github.com/theislab/paga e2 Cell Genomics 5, 100768, February 12, 2025 OPEN ACCESS OPEN ACCESS

    Magnetic Cell Separation:

    Article Title: Single-cell delineation of the microbiota-gut-brain axis: Probiotic intervention in Chd8 haploinsufficient mice.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Anti-CHD8 Abcam Cat#ab114126; RRID:AB_10858797 HRP-conjugated anti-GAPDH Easybio Cat#BE0034 Goat Anti-Rabbit IgG (H&L)-HRP Conjugated Easybio Cat#BE0101-100 KLF4 Antibody Pierce Cat#PA1095; RRID:AB_2539864 Ezrin Antibody (3C12) Pierce Cat#MA513862; RRID:AB_10979020 Donkey anti-Rabbit IgG (H + L) Invitrogen Cat#A31572; RRID:AB_162553 CD3 Monoclonal Antibody (17A2) eBioscience Cat#11-0032-82; RRID:AB_2572431 PE anti-mouse/human CD45R/B220 Antibody biolegend Cat#103028 CD45 Monoclonal Antibody (30-F11) eBioscience Cat#17-0451-82; RRID:AB_469392 Goat anti-Rabbit IgG (H + L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 594 Invitrogen Cat#A-11012; RRID:AB_2534079 Goat anti-Mouse IgG (H + L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 488 Invitrogen Cat#A-11001; RRID:AB_2534069 Cleaved Caspase-3 (Asp175) (5A1E) Rabbit mAb Cell Signaling Technology Cat#9664S; RRID:AB_2070042 Bacterial and virus strains Lactobacillus murinus Cultured anaerobically in Gifu Anaerobic Broth (GAM Broth) N/A Biological samples C57BL/6JGpt mice GemPharmatech N/A Chemicals, peptides, and recombinant proteins Gifu Anaerobic Broth (GAM Broth) Hopebio Cat#HB8518 PBS HyClone Cat#SH30256.01 Papain sigmaaldrich Cat#P3125-100MG DNase I coolaber Cat#CD4871 Collagenase I sigmaaldrich Cat#C0130-100MG Collagenase II sigmaaldrich Cat#C6885-100MG Collagenase IV sigmaaldrich Cat#C5138-100MG RIPA Lysis Buffer Beyotime Cat#P0013B PMSF Beyotime Cat#ST506 Protease Inhibitor Cocktail Beyotime Cat#P1010 SDS-PAGE Buffer Beyotime Cat#P0015 RPMI Medium 1640 GIBCO Cat#11875-093 MACS Tissue Storage Solution miltenyi Cat#130-100-008 Debris Removal Solution miltenyi Cat#130-107-677 Fluoromount-G SouthernBiotech Cat#0100-01 DAPI Fluoromount-G SouthernBiotech Cat#0100-20 TRIzolTM Reagent Invitrogen Cat#15596018 acridine orange Invitrogen Cat#A3568 propidium iodide invitrogen Cat#P3566 (Continued on next page) Cell Genomics 5, 100768, February 12, 2025 e1 .. REAGENT or RESOURCE SOURCE IDENTIFIER Fetal Bovine Serum (FBS) Gibco Cat#A5670701 Bovine Serum Albumin (BSA) sigmaaldrich Cat#A1933-25G dithiothreitol (DTT) solarbio Cat# D8220 EDTA-Na2 solarbio Cat# E8030 Neutral balsam solarbio Cat#G8590 Water suitable for HPLC sigmaaldrich Cat#270733-2.5L Methanol suitable for UHPLC sigmaaldrich Cat#1037261002 Paraformaldehyde, 4% solarbio Cat#P1110 optimal cutting temperature (O.C.T) sakuraus Cat#4853 DAPI beyotime Cat#C1002 enhanced chemiluminescence (ECL) substrate Easybio Cat#BE6706 Critical commercial assays Chromium Single Cell 30 Kit v2 10x Genomics Cat#CG00052 Adult Brain Dissociation Kit Miltenyi Biotec Cat#130-107-677 Modified Hematoxylin-Eosin(H&E) Stain Kit solarbio Cat#G1121 Deposited data scRNA-seq data This paper https://ngdc.cncb.ac.cn/search/ specific?db=biosample&q=PR PRJCA034312 Experimental models: Organisms/strains Chd8 mutant mice Nanjing Biomedical Research Institute of Nanjing University (NBRI) N/A Chd8 intestinal conditional knockout mice GemPharmatech N/A Cre-positive: C57BL/6JGpt-H11-Vil1-iCre GemPharmatech Cat#T004714 Chd8loxP: C57BL/6JGpt-Chd8em1Cflox/Gpt GemPharmatech Cat#T009485 Oligonucleotides Primers for genotyping, see Table S1 This paper N/A Software and algorithms Cell Ranger v3.1.0 10x Genomics https://support.10xgenomics.com/ single-cell-gene-expression/ software/downloads/latest scanpy v1.6.0 Wof et al.62 https://scanpy.readthedocs.io SCENIC v0.10.3 Van et al.64 https://github.com/aertslab/SCENIC MAST v1.14.0 Finak et al.65 https://rglab.github.io/MAST/ scrublet v0.2.2 Wolock et al.63 https://github.com/swolock/scrublet Scran v1.16.0 Lun et al.66 https://bioconductor.org/packages/ release/bioc/html/scran.html harmonypy v0.0.5 Korsunsky et al.67 https://github.com/immunogenomics/harmony scVelo v0.2.2 Bergen et al.38 https://scvelo.readthedocs.io/en/stable/ scCODA Buttner et al.68 https://sccoda.readthedocs.io/en/ latest/getting_started.html Augur Skinnider et al.25 https://github.com/neurorestore/Augur Cellchat v0.5.0 Jin et al.69 https://github.com/sqjin/CellChat GSEApy v0.10.1 Mootha et al.70 https://gseapy.readthedocs.io/ en/latest/index.html MSigDB Subramanian et al.28 https://www.gsea-msigdb.org/gsea/msigdb g:Profiler Raudvere et al.71 https://biit.cs.ut.ee/gprofiler/ PAGA Wolf et al.72 https://github.com/theislab/paga e2 Cell Genomics 5, 100768, February 12, 2025 OPEN ACCESS OPEN ACCESS



    Similar Products

    medium fluoromount g  (SouthernBiotech)
    97
    SouthernBiotech medium fluoromount g
    Medium Fluoromount G, supplied by SouthernBiotech, used in various techniques. Bioz Stars score: 97/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/fluoromount+g+southernbiotech/Fluoromount-G/pmc12954845-83-21-23
    Average 97 stars, based on 1 article reviews
    medium fluoromount g - by Bioz Stars, 2026-11
    97/100 stars
    		  Buy from Supplier
    fluoromount g southernbiotech  (SouthernBiotech)
    97
    SouthernBiotech fluoromount g southernbiotech
    Fluoromount G Southernbiotech, supplied by SouthernBiotech, used in various techniques. Bioz Stars score: 97/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/fluoromount+g+southernbiotech/Fluoromount-G/pm41903135-352-92-93
    Average 97 stars, based on 1 article reviews
    fluoromount g southernbiotech - by Bioz Stars, 2026-11
    97/100 stars
    		  Buy from Supplier
    fluoromount g mounting medium southernbiotech  (SouthernBiotech)
    97
    SouthernBiotech fluoromount g mounting medium southernbiotech
    Fluoromount G Mounting Medium Southernbiotech, supplied by SouthernBiotech, used in various techniques. Bioz Stars score: 97/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/fluoromount+g+southernbiotech/Fluoromount-G/pm41864207-276-42-45
    Average 97 stars, based on 1 article reviews
    fluoromount g mounting medium southernbiotech - by Bioz Stars, 2026-11
    97/100 stars
    		  Buy from Supplier
    dapi fluoromount g southernbiotech cat  (SouthernBiotech)
    96
    SouthernBiotech dapi fluoromount g southernbiotech cat
    Dapi Fluoromount G Southernbiotech Cat, supplied by SouthernBiotech, used in various techniques. Bioz Stars score: 96/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/fluoromount+g+southernbiotech/DAPI+Fluoromount-G/pm41856110-301-47-49
    Average 96 stars, based on 1 article reviews
    dapi fluoromount g southernbiotech cat - by Bioz Stars, 2026-11
    96/100 stars
    		  Buy from Supplier
    rpn2108 fluoromount g southernbiotech  (SouthernBiotech)
    97
    SouthernBiotech rpn2108 fluoromount g southernbiotech
    Rpn2108 Fluoromount G Southernbiotech, supplied by SouthernBiotech, used in various techniques. Bioz Stars score: 97/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/fluoromount+g+southernbiotech/Fluoromount-G/pm41824455-337-188-190
    Average 97 stars, based on 1 article reviews
    rpn2108 fluoromount g southernbiotech - by Bioz Stars, 2026-11
    97/100 stars
    		  Buy from Supplier
    hbss southernbiotech  (SouthernBiotech)
    97
    SouthernBiotech hbss southernbiotech
    Hbss Southernbiotech, supplied by SouthernBiotech, used in various techniques. Bioz Stars score: 97/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/fluoromount+g+southernbiotech/Fluoromount-G/10__1016_slash_j__isci__2026__115205-188-121-122
    Average 97 stars, based on 1 article reviews
    hbss southernbiotech - by Bioz Stars, 2026-11
    97/100 stars
    		  Buy from Supplier
    media southernbiotech 0100 01 tbs 10x euromedex et220 tween sigma aldrich p7949 sybr green supermix  (SouthernBiotech)
    97
    SouthernBiotech media southernbiotech 0100 01 tbs 10x euromedex et220 tween sigma aldrich p7949 sybr green supermix
    Media Southernbiotech 0100 01 Tbs 10x Euromedex Et220 Tween Sigma Aldrich P7949 Sybr Green Supermix, supplied by SouthernBiotech, used in various techniques. Bioz Stars score: 97/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/fluoromount+g+southernbiotech/Fluoromount-G/pm41734063-243-155-156
    Average 97 stars, based on 1 article reviews
    media southernbiotech 0100 01 tbs 10x euromedex et220 tween sigma aldrich p7949 sybr green supermix - by Bioz Stars, 2026-11
    97/100 stars
    		  Buy from Supplier
    southernbiotech dapi fluoromount g  (SouthernBiotech)
    97
    SouthernBiotech southernbiotech dapi fluoromount g
    Southernbiotech Dapi Fluoromount G, supplied by SouthernBiotech, used in various techniques. Bioz Stars score: 97/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/fluoromount+g+southernbiotech/Fluoromount-G/10__1096_slash_fj__202504597r-122-11-11
    Average 97 stars, based on 1 article reviews
    southernbiotech dapi fluoromount g - by Bioz Stars, 2026-11
    97/100 stars
    		  Buy from Supplier

    Image Search Results