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mutational profiling map fragmentation buffer  (Zymo Research)


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    Zymo Research mutational profiling map fragmentation buffer
    Mutational Profiling Map Fragmentation Buffer, supplied by Zymo Research, used in various techniques. Bioz Stars score: 95/100, based on 235 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/mutation+profiling/Digestion+Buffer/pmc12000875-61-8-54
    Average 95 stars, based on 235 article reviews
    mutational profiling map fragmentation buffer - by Bioz Stars, 2026-11
    95/100 stars

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    Centrifugation:

    Article Title: Combined-stress priming alters physiology, transcriptional dynamics, and acute thermal resistance in Acropora cervicornis corals
    Article Snippet: Samples were ground into a homogeneous powder with a mortar, pestle, and liquid nitrogen, then 300 mg of powder was further homogenized with bead beating (pre-filled Zymo DNA/RNA Shield and 2.0 mm BashingBeads tubes) for two 1 min rounds (Biospec Products), alternated with 1 min on ice. .. Homogenized samples were further digested with Proteinase K (45 μl Proteinase K and 90 μl Proteinase K Digestion Buffer (Zymo) for 30 min at room temperature) and DNA/RNA Digestion Buffer (Zymo) with two rounds of centrifugation to remove cellular debris prior to extraction (6,700 g for 2 min at 4 □ and 12,000 g for 2 min at 4 □, prior to and following Proteinase K digestion, respectively). .. DNA and RNA were subsequently extracted with the Zymo Quick-DNA/RNA Miniprep Plus Kit following the manufacturer’s instructions, with the addition of one vacufuge step on an Eppendorf Vacufuge Plus at V-AL for 2 min prior to elution to remove volatile contaminants.

    Extraction:

    Article Title: Combined-stress priming alters physiology, transcriptional dynamics, and acute thermal resistance in Acropora cervicornis corals
    Article Snippet: Samples were ground into a homogeneous powder with a mortar, pestle, and liquid nitrogen, then 300 mg of powder was further homogenized with bead beating (pre-filled Zymo DNA/RNA Shield and 2.0 mm BashingBeads tubes) for two 1 min rounds (Biospec Products), alternated with 1 min on ice. .. Homogenized samples were further digested with Proteinase K (45 μl Proteinase K and 90 μl Proteinase K Digestion Buffer (Zymo) for 30 min at room temperature) and DNA/RNA Digestion Buffer (Zymo) with two rounds of centrifugation to remove cellular debris prior to extraction (6,700 g for 2 min at 4 □ and 12,000 g for 2 min at 4 □, prior to and following Proteinase K digestion, respectively). .. DNA and RNA were subsequently extracted with the Zymo Quick-DNA/RNA Miniprep Plus Kit following the manufacturer’s instructions, with the addition of one vacufuge step on an Eppendorf Vacufuge Plus at V-AL for 2 min prior to elution to remove volatile contaminants.

    Immunoprecipitation:

    Article Title: A genome language model for mapping DNA replication origins
    Article Snippet: Adapter ligated DNA was then denatured and incubated with anti-BrdU antibody (12.5 μg/mL; BD cat. no. 555627), followed by immuno-precipitation with Rabbit anti-mouse IgG (20μg; Sigma-Aldrich, cat. no. M7023). .. Immunoprecipitated DNA was resuspended in digestion buffer with freshly added proteinase K. DNA was purified using DNA Clean & Concentrator-5 kit (Zymo Research, D4013). .. Final libraries were prepared using the NEBNext Ultra DNA Library Prep Kit for Illumina and sequenced on an Illumina NextSeq2000 (50bp, single end).

    Purification:

    Article Title: A genome language model for mapping DNA replication origins
    Article Snippet: Adapter ligated DNA was then denatured and incubated with anti-BrdU antibody (12.5 μg/mL; BD cat. no. 555627), followed by immuno-precipitation with Rabbit anti-mouse IgG (20μg; Sigma-Aldrich, cat. no. M7023). .. Immunoprecipitated DNA was resuspended in digestion buffer with freshly added proteinase K. DNA was purified using DNA Clean & Concentrator-5 kit (Zymo Research, D4013). .. Final libraries were prepared using the NEBNext Ultra DNA Library Prep Kit for Illumina and sequenced on an Illumina NextSeq2000 (50bp, single end).

    Article Title: Endometriomas are heterogeneous for functional FSH receptor expression and steroidogenic function.
    Article Snippet: We investigated whether ovarian endometriomas uniformly express functional FSH receptors (FSHR) and respond to FSH by activating transcriptional programs that drive aromatase and steroid hormone production.. Endometrioma cyst capsules were obtained from 18 patients undergoing surgery between January 2020 and December 2024.. FSHR and steroidogenic pathway components were evaluated using qRT-PCR, quantitative immunoblotting, and immunohistochemistry.

    Concentration Assay:

    Article Title: Spatially resolved gene expression analysis illuminates location-specific functions in the reef-building coral Pocillopora acuta
    Article Snippet: .. Caps contained 40 μL of a freshly prepared digestion buffer (95 μL Zymo 2X Digestion Buffer (Zymo Research D3050-1-5), 95 μL RNAse-free water, and 10 μL Proteinase K (20 mg/mL), for a final Proteinase K concentration of 1 mg/mL (Zymo Research D3001-2-5)). ..

    Recombinant:

    Article Title: Cell-type-specific transposon demethylation and TAD remodeling in aging mouse brain.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Alexa Fluor 488–conjugated anti-NeuN antibody Millipore Cat# MAB377X; Clone A60; RRID: AB_2149209 Chemicals, peptides, and recombinant proteins Hoechst 33342 Thermo Fisher Scientific Cat# 62249 Proteinase K Zymo Cat# D3001-2-20 CT Conversion Reagent Zymo Cat# D5003-1 M-Digestion Buffer Zymo Cat# D5021-9 Adaptase kits IDT Cat# 10010130 Custom 3C Kits for single cell (8 reactions) Arima Genomics N/A Sample Preparation Kit Vizgen Cat# 10400012 MERSCOPE 500 Gene Imaging Kit Vizgen Cat# 10400006 Critical commercial assays MERFISH Data Generation Vizgen https://vizgen.com/wp-content/uploads/ 2025/04/91600129_Histology-Guide-forPreparing-Fresh-and-Fixed-FrozenTissue-Samples_Rev-B.pdf snmC-seq3 and snm3C-seq Protocol This Paper https://www.protocols.io/view/snm3c- seq3-kqdg3x6ezg25/v1 Deposited data Male single-cell FASTQ (2-month) Liu et al. 36 GEO: GSE132489; GEO: GSE213262 Male single-cell FASTQ This Paper GEO: GSE313770 Female single-cell FASTQ This Paper GEO: GSE292803 Female single-cell Contact This Paper GEO: GSE292803 Male Cell type pseudo-bulk AllC This Paper GEO: GSE313770 Female Cell type pseudo-bulk AllC This Paper GEO: GSE292803 snATAC-seq Amaral et al. 30 GEO: GSE294772 10X Multiome Amaral etal. .. 30 GEO: GSE294772 H3K9me3 bigwig Zhang et al. 28 GEO: GSE187332 CTCF ChIP-seq ENCODE 73 ENCODE: ENCSR677HXC Experimental models: Organisms/strains C57BL/6J Jackson Laboratory 000664 Oligonucleotides Random primer This Paper https://www.protocols.io/view/snm3c- seq3-kqdg3x6ezg25/v1/materials PCR i5 primer This Paper https://www.protocols.io/view/snm3c- seq3-kqdg3x6ezg25/v1/materials PCR i7 primer This Paper https://www.protocols.io/view/snm3c- seq3-kqdg3x6ezg25/v1/materials Software and algorithms Custom analysis software This paper https://github.com/rachelzeng98/ aging-mouse-brain.git EpiAgingTransformer Model This paper https://github.com/Michaelvll/ aging-gene-prediction Full Software Versions This Paper See Table S9 (Continued on next page) ll OPEN ACCESS e1 Cell 189, 1–19.e1–e9, April 2, 2026 Please cite this article in press as: Zeng et al., Cell-type-specific transposon demethylation and TAD remodeling in aging mouse brain, Cell (2026), https://doi.org/10.1016/j.cell.2026.02.015 Resource

    Article Title: Expression and Purification of the Ectodomain of Erythropoietin Receptor Fused to mCitrine or mTFP1 Fluorescent Protein in Escherichia coli.
    Article Snippet: The erythropoietin receptor (EPOR) is a single-pass transmembrane protein that homo-dimerizes upon binding with its renal ligand erythropoietin (EPO) to trigger downstream signaling.. Its extracellular ectodomain mediates ligand binding.. Therefore, a fusion protein of the EPOR ectodomain can be useful for various in vitro assays, such as a binding assay with an EPO-like peptide, if overexpressed in Escherichia coli (E.coli).

    Single Cell:

    Article Title: Cell-type-specific transposon demethylation and TAD remodeling in aging mouse brain.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Alexa Fluor 488–conjugated anti-NeuN antibody Millipore Cat# MAB377X; Clone A60; RRID: AB_2149209 Chemicals, peptides, and recombinant proteins Hoechst 33342 Thermo Fisher Scientific Cat# 62249 Proteinase K Zymo Cat# D3001-2-20 CT Conversion Reagent Zymo Cat# D5003-1 M-Digestion Buffer Zymo Cat# D5021-9 Adaptase kits IDT Cat# 10010130 Custom 3C Kits for single cell (8 reactions) Arima Genomics N/A Sample Preparation Kit Vizgen Cat# 10400012 MERSCOPE 500 Gene Imaging Kit Vizgen Cat# 10400006 Critical commercial assays MERFISH Data Generation Vizgen https://vizgen.com/wp-content/uploads/ 2025/04/91600129_Histology-Guide-forPreparing-Fresh-and-Fixed-FrozenTissue-Samples_Rev-B.pdf snmC-seq3 and snm3C-seq Protocol This Paper https://www.protocols.io/view/snm3c- seq3-kqdg3x6ezg25/v1 Deposited data Male single-cell FASTQ (2-month) Liu et al. 36 GEO: GSE132489; GEO: GSE213262 Male single-cell FASTQ This Paper GEO: GSE313770 Female single-cell FASTQ This Paper GEO: GSE292803 Female single-cell Contact This Paper GEO: GSE292803 Male Cell type pseudo-bulk AllC This Paper GEO: GSE313770 Female Cell type pseudo-bulk AllC This Paper GEO: GSE292803 snATAC-seq Amaral et al. 30 GEO: GSE294772 10X Multiome Amaral etal. .. 30 GEO: GSE294772 H3K9me3 bigwig Zhang et al. 28 GEO: GSE187332 CTCF ChIP-seq ENCODE 73 ENCODE: ENCSR677HXC Experimental models: Organisms/strains C57BL/6J Jackson Laboratory 000664 Oligonucleotides Random primer This Paper https://www.protocols.io/view/snm3c- seq3-kqdg3x6ezg25/v1/materials PCR i5 primer This Paper https://www.protocols.io/view/snm3c- seq3-kqdg3x6ezg25/v1/materials PCR i7 primer This Paper https://www.protocols.io/view/snm3c- seq3-kqdg3x6ezg25/v1/materials Software and algorithms Custom analysis software This paper https://github.com/rachelzeng98/ aging-mouse-brain.git EpiAgingTransformer Model This paper https://github.com/Michaelvll/ aging-gene-prediction Full Software Versions This Paper See Table S9 (Continued on next page) ll OPEN ACCESS e1 Cell 189, 1–19.e1–e9, April 2, 2026 Please cite this article in press as: Zeng et al., Cell-type-specific transposon demethylation and TAD remodeling in aging mouse brain, Cell (2026), https://doi.org/10.1016/j.cell.2026.02.015 Resource

    Sample Prep:

    Article Title: Cell-type-specific transposon demethylation and TAD remodeling in aging mouse brain.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Alexa Fluor 488–conjugated anti-NeuN antibody Millipore Cat# MAB377X; Clone A60; RRID: AB_2149209 Chemicals, peptides, and recombinant proteins Hoechst 33342 Thermo Fisher Scientific Cat# 62249 Proteinase K Zymo Cat# D3001-2-20 CT Conversion Reagent Zymo Cat# D5003-1 M-Digestion Buffer Zymo Cat# D5021-9 Adaptase kits IDT Cat# 10010130 Custom 3C Kits for single cell (8 reactions) Arima Genomics N/A Sample Preparation Kit Vizgen Cat# 10400012 MERSCOPE 500 Gene Imaging Kit Vizgen Cat# 10400006 Critical commercial assays MERFISH Data Generation Vizgen https://vizgen.com/wp-content/uploads/ 2025/04/91600129_Histology-Guide-forPreparing-Fresh-and-Fixed-FrozenTissue-Samples_Rev-B.pdf snmC-seq3 and snm3C-seq Protocol This Paper https://www.protocols.io/view/snm3c- seq3-kqdg3x6ezg25/v1 Deposited data Male single-cell FASTQ (2-month) Liu et al. 36 GEO: GSE132489; GEO: GSE213262 Male single-cell FASTQ This Paper GEO: GSE313770 Female single-cell FASTQ This Paper GEO: GSE292803 Female single-cell Contact This Paper GEO: GSE292803 Male Cell type pseudo-bulk AllC This Paper GEO: GSE313770 Female Cell type pseudo-bulk AllC This Paper GEO: GSE292803 snATAC-seq Amaral et al. 30 GEO: GSE294772 10X Multiome Amaral etal. .. 30 GEO: GSE294772 H3K9me3 bigwig Zhang et al. 28 GEO: GSE187332 CTCF ChIP-seq ENCODE 73 ENCODE: ENCSR677HXC Experimental models: Organisms/strains C57BL/6J Jackson Laboratory 000664 Oligonucleotides Random primer This Paper https://www.protocols.io/view/snm3c- seq3-kqdg3x6ezg25/v1/materials PCR i5 primer This Paper https://www.protocols.io/view/snm3c- seq3-kqdg3x6ezg25/v1/materials PCR i7 primer This Paper https://www.protocols.io/view/snm3c- seq3-kqdg3x6ezg25/v1/materials Software and algorithms Custom analysis software This paper https://github.com/rachelzeng98/ aging-mouse-brain.git EpiAgingTransformer Model This paper https://github.com/Michaelvll/ aging-gene-prediction Full Software Versions This Paper See Table S9 (Continued on next page) ll OPEN ACCESS e1 Cell 189, 1–19.e1–e9, April 2, 2026 Please cite this article in press as: Zeng et al., Cell-type-specific transposon demethylation and TAD remodeling in aging mouse brain, Cell (2026), https://doi.org/10.1016/j.cell.2026.02.015 Resource

    Imaging:

    Article Title: Cell-type-specific transposon demethylation and TAD remodeling in aging mouse brain.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Alexa Fluor 488–conjugated anti-NeuN antibody Millipore Cat# MAB377X; Clone A60; RRID: AB_2149209 Chemicals, peptides, and recombinant proteins Hoechst 33342 Thermo Fisher Scientific Cat# 62249 Proteinase K Zymo Cat# D3001-2-20 CT Conversion Reagent Zymo Cat# D5003-1 M-Digestion Buffer Zymo Cat# D5021-9 Adaptase kits IDT Cat# 10010130 Custom 3C Kits for single cell (8 reactions) Arima Genomics N/A Sample Preparation Kit Vizgen Cat# 10400012 MERSCOPE 500 Gene Imaging Kit Vizgen Cat# 10400006 Critical commercial assays MERFISH Data Generation Vizgen https://vizgen.com/wp-content/uploads/ 2025/04/91600129_Histology-Guide-forPreparing-Fresh-and-Fixed-FrozenTissue-Samples_Rev-B.pdf snmC-seq3 and snm3C-seq Protocol This Paper https://www.protocols.io/view/snm3c- seq3-kqdg3x6ezg25/v1 Deposited data Male single-cell FASTQ (2-month) Liu et al. 36 GEO: GSE132489; GEO: GSE213262 Male single-cell FASTQ This Paper GEO: GSE313770 Female single-cell FASTQ This Paper GEO: GSE292803 Female single-cell Contact This Paper GEO: GSE292803 Male Cell type pseudo-bulk AllC This Paper GEO: GSE313770 Female Cell type pseudo-bulk AllC This Paper GEO: GSE292803 snATAC-seq Amaral et al. 30 GEO: GSE294772 10X Multiome Amaral etal. .. 30 GEO: GSE294772 H3K9me3 bigwig Zhang et al. 28 GEO: GSE187332 CTCF ChIP-seq ENCODE 73 ENCODE: ENCSR677HXC Experimental models: Organisms/strains C57BL/6J Jackson Laboratory 000664 Oligonucleotides Random primer This Paper https://www.protocols.io/view/snm3c- seq3-kqdg3x6ezg25/v1/materials PCR i5 primer This Paper https://www.protocols.io/view/snm3c- seq3-kqdg3x6ezg25/v1/materials PCR i7 primer This Paper https://www.protocols.io/view/snm3c- seq3-kqdg3x6ezg25/v1/materials Software and algorithms Custom analysis software This paper https://github.com/rachelzeng98/ aging-mouse-brain.git EpiAgingTransformer Model This paper https://github.com/Michaelvll/ aging-gene-prediction Full Software Versions This Paper See Table S9 (Continued on next page) ll OPEN ACCESS e1 Cell 189, 1–19.e1–e9, April 2, 2026 Please cite this article in press as: Zeng et al., Cell-type-specific transposon demethylation and TAD remodeling in aging mouse brain, Cell (2026), https://doi.org/10.1016/j.cell.2026.02.015 Resource

    Transformation Assay:

    Article Title: Expression and Purification of the Ectodomain of Erythropoietin Receptor Fused to mCitrine or mTFP1 Fluorescent Protein in Escherichia coli.
    Article Snippet: The erythropoietin receptor (EPOR) is a single-pass transmembrane protein that homo-dimerizes upon binding with its renal ligand erythropoietin (EPO) to trigger downstream signaling.. Its extracellular ectodomain mediates ligand binding.. Therefore, a fusion protein of the EPOR ectodomain can be useful for various in vitro assays, such as a binding assay with an EPO-like peptide, if overexpressed in Escherichia coli (E.coli).

    DNA Amplification:

    Article Title: Expression and Purification of the Ectodomain of Erythropoietin Receptor Fused to mCitrine or mTFP1 Fluorescent Protein in Escherichia coli.
    Article Snippet: The erythropoietin receptor (EPOR) is a single-pass transmembrane protein that homo-dimerizes upon binding with its renal ligand erythropoietin (EPO) to trigger downstream signaling.. Its extracellular ectodomain mediates ligand binding.. Therefore, a fusion protein of the EPOR ectodomain can be useful for various in vitro assays, such as a binding assay with an EPO-like peptide, if overexpressed in Escherichia coli (E.coli).

    Over Expression:

    Article Title: Expression and Purification of the Ectodomain of Erythropoietin Receptor Fused to mCitrine or mTFP1 Fluorescent Protein in Escherichia coli.
    Article Snippet: The erythropoietin receptor (EPOR) is a single-pass transmembrane protein that homo-dimerizes upon binding with its renal ligand erythropoietin (EPO) to trigger downstream signaling.. Its extracellular ectodomain mediates ligand binding.. Therefore, a fusion protein of the EPOR ectodomain can be useful for various in vitro assays, such as a binding assay with an EPO-like peptide, if overexpressed in Escherichia coli (E.coli).

    other:

    Article Title: Defining bottlenecks and physiological impact of an orthogonal translation initiation system
    Article Snippet: Oxidated small RNA was recovered using the Micro Bio Spin P30 columns (BioRad, 7326223) to buffer exchange, and the RNA Clean and Concentrator kit (Zymo, R1018) to purify RNA.

    Tissue:

    Article Title: Endometriomas are heterogeneous for functional FSH receptor expression and steroidogenic function.
    Article Snippet: We investigated whether ovarian endometriomas uniformly express functional FSH receptors (FSHR) and respond to FSH by activating transcriptional programs that drive aromatase and steroid hormone production.. Endometrioma cyst capsules were obtained from 18 patients undergoing surgery between January 2020 and December 2024.. FSHR and steroidogenic pathway components were evaluated using qRT-PCR, quantitative immunoblotting, and immunohistochemistry.



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    (A) <t>Mutational</t> frequencies of the top mutated genes identified in the 72 non‐hypermutated gastric cancer (GC) tumors from PRH ( n = 72 for all genes except ARID1A ( n = 62), KMT2D ( n = 70), MYH11 ( n = 63), IRS2 ( n = 65), and CLTCL1 ( n = 61)). (B) Mutational frequencies by anatomical location of non‐hypermutated GC tumors from PRH. For Fundus/Cardia, there were 13 cases, and n = 13 for all genes, except for MYH11 , PHOX2B , and PER1 , which had n = 12. For the Body, there were 45 cases, and all genes had n = 45, except for ARID1A ( n = 38), KMT2D ( n = 43), and CACNA1D ( n = 39). For the Antrum, there were 14 cases, and all genes had n = 14, except for NOTCH1 ( n = 12), CDKN2A ( n = 13), and NFE2L2 ( n = 13).
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    (A) <t>Mutational</t> frequencies of the top mutated genes identified in the 72 non‐hypermutated gastric cancer (GC) tumors from PRH ( n = 72 for all genes except ARID1A ( n = 62), KMT2D ( n = 70), MYH11 ( n = 63), IRS2 ( n = 65), and CLTCL1 ( n = 61)). (B) Mutational frequencies by anatomical location of non‐hypermutated GC tumors from PRH. For Fundus/Cardia, there were 13 cases, and n = 13 for all genes, except for MYH11 , PHOX2B , and PER1 , which had n = 12. For the Body, there were 45 cases, and all genes had n = 45, except for ARID1A ( n = 38), KMT2D ( n = 43), and CACNA1D ( n = 39). For the Antrum, there were 14 cases, and all genes had n = 14, except for NOTCH1 ( n = 12), CDKN2A ( n = 13), and NFE2L2 ( n = 13).
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    Broad Institute Inc tcga mutation profiles
    (A) <t>Mutational</t> frequencies of the top mutated genes identified in the 72 non‐hypermutated gastric cancer (GC) tumors from PRH ( n = 72 for all genes except ARID1A ( n = 62), KMT2D ( n = 70), MYH11 ( n = 63), IRS2 ( n = 65), and CLTCL1 ( n = 61)). (B) Mutational frequencies by anatomical location of non‐hypermutated GC tumors from PRH. For Fundus/Cardia, there were 13 cases, and n = 13 for all genes, except for MYH11 , PHOX2B , and PER1 , which had n = 12. For the Body, there were 45 cases, and all genes had n = 45, except for ARID1A ( n = 38), KMT2D ( n = 43), and CACNA1D ( n = 39). For the Antrum, there were 14 cases, and all genes had n = 14, except for NOTCH1 ( n = 12), CDKN2A ( n = 13), and NFE2L2 ( n = 13).
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    (A) Mutational frequencies of the top mutated genes identified in the 72 non‐hypermutated gastric cancer (GC) tumors from PRH ( n = 72 for all genes except ARID1A ( n = 62), KMT2D ( n = 70), MYH11 ( n = 63), IRS2 ( n = 65), and CLTCL1 ( n = 61)). (B) Mutational frequencies by anatomical location of non‐hypermutated GC tumors from PRH. For Fundus/Cardia, there were 13 cases, and n = 13 for all genes, except for MYH11 , PHOX2B , and PER1 , which had n = 12. For the Body, there were 45 cases, and all genes had n = 45, except for ARID1A ( n = 38), KMT2D ( n = 43), and CACNA1D ( n = 39). For the Antrum, there were 14 cases, and all genes had n = 14, except for NOTCH1 ( n = 12), CDKN2A ( n = 13), and NFE2L2 ( n = 13).

    Journal: Cancer Medicine

    Article Title: Actionable Genes and Carcinogenic Pathways for Gastric Cancer in Latinos

    doi: 10.1002/cam4.71216

    Figure Lengend Snippet: (A) Mutational frequencies of the top mutated genes identified in the 72 non‐hypermutated gastric cancer (GC) tumors from PRH ( n = 72 for all genes except ARID1A ( n = 62), KMT2D ( n = 70), MYH11 ( n = 63), IRS2 ( n = 65), and CLTCL1 ( n = 61)). (B) Mutational frequencies by anatomical location of non‐hypermutated GC tumors from PRH. For Fundus/Cardia, there were 13 cases, and n = 13 for all genes, except for MYH11 , PHOX2B , and PER1 , which had n = 12. For the Body, there were 45 cases, and all genes had n = 45, except for ARID1A ( n = 38), KMT2D ( n = 43), and CACNA1D ( n = 39). For the Antrum, there were 14 cases, and all genes had n = 14, except for NOTCH1 ( n = 12), CDKN2A ( n = 13), and NFE2L2 ( n = 13).

    Article Snippet: We examined tumor mutational profiles of GC from 106 PRH between 2015 and 2022 (provided by CARIS Life Sciences and the Precision Oncology Alliance).

    Techniques:

    Frequency of genetic alterations in key signaling pathways in non‐hypermutated gastric cancer cases leading to deregulation of the WNT/β‐catenin, MAPK, PI3K, TGF‐β, and p53 signaling pathways in the non‐hypermutated cases. The frequencies of alterations are expressed as a percentage of all cases. The red color denotes the overall mutational frequency, and blue denotes the amplification frequency for each gene. Figure adapted from: Nature, volume 487, pages 330–337 (2012).

    Journal: Cancer Medicine

    Article Title: Actionable Genes and Carcinogenic Pathways for Gastric Cancer in Latinos

    doi: 10.1002/cam4.71216

    Figure Lengend Snippet: Frequency of genetic alterations in key signaling pathways in non‐hypermutated gastric cancer cases leading to deregulation of the WNT/β‐catenin, MAPK, PI3K, TGF‐β, and p53 signaling pathways in the non‐hypermutated cases. The frequencies of alterations are expressed as a percentage of all cases. The red color denotes the overall mutational frequency, and blue denotes the amplification frequency for each gene. Figure adapted from: Nature, volume 487, pages 330–337 (2012).

    Article Snippet: We examined tumor mutational profiles of GC from 106 PRH between 2015 and 2022 (provided by CARIS Life Sciences and the Precision Oncology Alliance).

    Techniques: Protein-Protein interactions, Amplification