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custom stellaris® fish probes  (LGC Biosearch)

 
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    LGC Biosearch custom stellaris® fish probes
    Custom Stellaris® Fish Probes, supplied by LGC Biosearch, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/stellaris+fish+custom+probes/stellaris+fish+probes/pmc09477407__pnas__2210321119__sapp-116-0-14
    Average 90 stars, based on 1 article reviews
    custom stellaris® fish probes - by Bioz Stars, 2026-11
    90/100 stars

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    Related Articles

    Fluorescence In Situ Hybridization:

    Article Title: Temperature Sensing Is Distributed throughout the Regulatory Network that Controls FLC Epigenetic Silencing in Vernalization
    Article Snippet: .. Stellaris FISH Custom Probes , LGC Biosearch Technologies (California, USA) , N/A. ..

    Article Title: Temperature Sensing Is Distributed throughout the Regulatory Network that Controls FLC Epigenetic Silencing in Vernalization
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Chemicals, Peptides, and Recombinant Proteins Glucose oxidase Sigma-Aldrich Cat#G0543 Catalase Sigma-Aldrich Cat#C3155 Roche Universal Probe Library Roche N/A SuperScript II Reverse Transcriptase Life Technologies Cat# 18064014 LightCycler 480 SYBR Green I Master Roche Cat 04887352001 Critical Commercial Assays Stellaris FISH Custom Probes LGC Biosearch Technologies (California, USA) N/A Deposited Data Raw microscopy data This paper figshare: https://doi.org/10.6084/m9.figshare.7346552 Experimental Models: Organisms/Strains Col FRISF2 Lee and Amasino (1995) N/A vin3-4 FRISF2 Bond et al. (2009b) N/A Oligonucleotides Primers for cDNA synthesis and qPCR (Table S1) Hepworth et al. (2018); MacGregor et al. (2013) N/A Primers for qPCR (Table S2) This paper N/A Stellaris Probes for smFISH (Table S3) This paper N/A Software and Algorithms Stellaris Probe Designer version 2.0 LGC Biosearch Technologies (California, USA) https://www.biosearchtech.com/support/tools/ design-software/stellaris-probe-designer FISHcounts Duncan et al. (2016) https://github.com/JIC-CSB/FISHcount Bio-Formats Linkert et al. (2010) https://www.openmicroscopy.org/bio-formats/ ZEN Zeiss https://www.zeiss.com/microscopy/int/products/ microscope-software/zen.html SciPy Jones et al. (2001); Wales and Doye (1997) https://www.scipy.org GraphPad Prism version 5.04 for Windows GraphPad Software, San Diego, California, USA www.graphpad.com MATLAB R2016a Shampine and Reichelt (1997) N/A LinRegPCR Ruijter et al. (2009) http://www.hartfaalcentrum.nl/index.php?main=files& fileName=LinRegPCR.zip&description=LinRegPCR:% 20qPCR%20data%20analysis&sub=LinRegPCR ImageJ Schneider et al. (2012) https://imagej.nih.gov/ij/ Other Zeiss Elyra PS1 inverted microscope Zeiss N/A EM-CCD Andor iXon 897 camera Andor N/A ..

    Recombinant:

    Article Title: Temperature Sensing Is Distributed throughout the Regulatory Network that Controls FLC Epigenetic Silencing in Vernalization
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Chemicals, Peptides, and Recombinant Proteins Glucose oxidase Sigma-Aldrich Cat#G0543 Catalase Sigma-Aldrich Cat#C3155 Roche Universal Probe Library Roche N/A SuperScript II Reverse Transcriptase Life Technologies Cat# 18064014 LightCycler 480 SYBR Green I Master Roche Cat 04887352001 Critical Commercial Assays Stellaris FISH Custom Probes LGC Biosearch Technologies (California, USA) N/A Deposited Data Raw microscopy data This paper figshare: https://doi.org/10.6084/m9.figshare.7346552 Experimental Models: Organisms/Strains Col FRISF2 Lee and Amasino (1995) N/A vin3-4 FRISF2 Bond et al. (2009b) N/A Oligonucleotides Primers for cDNA synthesis and qPCR (Table S1) Hepworth et al. (2018); MacGregor et al. (2013) N/A Primers for qPCR (Table S2) This paper N/A Stellaris Probes for smFISH (Table S3) This paper N/A Software and Algorithms Stellaris Probe Designer version 2.0 LGC Biosearch Technologies (California, USA) https://www.biosearchtech.com/support/tools/ design-software/stellaris-probe-designer FISHcounts Duncan et al. (2016) https://github.com/JIC-CSB/FISHcount Bio-Formats Linkert et al. (2010) https://www.openmicroscopy.org/bio-formats/ ZEN Zeiss https://www.zeiss.com/microscopy/int/products/ microscope-software/zen.html SciPy Jones et al. (2001); Wales and Doye (1997) https://www.scipy.org GraphPad Prism version 5.04 for Windows GraphPad Software, San Diego, California, USA www.graphpad.com MATLAB R2016a Shampine and Reichelt (1997) N/A LinRegPCR Ruijter et al. (2009) http://www.hartfaalcentrum.nl/index.php?main=files& fileName=LinRegPCR.zip&description=LinRegPCR:% 20qPCR%20data%20analysis&sub=LinRegPCR ImageJ Schneider et al. (2012) https://imagej.nih.gov/ij/ Other Zeiss Elyra PS1 inverted microscope Zeiss N/A EM-CCD Andor iXon 897 camera Andor N/A ..

    Reverse Transcription:

    Article Title: Temperature Sensing Is Distributed throughout the Regulatory Network that Controls FLC Epigenetic Silencing in Vernalization
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Chemicals, Peptides, and Recombinant Proteins Glucose oxidase Sigma-Aldrich Cat#G0543 Catalase Sigma-Aldrich Cat#C3155 Roche Universal Probe Library Roche N/A SuperScript II Reverse Transcriptase Life Technologies Cat# 18064014 LightCycler 480 SYBR Green I Master Roche Cat 04887352001 Critical Commercial Assays Stellaris FISH Custom Probes LGC Biosearch Technologies (California, USA) N/A Deposited Data Raw microscopy data This paper figshare: https://doi.org/10.6084/m9.figshare.7346552 Experimental Models: Organisms/Strains Col FRISF2 Lee and Amasino (1995) N/A vin3-4 FRISF2 Bond et al. (2009b) N/A Oligonucleotides Primers for cDNA synthesis and qPCR (Table S1) Hepworth et al. (2018); MacGregor et al. (2013) N/A Primers for qPCR (Table S2) This paper N/A Stellaris Probes for smFISH (Table S3) This paper N/A Software and Algorithms Stellaris Probe Designer version 2.0 LGC Biosearch Technologies (California, USA) https://www.biosearchtech.com/support/tools/ design-software/stellaris-probe-designer FISHcounts Duncan et al. (2016) https://github.com/JIC-CSB/FISHcount Bio-Formats Linkert et al. (2010) https://www.openmicroscopy.org/bio-formats/ ZEN Zeiss https://www.zeiss.com/microscopy/int/products/ microscope-software/zen.html SciPy Jones et al. (2001); Wales and Doye (1997) https://www.scipy.org GraphPad Prism version 5.04 for Windows GraphPad Software, San Diego, California, USA www.graphpad.com MATLAB R2016a Shampine and Reichelt (1997) N/A LinRegPCR Ruijter et al. (2009) http://www.hartfaalcentrum.nl/index.php?main=files& fileName=LinRegPCR.zip&description=LinRegPCR:% 20qPCR%20data%20analysis&sub=LinRegPCR ImageJ Schneider et al. (2012) https://imagej.nih.gov/ij/ Other Zeiss Elyra PS1 inverted microscope Zeiss N/A EM-CCD Andor iXon 897 camera Andor N/A ..

    SYBR Green Assay:

    Article Title: Temperature Sensing Is Distributed throughout the Regulatory Network that Controls FLC Epigenetic Silencing in Vernalization
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Chemicals, Peptides, and Recombinant Proteins Glucose oxidase Sigma-Aldrich Cat#G0543 Catalase Sigma-Aldrich Cat#C3155 Roche Universal Probe Library Roche N/A SuperScript II Reverse Transcriptase Life Technologies Cat# 18064014 LightCycler 480 SYBR Green I Master Roche Cat 04887352001 Critical Commercial Assays Stellaris FISH Custom Probes LGC Biosearch Technologies (California, USA) N/A Deposited Data Raw microscopy data This paper figshare: https://doi.org/10.6084/m9.figshare.7346552 Experimental Models: Organisms/Strains Col FRISF2 Lee and Amasino (1995) N/A vin3-4 FRISF2 Bond et al. (2009b) N/A Oligonucleotides Primers for cDNA synthesis and qPCR (Table S1) Hepworth et al. (2018); MacGregor et al. (2013) N/A Primers for qPCR (Table S2) This paper N/A Stellaris Probes for smFISH (Table S3) This paper N/A Software and Algorithms Stellaris Probe Designer version 2.0 LGC Biosearch Technologies (California, USA) https://www.biosearchtech.com/support/tools/ design-software/stellaris-probe-designer FISHcounts Duncan et al. (2016) https://github.com/JIC-CSB/FISHcount Bio-Formats Linkert et al. (2010) https://www.openmicroscopy.org/bio-formats/ ZEN Zeiss https://www.zeiss.com/microscopy/int/products/ microscope-software/zen.html SciPy Jones et al. (2001); Wales and Doye (1997) https://www.scipy.org GraphPad Prism version 5.04 for Windows GraphPad Software, San Diego, California, USA www.graphpad.com MATLAB R2016a Shampine and Reichelt (1997) N/A LinRegPCR Ruijter et al. (2009) http://www.hartfaalcentrum.nl/index.php?main=files& fileName=LinRegPCR.zip&description=LinRegPCR:% 20qPCR%20data%20analysis&sub=LinRegPCR ImageJ Schneider et al. (2012) https://imagej.nih.gov/ij/ Other Zeiss Elyra PS1 inverted microscope Zeiss N/A EM-CCD Andor iXon 897 camera Andor N/A ..

    Microscopy:

    Article Title: Temperature Sensing Is Distributed throughout the Regulatory Network that Controls FLC Epigenetic Silencing in Vernalization
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Chemicals, Peptides, and Recombinant Proteins Glucose oxidase Sigma-Aldrich Cat#G0543 Catalase Sigma-Aldrich Cat#C3155 Roche Universal Probe Library Roche N/A SuperScript II Reverse Transcriptase Life Technologies Cat# 18064014 LightCycler 480 SYBR Green I Master Roche Cat 04887352001 Critical Commercial Assays Stellaris FISH Custom Probes LGC Biosearch Technologies (California, USA) N/A Deposited Data Raw microscopy data This paper figshare: https://doi.org/10.6084/m9.figshare.7346552 Experimental Models: Organisms/Strains Col FRISF2 Lee and Amasino (1995) N/A vin3-4 FRISF2 Bond et al. (2009b) N/A Oligonucleotides Primers for cDNA synthesis and qPCR (Table S1) Hepworth et al. (2018); MacGregor et al. (2013) N/A Primers for qPCR (Table S2) This paper N/A Stellaris Probes for smFISH (Table S3) This paper N/A Software and Algorithms Stellaris Probe Designer version 2.0 LGC Biosearch Technologies (California, USA) https://www.biosearchtech.com/support/tools/ design-software/stellaris-probe-designer FISHcounts Duncan et al. (2016) https://github.com/JIC-CSB/FISHcount Bio-Formats Linkert et al. (2010) https://www.openmicroscopy.org/bio-formats/ ZEN Zeiss https://www.zeiss.com/microscopy/int/products/ microscope-software/zen.html SciPy Jones et al. (2001); Wales and Doye (1997) https://www.scipy.org GraphPad Prism version 5.04 for Windows GraphPad Software, San Diego, California, USA www.graphpad.com MATLAB R2016a Shampine and Reichelt (1997) N/A LinRegPCR Ruijter et al. (2009) http://www.hartfaalcentrum.nl/index.php?main=files& fileName=LinRegPCR.zip&description=LinRegPCR:% 20qPCR%20data%20analysis&sub=LinRegPCR ImageJ Schneider et al. (2012) https://imagej.nih.gov/ij/ Other Zeiss Elyra PS1 inverted microscope Zeiss N/A EM-CCD Andor iXon 897 camera Andor N/A ..

    cDNA Synthesis:

    Article Title: Temperature Sensing Is Distributed throughout the Regulatory Network that Controls FLC Epigenetic Silencing in Vernalization
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Chemicals, Peptides, and Recombinant Proteins Glucose oxidase Sigma-Aldrich Cat#G0543 Catalase Sigma-Aldrich Cat#C3155 Roche Universal Probe Library Roche N/A SuperScript II Reverse Transcriptase Life Technologies Cat# 18064014 LightCycler 480 SYBR Green I Master Roche Cat 04887352001 Critical Commercial Assays Stellaris FISH Custom Probes LGC Biosearch Technologies (California, USA) N/A Deposited Data Raw microscopy data This paper figshare: https://doi.org/10.6084/m9.figshare.7346552 Experimental Models: Organisms/Strains Col FRISF2 Lee and Amasino (1995) N/A vin3-4 FRISF2 Bond et al. (2009b) N/A Oligonucleotides Primers for cDNA synthesis and qPCR (Table S1) Hepworth et al. (2018); MacGregor et al. (2013) N/A Primers for qPCR (Table S2) This paper N/A Stellaris Probes for smFISH (Table S3) This paper N/A Software and Algorithms Stellaris Probe Designer version 2.0 LGC Biosearch Technologies (California, USA) https://www.biosearchtech.com/support/tools/ design-software/stellaris-probe-designer FISHcounts Duncan et al. (2016) https://github.com/JIC-CSB/FISHcount Bio-Formats Linkert et al. (2010) https://www.openmicroscopy.org/bio-formats/ ZEN Zeiss https://www.zeiss.com/microscopy/int/products/ microscope-software/zen.html SciPy Jones et al. (2001); Wales and Doye (1997) https://www.scipy.org GraphPad Prism version 5.04 for Windows GraphPad Software, San Diego, California, USA www.graphpad.com MATLAB R2016a Shampine and Reichelt (1997) N/A LinRegPCR Ruijter et al. (2009) http://www.hartfaalcentrum.nl/index.php?main=files& fileName=LinRegPCR.zip&description=LinRegPCR:% 20qPCR%20data%20analysis&sub=LinRegPCR ImageJ Schneider et al. (2012) https://imagej.nih.gov/ij/ Other Zeiss Elyra PS1 inverted microscope Zeiss N/A EM-CCD Andor iXon 897 camera Andor N/A ..

    Real-time Polymerase Chain Reaction:

    Article Title: Temperature Sensing Is Distributed throughout the Regulatory Network that Controls FLC Epigenetic Silencing in Vernalization
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Chemicals, Peptides, and Recombinant Proteins Glucose oxidase Sigma-Aldrich Cat#G0543 Catalase Sigma-Aldrich Cat#C3155 Roche Universal Probe Library Roche N/A SuperScript II Reverse Transcriptase Life Technologies Cat# 18064014 LightCycler 480 SYBR Green I Master Roche Cat 04887352001 Critical Commercial Assays Stellaris FISH Custom Probes LGC Biosearch Technologies (California, USA) N/A Deposited Data Raw microscopy data This paper figshare: https://doi.org/10.6084/m9.figshare.7346552 Experimental Models: Organisms/Strains Col FRISF2 Lee and Amasino (1995) N/A vin3-4 FRISF2 Bond et al. (2009b) N/A Oligonucleotides Primers for cDNA synthesis and qPCR (Table S1) Hepworth et al. (2018); MacGregor et al. (2013) N/A Primers for qPCR (Table S2) This paper N/A Stellaris Probes for smFISH (Table S3) This paper N/A Software and Algorithms Stellaris Probe Designer version 2.0 LGC Biosearch Technologies (California, USA) https://www.biosearchtech.com/support/tools/ design-software/stellaris-probe-designer FISHcounts Duncan et al. (2016) https://github.com/JIC-CSB/FISHcount Bio-Formats Linkert et al. (2010) https://www.openmicroscopy.org/bio-formats/ ZEN Zeiss https://www.zeiss.com/microscopy/int/products/ microscope-software/zen.html SciPy Jones et al. (2001); Wales and Doye (1997) https://www.scipy.org GraphPad Prism version 5.04 for Windows GraphPad Software, San Diego, California, USA www.graphpad.com MATLAB R2016a Shampine and Reichelt (1997) N/A LinRegPCR Ruijter et al. (2009) http://www.hartfaalcentrum.nl/index.php?main=files& fileName=LinRegPCR.zip&description=LinRegPCR:% 20qPCR%20data%20analysis&sub=LinRegPCR ImageJ Schneider et al. (2012) https://imagej.nih.gov/ij/ Other Zeiss Elyra PS1 inverted microscope Zeiss N/A EM-CCD Andor iXon 897 camera Andor N/A ..

    Software:

    Article Title: Temperature Sensing Is Distributed throughout the Regulatory Network that Controls FLC Epigenetic Silencing in Vernalization
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Chemicals, Peptides, and Recombinant Proteins Glucose oxidase Sigma-Aldrich Cat#G0543 Catalase Sigma-Aldrich Cat#C3155 Roche Universal Probe Library Roche N/A SuperScript II Reverse Transcriptase Life Technologies Cat# 18064014 LightCycler 480 SYBR Green I Master Roche Cat 04887352001 Critical Commercial Assays Stellaris FISH Custom Probes LGC Biosearch Technologies (California, USA) N/A Deposited Data Raw microscopy data This paper figshare: https://doi.org/10.6084/m9.figshare.7346552 Experimental Models: Organisms/Strains Col FRISF2 Lee and Amasino (1995) N/A vin3-4 FRISF2 Bond et al. (2009b) N/A Oligonucleotides Primers for cDNA synthesis and qPCR (Table S1) Hepworth et al. (2018); MacGregor et al. (2013) N/A Primers for qPCR (Table S2) This paper N/A Stellaris Probes for smFISH (Table S3) This paper N/A Software and Algorithms Stellaris Probe Designer version 2.0 LGC Biosearch Technologies (California, USA) https://www.biosearchtech.com/support/tools/ design-software/stellaris-probe-designer FISHcounts Duncan et al. (2016) https://github.com/JIC-CSB/FISHcount Bio-Formats Linkert et al. (2010) https://www.openmicroscopy.org/bio-formats/ ZEN Zeiss https://www.zeiss.com/microscopy/int/products/ microscope-software/zen.html SciPy Jones et al. (2001); Wales and Doye (1997) https://www.scipy.org GraphPad Prism version 5.04 for Windows GraphPad Software, San Diego, California, USA www.graphpad.com MATLAB R2016a Shampine and Reichelt (1997) N/A LinRegPCR Ruijter et al. (2009) http://www.hartfaalcentrum.nl/index.php?main=files& fileName=LinRegPCR.zip&description=LinRegPCR:% 20qPCR%20data%20analysis&sub=LinRegPCR ImageJ Schneider et al. (2012) https://imagej.nih.gov/ij/ Other Zeiss Elyra PS1 inverted microscope Zeiss N/A EM-CCD Andor iXon 897 camera Andor N/A ..

    Inverted Microscopy:

    Article Title: Temperature Sensing Is Distributed throughout the Regulatory Network that Controls FLC Epigenetic Silencing in Vernalization
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Chemicals, Peptides, and Recombinant Proteins Glucose oxidase Sigma-Aldrich Cat#G0543 Catalase Sigma-Aldrich Cat#C3155 Roche Universal Probe Library Roche N/A SuperScript II Reverse Transcriptase Life Technologies Cat# 18064014 LightCycler 480 SYBR Green I Master Roche Cat 04887352001 Critical Commercial Assays Stellaris FISH Custom Probes LGC Biosearch Technologies (California, USA) N/A Deposited Data Raw microscopy data This paper figshare: https://doi.org/10.6084/m9.figshare.7346552 Experimental Models: Organisms/Strains Col FRISF2 Lee and Amasino (1995) N/A vin3-4 FRISF2 Bond et al. (2009b) N/A Oligonucleotides Primers for cDNA synthesis and qPCR (Table S1) Hepworth et al. (2018); MacGregor et al. (2013) N/A Primers for qPCR (Table S2) This paper N/A Stellaris Probes for smFISH (Table S3) This paper N/A Software and Algorithms Stellaris Probe Designer version 2.0 LGC Biosearch Technologies (California, USA) https://www.biosearchtech.com/support/tools/ design-software/stellaris-probe-designer FISHcounts Duncan et al. (2016) https://github.com/JIC-CSB/FISHcount Bio-Formats Linkert et al. (2010) https://www.openmicroscopy.org/bio-formats/ ZEN Zeiss https://www.zeiss.com/microscopy/int/products/ microscope-software/zen.html SciPy Jones et al. (2001); Wales and Doye (1997) https://www.scipy.org GraphPad Prism version 5.04 for Windows GraphPad Software, San Diego, California, USA www.graphpad.com MATLAB R2016a Shampine and Reichelt (1997) N/A LinRegPCR Ruijter et al. (2009) http://www.hartfaalcentrum.nl/index.php?main=files& fileName=LinRegPCR.zip&description=LinRegPCR:% 20qPCR%20data%20analysis&sub=LinRegPCR ImageJ Schneider et al. (2012) https://imagej.nih.gov/ij/ Other Zeiss Elyra PS1 inverted microscope Zeiss N/A EM-CCD Andor iXon 897 camera Andor N/A ..



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    (A) Analysis of mRNA condensation by sedimentation and <t>RNA</t> sequencing (Sed-seq) enables calculation of mRNA proportion in the supernatant (pSup) across conditions. (B) 15 min of heat shock induces SG formation at 46°C but not at 42°C, as marked by poly(A)-binding protein (Pab1-HaloTag) and <t>FISH</t> against poly(A)+ RNA (scale bar, 5 μm). (C) Comparison of protein condensation (data from Wallace et al.) and mRNA condensation (this study), and points show individual genes (protein or mRNA) (violin plot; median). (D) Transcript pSup decreases with length under all conditions, including in unstressed cells at 30°C. Stress induces additional shifts in sedimentation beyond this baseline. Each point represents a single gene’s transcripts at a given temperature, with the solid black line showing the mean pSup for transcripts of that length. PMU1 mRNA, highlighted with a black border, sediments like a transcript more than three times its expected size following 42°C heat stress (dotted line). (E) A simple clustering model (see ) captures average pSup and stress-induced changes. Vertical boundaries mark the 1st and 99th percentiles of transcripts by length. (F) Sed-seq data allow quantification of key features: differential sedimentation relative to control (ΔSed) and escape from sedimentation (eSed). Both ΔSed and eSed control for effects of transcript length and are in units of σ, the standard deviation (SD) in sedimentation (dotted lines) around the length-dependent mean (solid lines); see . (G) Top: virtually all transcripts (gray points/density) sediment in response to 42°C heat shock, i.e., condensation, indicated by ΔSed > 0. Bottom: most genes (83%) in the heat shock factor 1 (Hsf1) regulon (orange points/density) show significant escape from sedimentation (eSed > 0). See also .
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    90
    LGC Biosearch custom stellaris rna fish probes
    (A) Analysis of mRNA condensation by sedimentation and <t>RNA</t> sequencing (Sed-seq) enables calculation of mRNA proportion in the supernatant (pSup) across conditions. (B) 15 min of heat shock induces SG formation at 46°C but not at 42°C, as marked by poly(A)-binding protein (Pab1-HaloTag) and <t>FISH</t> against poly(A)+ RNA (scale bar, 5 μm). (C) Comparison of protein condensation (data from Wallace et al.) and mRNA condensation (this study), and points show individual genes (protein or mRNA) (violin plot; median). (D) Transcript pSup decreases with length under all conditions, including in unstressed cells at 30°C. Stress induces additional shifts in sedimentation beyond this baseline. Each point represents a single gene’s transcripts at a given temperature, with the solid black line showing the mean pSup for transcripts of that length. PMU1 mRNA, highlighted with a black border, sediments like a transcript more than three times its expected size following 42°C heat stress (dotted line). (E) A simple clustering model (see ) captures average pSup and stress-induced changes. Vertical boundaries mark the 1st and 99th percentiles of transcripts by length. (F) Sed-seq data allow quantification of key features: differential sedimentation relative to control (ΔSed) and escape from sedimentation (eSed). Both ΔSed and eSed control for effects of transcript length and are in units of σ, the standard deviation (SD) in sedimentation (dotted lines) around the length-dependent mean (solid lines); see . (G) Top: virtually all transcripts (gray points/density) sediment in response to 42°C heat shock, i.e., condensation, indicated by ΔSed > 0. Bottom: most genes (83%) in the heat shock factor 1 (Hsf1) regulon (orange points/density) show significant escape from sedimentation (eSed > 0). See also .
    Custom Stellaris Rna Fish Probes, supplied by LGC Biosearch, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    (A) Analysis of mRNA condensation by sedimentation and RNA sequencing (Sed-seq) enables calculation of mRNA proportion in the supernatant (pSup) across conditions. (B) 15 min of heat shock induces SG formation at 46°C but not at 42°C, as marked by poly(A)-binding protein (Pab1-HaloTag) and FISH against poly(A)+ RNA (scale bar, 5 μm). (C) Comparison of protein condensation (data from Wallace et al.) and mRNA condensation (this study), and points show individual genes (protein or mRNA) (violin plot; median). (D) Transcript pSup decreases with length under all conditions, including in unstressed cells at 30°C. Stress induces additional shifts in sedimentation beyond this baseline. Each point represents a single gene’s transcripts at a given temperature, with the solid black line showing the mean pSup for transcripts of that length. PMU1 mRNA, highlighted with a black border, sediments like a transcript more than three times its expected size following 42°C heat stress (dotted line). (E) A simple clustering model (see ) captures average pSup and stress-induced changes. Vertical boundaries mark the 1st and 99th percentiles of transcripts by length. (F) Sed-seq data allow quantification of key features: differential sedimentation relative to control (ΔSed) and escape from sedimentation (eSed). Both ΔSed and eSed control for effects of transcript length and are in units of σ, the standard deviation (SD) in sedimentation (dotted lines) around the length-dependent mean (solid lines); see . (G) Top: virtually all transcripts (gray points/density) sediment in response to 42°C heat shock, i.e., condensation, indicated by ΔSed > 0. Bottom: most genes (83%) in the heat shock factor 1 (Hsf1) regulon (orange points/density) show significant escape from sedimentation (eSed > 0). See also .

    Journal: Molecular cell

    Article Title: Transcriptome-wide mRNP condensation precedes stress granule formation and excludes new mRNAs

    doi: 10.1016/j.molcel.2025.11.003

    Figure Lengend Snippet: (A) Analysis of mRNA condensation by sedimentation and RNA sequencing (Sed-seq) enables calculation of mRNA proportion in the supernatant (pSup) across conditions. (B) 15 min of heat shock induces SG formation at 46°C but not at 42°C, as marked by poly(A)-binding protein (Pab1-HaloTag) and FISH against poly(A)+ RNA (scale bar, 5 μm). (C) Comparison of protein condensation (data from Wallace et al.) and mRNA condensation (this study), and points show individual genes (protein or mRNA) (violin plot; median). (D) Transcript pSup decreases with length under all conditions, including in unstressed cells at 30°C. Stress induces additional shifts in sedimentation beyond this baseline. Each point represents a single gene’s transcripts at a given temperature, with the solid black line showing the mean pSup for transcripts of that length. PMU1 mRNA, highlighted with a black border, sediments like a transcript more than three times its expected size following 42°C heat stress (dotted line). (E) A simple clustering model (see ) captures average pSup and stress-induced changes. Vertical boundaries mark the 1st and 99th percentiles of transcripts by length. (F) Sed-seq data allow quantification of key features: differential sedimentation relative to control (ΔSed) and escape from sedimentation (eSed). Both ΔSed and eSed control for effects of transcript length and are in units of σ, the standard deviation (SD) in sedimentation (dotted lines) around the length-dependent mean (solid lines); see . (G) Top: virtually all transcripts (gray points/density) sediment in response to 42°C heat shock, i.e., condensation, indicated by ΔSed > 0. Bottom: most genes (83%) in the heat shock factor 1 (Hsf1) regulon (orange points/density) show significant escape from sedimentation (eSed > 0). See also .

    Article Snippet: Custom Stellaris ® RNA FISH Probes were designed against SSB1, SSA4, HSP104, and ADD66 by utilizing the Stellaris ® RNA FISH Probe Designer (Biosearch Technologies, Inc., Petaluma, CA) available online at www.biosearchtech.com/stellarisdesigner ( ).

    Techniques: Sedimentation, RNA Sequencing, Binding Assay, Comparison, Control, Standard Deviation