Robust normalization protocols for multiplexed fluorescence bioimage analysis

RESEARCH ARTICLE Filter-Dense Multicolor Microscopy

Siavash Kijani
Ulf Yrlid
Maria Heyden
Malin Levin
Jan Borén
Per Fogelstr

August 2016

Immunofluorescence microscopy is a unique method to reveal the spatial location of pro-teins in tiss...

Novel Normalization Standard using Fluorescence

Bukhari, Syed Habib Tahir
Akkineni, Ashwini Rahul
Ananth, Adithya
Gordeev, Victor
Grieb, Svea
Mansour, Sarah
Roth, Mareike
Sampathkumar, Charanya
Schirmer, Lucas
Tam, Jonathan

December 2010

The Biotec_Dresden Team 2010 developed an approach where two fluorescent proteins are simultaneously...

Spatiotemporal multiplexed immunofluorescence imaging of living cells and tissues with bioorthogonal cycling of fluorescent probes

Ko, Jina
Wilkovitsch, Martin
Oh, Juhyun
Kohler, Rainer H
Bolli, Evangelia
Pittet, Mikael J
Vinegoni, Claudio
Sykes, David B
Mikula, Hannes
Weissleder, Ralph
Carlson, Jonathan CT

June 2022

Raw multichannel and/or Z-stack source data from time series images in TIF format to accompany publi...

Robust normalization protocols for multiplexed fluorescence bioimage analysis

Raza, Shan E. Ahmed
Langenkämper, Daniel
Sirinukunwattana, Korsuk
Epstein, David
Nattkemper, Tim W.
Rajpoot, Nasir M.

March 2016

The study of mapping and interaction of co-localized proteins at a sub-cellular level is important ...

FLINO -A new method for immunofluorescence bioimage normalization

Graf, John
Cho, Sanghee
Mcdonough, Elizabeth
Corwin, Alex
Sood, Anup
Lindner, Andreas
Salvucci, Manuela
Stachtea, Xanthi
van Schaeybroeck, Sandra
Dunne, Philip, D
Laurent-Puig, Pierre
Longley, Daniel
Prehn, Jochen, H M
Ginty, Fiona

October 2021

International audienceMotivation: Multiplexed immunofluorescence bioimaging of single-cells and thei...

Additional file 1 of Robust normalization protocols for multiplexed fluorescence bioimage analysis

Shan Ahmed Raza (3506360)
Daniel LangenkĂ¤mper (3506345)
Korsuk Sirinukunwattana (475599)
David Epstein (136335)
Tim Nattkemper (3506354)
Nasir Rajpoot (781022)

March 2016

Appendix. Figure A-1: Column 1 to 4 represent four different cases: first two columns are from histo...

Single-Cell Biochemical Multiplexing by Multidimensional Phasor Demixing and Spectral Fluorescence Lifetime Imaging Microscopy

Haas, KT
Fries, MW
Venkitaraman, AR
Esposito, A

May 2021

Data Availability Statement: The original contributions presented in the study are included in the a...

Semi-automated background removal limits data loss and normalizes imaging mass cytometry data

IJsselsteijn, M.E.
Somarakis, A.
Lelieveldt, B.P.F.
Hollt, T.
Miranda, N.F.C.C.

July 2021

Imaging mass cytometry (IMC) allows the detection of multiple antigens (approximately 40 markers) co...

Toward reproducible, scalable, and robust data analysis across multiplex tissue imaging platforms

Erik A. Burlingame
Jennifer Eng
Guillaume Thibault
Koei Chin
Joe W. Gray
Young Hwan Chang

August 2021

Summary: The emergence of megascale single-cell multiplex tissue imaging (MTI) datasets necessitates...

Subcellular protein expression models for microsatellite instability in colorectal adenocarcinoma tissue images

October 2016

Background: New bioimaging techniques capable of visualising the co-location of numerous proteins wi...

Statistical analysis and modeling of biological fluorescence images. Methods and applications

Mansoor, Awais

January 2012

In fluorescence microscopy, the accurate measurement of spatial closeness (colocalization) between t...

Towards Protein Network Analysis using TIS Imaging and Exploratory Data Analysis

Langenkämper, Daniel
Kölling, Jan
Khan, Michael
Rajpoot, Nasir
Nattkemper, Tim Wilhelm

January 2011

Langenkämper D, Kölling J, Khan M, Rajpoot N, Nattkemper TW. Towards Protein Network Analysis using ...

Temporal Domain Multiplexing

Olumayowa Fakorede (14073456)

August 2023

Temporal domain multiplexing of two red fluorescent proteins(FPs). (A) Acquired photobleaching refer...

Cell type labels for all clustering and normalization combinations compared for CODEX multiplexed imaging

Hickey, John

November 2022

We performed CODEX (co-detection by indexing) multiplexed imaging on four sections of the human colo...

RAMTaB: Robust Alignment of Multi-Tag Bioimages

Raza, Shan-E-Ahmed
Epstein, David
Nattkemper, Tim Wilhelm
Rajpoot, Nasir

January 2012

Raza S-E-A, Epstein D, Nattkemper TW, Rajpoot N. RAMTaB: Robust Alignment of Multi-Tag Bioimages. PL...

RESEARCH ARTICLE Filter-Dense Multicolor Microscopy

Siavash Kijani
Ulf Yrlid
Maria Heyden
Malin Levin
Jan Borén
Per Fogelstr

August 2016

Immunofluorescence microscopy is a unique method to reveal the spatial location of pro-teins in tiss...

Novel Normalization Standard using Fluorescence

Bukhari, Syed Habib Tahir
Akkineni, Ashwini Rahul
Ananth, Adithya
Gordeev, Victor
Grieb, Svea
Mansour, Sarah
Roth, Mareike
Sampathkumar, Charanya
Schirmer, Lucas
Tam, Jonathan

December 2010

The Biotec_Dresden Team 2010 developed an approach where two fluorescent proteins are simultaneously...

Spatiotemporal multiplexed immunofluorescence imaging of living cells and tissues with bioorthogonal cycling of fluorescent probes

Ko, Jina
Wilkovitsch, Martin
Oh, Juhyun
Kohler, Rainer H
Bolli, Evangelia
Pittet, Mikael J
Vinegoni, Claudio
Sykes, David B
Mikula, Hannes
Weissleder, Ralph
Carlson, Jonathan CT

June 2022

Raw multichannel and/or Z-stack source data from time series images in TIF format to accompany publi...

Robust normalization protocols for multiplexed fluorescence bioimage analysis

Raza, Shan E. Ahmed
Langenkämper, Daniel
Sirinukunwattana, Korsuk
Epstein, David
Nattkemper, Tim W.
Rajpoot, Nasir M.

March 2016

The study of mapping and interaction of co-localized proteins at a sub-cellular level is important ...

FLINO -A new method for immunofluorescence bioimage normalization

Graf, John
Cho, Sanghee
Mcdonough, Elizabeth
Corwin, Alex
Sood, Anup
Lindner, Andreas
Salvucci, Manuela
Stachtea, Xanthi
van Schaeybroeck, Sandra
Dunne, Philip, D
Laurent-Puig, Pierre
Longley, Daniel
Prehn, Jochen, H M
Ginty, Fiona

October 2021

International audienceMotivation: Multiplexed immunofluorescence bioimaging of single-cells and thei...

Additional file 1 of Robust normalization protocols for multiplexed fluorescence bioimage analysis

Shan Ahmed Raza (3506360)
Daniel LangenkĂ¤mper (3506345)
Korsuk Sirinukunwattana (475599)
David Epstein (136335)
Tim Nattkemper (3506354)
Nasir Rajpoot (781022)

March 2016

Appendix. Figure A-1: Column 1 to 4 represent four different cases: first two columns are from histo...

Single-Cell Biochemical Multiplexing by Multidimensional Phasor Demixing and Spectral Fluorescence Lifetime Imaging Microscopy

Haas, KT
Fries, MW
Venkitaraman, AR
Esposito, A

May 2021

Data Availability Statement: The original contributions presented in the study are included in the a...

Semi-automated background removal limits data loss and normalizes imaging mass cytometry data

IJsselsteijn, M.E.
Somarakis, A.
Lelieveldt, B.P.F.
Hollt, T.
Miranda, N.F.C.C.

July 2021

Imaging mass cytometry (IMC) allows the detection of multiple antigens (approximately 40 markers) co...

Toward reproducible, scalable, and robust data analysis across multiplex tissue imaging platforms

Erik A. Burlingame
Jennifer Eng
Guillaume Thibault
Koei Chin
Joe W. Gray
Young Hwan Chang

August 2021

Summary: The emergence of megascale single-cell multiplex tissue imaging (MTI) datasets necessitates...

Subcellular protein expression models for microsatellite instability in colorectal adenocarcinoma tissue images

October 2016

Background: New bioimaging techniques capable of visualising the co-location of numerous proteins wi...

Statistical analysis and modeling of biological fluorescence images. Methods and applications

Mansoor, Awais

January 2012

In fluorescence microscopy, the accurate measurement of spatial closeness (colocalization) between t...

Towards Protein Network Analysis using TIS Imaging and Exploratory Data Analysis

Langenkämper, Daniel
Kölling, Jan
Khan, Michael
Rajpoot, Nasir
Nattkemper, Tim Wilhelm

January 2011

Langenkämper D, Kölling J, Khan M, Rajpoot N, Nattkemper TW. Towards Protein Network Analysis using ...

Temporal Domain Multiplexing

Olumayowa Fakorede (14073456)

August 2023

Temporal domain multiplexing of two red fluorescent proteins(FPs). (A) Acquired photobleaching refer...

Cell type labels for all clustering and normalization combinations compared for CODEX multiplexed imaging

Hickey, John

November 2022

We performed CODEX (co-detection by indexing) multiplexed imaging on four sections of the human colo...

RAMTaB: Robust Alignment of Multi-Tag Bioimages

Raza, Shan-E-Ahmed
Epstein, David
Nattkemper, Tim Wilhelm
Rajpoot, Nasir

January 2012

Raza S-E-A, Epstein D, Nattkemper TW, Rajpoot N. RAMTaB: Robust Alignment of Multi-Tag Bioimages. PL...

RESEARCH ARTICLE Filter-Dense Multicolor Microscopy

Siavash Kijani
Ulf Yrlid
Maria Heyden
Malin Levin
Jan Borén
Per Fogelstr

August 2016

Immunofluorescence microscopy is a unique method to reveal the spatial location of pro-teins in tiss...

Novel Normalization Standard using Fluorescence

Bukhari, Syed Habib Tahir
Akkineni, Ashwini Rahul
Ananth, Adithya
Gordeev, Victor
Grieb, Svea
Mansour, Sarah
Roth, Mareike
Sampathkumar, Charanya
Schirmer, Lucas
Tam, Jonathan

December 2010

The Biotec_Dresden Team 2010 developed an approach where two fluorescent proteins are simultaneously...

Spatiotemporal multiplexed immunofluorescence imaging of living cells and tissues with bioorthogonal cycling of fluorescent probes

Ko, Jina
Wilkovitsch, Martin
Oh, Juhyun
Kohler, Rainer H
Bolli, Evangelia
Pittet, Mikael J
Vinegoni, Claudio
Sykes, David B
Mikula, Hannes
Weissleder, Ralph
Carlson, Jonathan CT

June 2022

Raw multichannel and/or Z-stack source data from time series images in TIF format to accompany publi...

Robust normalization protocols for multiplexed fluorescence bioimage analysis

Abstract

Extracted data

Robust normalization protocols for multiplexed fluorescence bioimage analysis

Abstract

Extracted data

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