Additional file 2: of Measuring multiple parameters of CD8+ tumor-infiltrating lymphocytes in human cancers by image analysis

Keith Steele (4917040)
Tze Tan (4917055)
RenĂŠ Korn (4917088)
Karma Dacosta (4917043)
Charles Brown (40427)
Michael Kuziora (4917031)
Johannes Zimmermann (1743364)
Brian Laffin (4917037)
Moritz Widmaier (269049)
Lorenz Rognoni (4917049)
Ruben Cardenes (4917052)
Katrin Schneider (3039294)
Anmarie Boutrin (94563)
Philip Martin (377351)
Jiping Zha (4917034)
Tobias Wiestler (4917058)

Publication date

March 2018

DOI

10.6084/m9.figshare.5955160.v1

Abstract

CD8/PD-L1 dual IHC, quality control; co-registration; details of the automated classification assessment; details of digital IA scoring solutions; measurement of CD8+ TILs in PD-L1âpositive tumor. (DOCX 45Â kb

Extracted data

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Data Protection

Additional file 2: of Measuring multiple parameters of CD8+ tumor-infiltrating lymphocytes in human cancers by image analysis

Keith Steele (4917040)
Tze Tan (4917055)
RenĂŠ Korn (4917088)
Karma Dacosta (4917043)
Charles Brown (40427)
Michael Kuziora (4917031)
Johannes Zimmermann (1743364)
Brian Laffin (4917037)
Moritz Widmaier (269049)
Lorenz Rognoni (4917049)
Ruben Cardenes (4917052)
Katrin Schneider (3039294)
Anmarie Boutrin (94563)
Philip Martin (377351)
Jiping Zha (4917034)
Tobias Wiestler (4917058)

Open link

Publication date

March 2018

DOI

10.6084/m9.figshare.5955160.v1

Abstract

Extracted data

Larissa Carnevalli (179142)
Charles Sinclair (6158843)
Molly Taylor (6158846)
Pablo Gutierrez (6158849)
Sophie Langdon (6158852)
Anna Coenen-Stass (1571842)
Lorraine Mooney (372137)
Adina Hughes (6158855)
Laura Jarvis (6158858)
Anna Staniszewska (5892953)
Claire Crafter (1981513)
Ben Sidders (35030)
Elizabeth Hardaker (6158861)
Kevin Hudson (1629772)
Simon Barry (255454)

December 2018

Table S1. Immuno-phenotyping antibodies used for tumor flow cytometry. (DOCX 13 kb

Additional file 1: of Classification of gallbladder cancer by assessment of CD8+ TIL and PD-L1 expression

Jianzhen Lin (5568209)
Junyu Long (5568212)
Xueshuai Wan (5568215)
Jingci Chen (5568218)
Yi Bai (450166)
Anqiang Wang (5568221)
Xiaobo Yang (123393)
Yan Wu (70890)
Simon Robson (3191962)
Xinting Sang (4494844)
Haitao Zhao (14023)

July 2018

Figure S1. Representative staining patterns of FFPE GBC lesions with CD133-specific mono antibody. C...

Additional file 1: of The prognostic and predictive value of tumor-infiltrating lymphocytes and hematologic parameters in patients with breast cancer

Kwan Lee (2398369)
Eun Kim (365138)
Ji Yun (5808842)
Yong Park (583109)
Sung-Im Do (5683667)
Seoung Chae (5808845)
Chan Park (114760)

October 2018

Figure S1. KaplanâMeier survival analysis of baseline hematologic parameters (NLR, PLR), TILs CD8+...

Additional file 1: of Measuring multiple parameters of CD8+ tumor-infiltrating lymphocytes in human cancers by image analysis

Keith Steele (4917040)
Tze Tan (4917055)
RenĂŠ Korn (4917088)
Karma Dacosta (4917043)
Charles Brown (40427)
Michael Kuziora (4917031)
Johannes Zimmermann (1743364)
Brian Laffin (4917037)
Moritz Widmaier (269049)
Lorenz Rognoni (4917049)
Ruben Cardenes (4917052)
Katrin Schneider (3039294)
Anmarie Boutrin (94563)
Philip Martin (377351)
Jiping Zha (4917034)
Tobias Wiestler (4917058)

March 2018

Table S1 Relevant image information for nonclinical sample sets. Table S2 Nonclinical tumor samples,...

Additional file 3: of Measuring multiple parameters of CD8+ tumor-infiltrating lymphocytes in human cancers by image analysis

Keith Steele (4917040)
Tze Tan (4917055)
RenĂŠ Korn (4917088)
Karma Dacosta (4917043)
Charles Brown (40427)
Michael Kuziora (4917031)
Johannes Zimmermann (1743364)
Brian Laffin (4917037)
Moritz Widmaier (269049)
Lorenz Rognoni (4917049)
Ruben Cardenes (4917052)
Katrin Schneider (3039294)
Anmarie Boutrin (94563)
Philip Martin (377351)
Jiping Zha (4917034)
Tobias Wiestler (4917058)

March 2018

Figure S1 IA classification of CD8+ lymphocytes. Figure S2 IA classification of elongate CD8+ lympho...

Additional file 1: of PD-L1 expression and tumor mutational burden status for prediction of response to chemotherapy and targeted therapy in non-small cell lung cancer

Yanhui Chen (218375)
Quanxing Liu (6701078)
Zhiming Chen (1313025)
Yating Wang (1303185)
Wanning Yang (4719969)
Ying Hu (14950)
Wenbo Han (1412239)
Hui Zeng (142702)
Haitao Ma (529446)
Jigang Dai (6701081)
Henghui Zhang (159258)

May 2019

Figure S1. Comparison of CD8 levels in PD-L1 negative and positive groups. A & B: Comparison of CD8 ...

Additional file 2: of VISTA expression associated with CD8 confers a favorable immune microenvironment and better overall survival in hepatocellular carcinoma

Ming Zhang (9736)
Hua-Jin Pang (5167337)
Wei Zhao (14321)
Yu-Fa Li (5167340)
Li-Xu Yan (223343)
Zhong-Yi Dong (5167343)
Xiao-Feng He (456180)

May 2018

Figure S1. Immunohistochemically staining of PD-L1 proteins in patients with hepatocellular carcinom...

Additional file 1: of Automated image analysis of NSCLC biopsies to predict response to anti-PD-L1 therapy

Sonja Althammer (6670364)
Tze Tan (4917055)
Andreas SpitzmĂźller (6670400)
Lorenz Rognoni (4917049)
Tobias Wiestler (4917058)
Thomas Herz (6670379)
Moritz Widmaier (269049)
Marlon Rebelatto (694644)
Helene Kaplon (6670388)
Diane Damotte (228307)
Marco Alifano (375316)
Scott Hammond (2217478)
Marie-Caroline Dieu-Nosjean (228322)
Koustubh Ranade (6670394)
Guenter Schmidt (6670397)
Brandon Higgs (3517301)
Keith Steele (4917040)

May 2019

Figure S1 Digital image analysis segments CD8+ and PD-L1+ cells in dual-labelled sections of NSCLC. ...

Additional file 1: of Immune characterization of breast cancer metastases: prognostic implications

Maria Dieci (5437085)
Vassilena Tsvetkova (5437097)
Enrico Orvieto (5437064)
Federico Piacentini (5437088)
Guido Ficarra (2339788)
Gaia Griguolo (5042417)
Federica Miglietta (5437067)
Tommaso Giarratano (5437076)
Claudia Omarini (5437070)
Serena Bonaguro (5437094)
Rocco Cappellesso (384017)
Camillo Aliberti (703434)
Grazia Vernaci (5437073)
Carlo Giorgi (5437079)
Giovanni Faggioni (42109)
Giulia Tasca (5437091)
Pierfranco Conte (5437082)
Valentina Guarneri (3562331)

June 2018

Table S1. CD8 levels distribution according to tumor subtype and clinicopathological features. (DOCX...

Additional file 1: of Dissimilar patterns of tumor-infiltrating immune cells at the invasive tumor front and tumor center are associated with response to neoadjuvant chemotherapy in primary breast cancer

Lisa König (3580973)
Fabian Mairinger (6279713)
Oliver Hoffmann (3580964)
Ann-Kathrin Bittner (3580961)
Kurt Schmid (3491198)
Rainer Kimmig (58539)
Sabine Kasimir-Bauer (3580967)
Agnes Bankfalvi (284668)

February 2019

Figure S1. Representative immunohistochemistry (IHC) staining images for CD8, CD4, CD20 and CD68. Im...

Additional file 2: of Magnetic resonance imaging and molecular features associated with tumor-infiltrating lymphocytes in breast cancer

Jia Wu (169990)
Xuejie Li (505682)
Xiaodong Teng (4018334)
Daniel Rubin (50328)
Sandy Napel (5711903)
Bruce Daniel (5711906)
Ruijiang Li (830188)

September 2018

Table S1. Clinical and pathological characteristics for eligible patients in the I-SPY cohort. Table...

Additional file 1: Figure S1. of Multispectral imaging of formalin-fixed tissue predicts ability to generate tumor-infiltrating lymphocytes from melanoma

Zipei Feng (3414845)
Sachin Puri (3414857)
Tarsem Moudgil (3414842)
William Wood (42174)
Clifford Hoyt (3414854)
Chichung Wang (3414836)
Walter Urba (3414848)
Brendan Curti (3414839)
Carlo Bifulco (3414851)
Bernard Fox (2826419)

October 2015

Schematic representation of process for TIL initiation, expansion and testing. Figure S2. Lymphocyti...

Additional file 3: of Evaluation of anti-PD-1-based therapy against triple-negative breast cancer patient-derived xenograft tumors engrafted in humanized mouse models

Roberto Rosato (5722406)
Daniel Dávila-González (5722409)
Dong Choi (3578132)
Wei Qian (56612)
Wen Chen (30046)
Anthony Kozielski (5722412)
Helen Wong (241565)
Bhuvanesh Dave (147341)
Jenny Chang (3489839)

September 2018

IHC analysis of human CD4-, CD3-, CD8-, CD20-, CD68-, CD4-, and CD8-positive cells present in BCM-21...

Additional file 3: of VISTA expression associated with CD8 confers a favorable immune microenvironment and better overall survival in hepatocellular carcinoma

Ming Zhang (9736)
Hua-Jin Pang (5167337)
Wei Zhao (14321)
Yu-Fa Li (5167340)
Li-Xu Yan (223343)
Zhong-Yi Dong (5167343)
Xiao-Feng He (456180)

May 2018

Figure S2. Immunohistochemically staining of CD8 proteins in patients with hepatocellular carcinoma....

Measuring multiple parameters of CD8+ tumor-infiltrating lymphocytes in human cancers by image analysis

Keith E. Steele
Tze Heng Tan
René Korn
Karma Dacosta
Charles Brown
Michael Kuziora
Johannes Zimmermann
Brian Laffin
Moritz Widmaier
Lorenz Rognoni
Ruben Cardenes
Katrin Schneider
Anmarie Boutrin
Philip Martin
Jiping Zha
Tobias Wiestler

March 2018

Abstract Background Immuno-oncology and cancer immunotherapies are areas of intense research. The nu...

Additional file 2: of PI3KÎą/Î´ inhibition promotes anti-tumor immunity through direct enhancement of effector CD8+ T-cell activity

Larissa Carnevalli (179142)
Charles Sinclair (6158843)
Molly Taylor (6158846)
Pablo Gutierrez (6158849)
Sophie Langdon (6158852)
Anna Coenen-Stass (1571842)
Lorraine Mooney (372137)
Adina Hughes (6158855)
Laura Jarvis (6158858)
Anna Staniszewska (5892953)
Claire Crafter (1981513)
Ben Sidders (35030)
Elizabeth Hardaker (6158861)
Kevin Hudson (1629772)
Simon Barry (255454)

December 2018

Table S1. Immuno-phenotyping antibodies used for tumor flow cytometry. (DOCX 13 kb

Additional file 1: of Classification of gallbladder cancer by assessment of CD8+ TIL and PD-L1 expression

Jianzhen Lin (5568209)
Junyu Long (5568212)
Xueshuai Wan (5568215)
Jingci Chen (5568218)
Yi Bai (450166)
Anqiang Wang (5568221)
Xiaobo Yang (123393)
Yan Wu (70890)
Simon Robson (3191962)
Xinting Sang (4494844)
Haitao Zhao (14023)

July 2018

Figure S1. Representative staining patterns of FFPE GBC lesions with CD133-specific mono antibody. C...

Additional file 1: of The prognostic and predictive value of tumor-infiltrating lymphocytes and hematologic parameters in patients with breast cancer

Kwan Lee (2398369)
Eun Kim (365138)
Ji Yun (5808842)
Yong Park (583109)
Sung-Im Do (5683667)
Seoung Chae (5808845)
Chan Park (114760)

October 2018

Figure S1. KaplanâMeier survival analysis of baseline hematologic parameters (NLR, PLR), TILs CD8+...

Additional file 1: of Measuring multiple parameters of CD8+ tumor-infiltrating lymphocytes in human cancers by image analysis

Keith Steele (4917040)
Tze Tan (4917055)
RenĂŠ Korn (4917088)
Karma Dacosta (4917043)
Charles Brown (40427)
Michael Kuziora (4917031)
Johannes Zimmermann (1743364)
Brian Laffin (4917037)
Moritz Widmaier (269049)
Lorenz Rognoni (4917049)
Ruben Cardenes (4917052)
Katrin Schneider (3039294)
Anmarie Boutrin (94563)
Philip Martin (377351)
Jiping Zha (4917034)
Tobias Wiestler (4917058)

March 2018

Table S1 Relevant image information for nonclinical sample sets. Table S2 Nonclinical tumor samples,...

Additional file 3: of Measuring multiple parameters of CD8+ tumor-infiltrating lymphocytes in human cancers by image analysis

Keith Steele (4917040)
Tze Tan (4917055)
RenĂŠ Korn (4917088)
Karma Dacosta (4917043)
Charles Brown (40427)
Michael Kuziora (4917031)
Johannes Zimmermann (1743364)
Brian Laffin (4917037)
Moritz Widmaier (269049)
Lorenz Rognoni (4917049)
Ruben Cardenes (4917052)
Katrin Schneider (3039294)
Anmarie Boutrin (94563)
Philip Martin (377351)
Jiping Zha (4917034)
Tobias Wiestler (4917058)

March 2018

Figure S1 IA classification of CD8+ lymphocytes. Figure S2 IA classification of elongate CD8+ lympho...

Additional file 1: of PD-L1 expression and tumor mutational burden status for prediction of response to chemotherapy and targeted therapy in non-small cell lung cancer

Yanhui Chen (218375)
Quanxing Liu (6701078)
Zhiming Chen (1313025)
Yating Wang (1303185)
Wanning Yang (4719969)
Ying Hu (14950)
Wenbo Han (1412239)
Hui Zeng (142702)
Haitao Ma (529446)
Jigang Dai (6701081)
Henghui Zhang (159258)

May 2019

Figure S1. Comparison of CD8 levels in PD-L1 negative and positive groups. A & B: Comparison of CD8 ...

Additional file 2: of VISTA expression associated with CD8 confers a favorable immune microenvironment and better overall survival in hepatocellular carcinoma

Ming Zhang (9736)
Hua-Jin Pang (5167337)
Wei Zhao (14321)
Yu-Fa Li (5167340)
Li-Xu Yan (223343)
Zhong-Yi Dong (5167343)
Xiao-Feng He (456180)

May 2018

Figure S1. Immunohistochemically staining of PD-L1 proteins in patients with hepatocellular carcinom...

Additional file 1: of Automated image analysis of NSCLC biopsies to predict response to anti-PD-L1 therapy

Sonja Althammer (6670364)
Tze Tan (4917055)
Andreas SpitzmĂźller (6670400)
Lorenz Rognoni (4917049)
Tobias Wiestler (4917058)
Thomas Herz (6670379)
Moritz Widmaier (269049)
Marlon Rebelatto (694644)
Helene Kaplon (6670388)
Diane Damotte (228307)
Marco Alifano (375316)
Scott Hammond (2217478)
Marie-Caroline Dieu-Nosjean (228322)
Koustubh Ranade (6670394)
Guenter Schmidt (6670397)
Brandon Higgs (3517301)
Keith Steele (4917040)

May 2019

Figure S1 Digital image analysis segments CD8+ and PD-L1+ cells in dual-labelled sections of NSCLC. ...

Additional file 1: of Immune characterization of breast cancer metastases: prognostic implications

Maria Dieci (5437085)
Vassilena Tsvetkova (5437097)
Enrico Orvieto (5437064)
Federico Piacentini (5437088)
Guido Ficarra (2339788)
Gaia Griguolo (5042417)
Federica Miglietta (5437067)
Tommaso Giarratano (5437076)
Claudia Omarini (5437070)
Serena Bonaguro (5437094)
Rocco Cappellesso (384017)
Camillo Aliberti (703434)
Grazia Vernaci (5437073)
Carlo Giorgi (5437079)
Giovanni Faggioni (42109)
Giulia Tasca (5437091)
Pierfranco Conte (5437082)
Valentina Guarneri (3562331)

June 2018

Table S1. CD8 levels distribution according to tumor subtype and clinicopathological features. (DOCX...

Lisa König (3580973)
Fabian Mairinger (6279713)
Oliver Hoffmann (3580964)
Ann-Kathrin Bittner (3580961)
Kurt Schmid (3491198)
Rainer Kimmig (58539)
Sabine Kasimir-Bauer (3580967)
Agnes Bankfalvi (284668)

February 2019

Figure S1. Representative immunohistochemistry (IHC) staining images for CD8, CD4, CD20 and CD68. Im...

Additional file 2: of Magnetic resonance imaging and molecular features associated with tumor-infiltrating lymphocytes in breast cancer

Jia Wu (169990)
Xuejie Li (505682)
Xiaodong Teng (4018334)
Daniel Rubin (50328)
Sandy Napel (5711903)
Bruce Daniel (5711906)
Ruijiang Li (830188)

September 2018

Table S1. Clinical and pathological characteristics for eligible patients in the I-SPY cohort. Table...

Additional file 1: Figure S1. of Multispectral imaging of formalin-fixed tissue predicts ability to generate tumor-infiltrating lymphocytes from melanoma

Zipei Feng (3414845)
Sachin Puri (3414857)
Tarsem Moudgil (3414842)
William Wood (42174)
Clifford Hoyt (3414854)
Chichung Wang (3414836)
Walter Urba (3414848)
Brendan Curti (3414839)
Carlo Bifulco (3414851)
Bernard Fox (2826419)

October 2015

Schematic representation of process for TIL initiation, expansion and testing. Figure S2. Lymphocyti...

Additional file 3: of Evaluation of anti-PD-1-based therapy against triple-negative breast cancer patient-derived xenograft tumors engrafted in humanized mouse models

Roberto Rosato (5722406)
Daniel Dávila-González (5722409)
Dong Choi (3578132)
Wei Qian (56612)
Wen Chen (30046)
Anthony Kozielski (5722412)
Helen Wong (241565)
Bhuvanesh Dave (147341)
Jenny Chang (3489839)

September 2018

IHC analysis of human CD4-, CD3-, CD8-, CD20-, CD68-, CD4-, and CD8-positive cells present in BCM-21...

Additional file 3: of VISTA expression associated with CD8 confers a favorable immune microenvironment and better overall survival in hepatocellular carcinoma

Ming Zhang (9736)
Hua-Jin Pang (5167337)
Wei Zhao (14321)
Yu-Fa Li (5167340)
Li-Xu Yan (223343)
Zhong-Yi Dong (5167343)
Xiao-Feng He (456180)

May 2018

Figure S2. Immunohistochemically staining of CD8 proteins in patients with hepatocellular carcinoma....

Measuring multiple parameters of CD8+ tumor-infiltrating lymphocytes in human cancers by image analysis

Keith E. Steele
Tze Heng Tan
René Korn
Karma Dacosta
Charles Brown
Michael Kuziora
Johannes Zimmermann
Brian Laffin
Moritz Widmaier
Lorenz Rognoni
Ruben Cardenes
Katrin Schneider
Anmarie Boutrin
Philip Martin
Jiping Zha
Tobias Wiestler

March 2018

Abstract Background Immuno-oncology and cancer immunotherapies are areas of intense research. The nu...

Additional file 2: of PI3KÎą/Î´ inhibition promotes anti-tumor immunity through direct enhancement of effector CD8+ T-cell activity

Larissa Carnevalli (179142)
Charles Sinclair (6158843)
Molly Taylor (6158846)
Pablo Gutierrez (6158849)
Sophie Langdon (6158852)
Anna Coenen-Stass (1571842)
Lorraine Mooney (372137)
Adina Hughes (6158855)
Laura Jarvis (6158858)
Anna Staniszewska (5892953)
Claire Crafter (1981513)
Ben Sidders (35030)
Elizabeth Hardaker (6158861)
Kevin Hudson (1629772)
Simon Barry (255454)

December 2018

Table S1. Immuno-phenotyping antibodies used for tumor flow cytometry. (DOCX 13 kb

Additional file 1: of Classification of gallbladder cancer by assessment of CD8+ TIL and PD-L1 expression

Jianzhen Lin (5568209)
Junyu Long (5568212)
Xueshuai Wan (5568215)
Jingci Chen (5568218)
Yi Bai (450166)
Anqiang Wang (5568221)
Xiaobo Yang (123393)
Yan Wu (70890)
Simon Robson (3191962)
Xinting Sang (4494844)
Haitao Zhao (14023)

July 2018

Figure S1. Representative staining patterns of FFPE GBC lesions with CD133-specific mono antibody. C...

Additional file 1: of The prognostic and predictive value of tumor-infiltrating lymphocytes and hematologic parameters in patients with breast cancer

Kwan Lee (2398369)
Eun Kim (365138)
Ji Yun (5808842)
Yong Park (583109)
Sung-Im Do (5683667)
Seoung Chae (5808845)
Chan Park (114760)

October 2018

Figure S1. KaplanâMeier survival analysis of baseline hematologic parameters (NLR, PLR), TILs CD8+...

Additional file 2: of Measuring multiple parameters of CD8+ tumor-infiltrating lymphocytes in human cancers by image analysis

Abstract

Extracted data

Additional file 2: of Measuring multiple parameters of CD8+ tumor-infiltrating lymphocytes in human cancers by image analysis

Abstract

Extracted data

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