Additional file 4: of Integrated omics-based pathway analyses uncover CYP epoxygenase-associated networks as theranostic targets for metastatic triple negative breast cancer

Additional file 8: of Transcriptional factor six2 promotes the competitive endogenous RNA network between CYP4Z1 and pseudogene CYP4Z2P responsible for maintaining the stemness of breast cancer cells

Lufeng Zheng (4668964)
Qianqian Guo (339283)
Chenxi Xiang (4668967)
Shijia Liu (5370089)
Yuzhang Jiang (6424109)
Lanlan Gao (5219339)
Haiwei Ni (5219336)
Ting Wang (16292)
Qiong Zhao (256201)
Hai Liu (1362186)
Yingying Xing (754619)
Yaohui Wang (784185)
Xiaoman Li (181664)
Tao Xi (141120)

March 2019

Figure S2. CeRNET_CC promotes the stemness of MDA-MB-231 cells in vitro. (A and B) The infection eff...

Additional file 6: of Molecular characterization of breast cancer cell lines through multiple omic approaches

Shari Smith (3508343)
Paul Mellor (499155)
Alison Ward (518675)
Stephanie Kendall (3508355)
Megan McDonald (4069948)
Frederick Vizeacoumar (483154)
Franco Vizeacoumar (3508349)
Scott Napper (219101)
Deborah Anderson (3508340)

June 2017

Table S4. Pathscan analysis of receptors and pathways intrinsically activated in a panel of breast c...

Additional file 1: Table S1. of A transcriptome-based protein network that identifies new therapeutic targets in colorectal cancer

Stéphanie Durand (149800)
Killian Trillet (4480687)
Arnaud Uguen (587564)
Aude Saint-Pierre (4480696)
Catherine Le Jossic-Corcos (4480693)
Laurent Corcos (176717)

September 2017

List of genes from the five different RT² Profiler™ PCR Array Human Systems used in this study, clas...

Additional file 2: of Integrated omics-based pathway analyses uncover CYP epoxygenase-associated networks as theranostic targets for metastatic triple negative breast cancer

Maria Apaya (5820440)
Jeng-Yuan Shiau (2327821)
Guo-Shiou Liao (839303)
Yu-Jen Liang (29024)
Chia-Wei Chen (395946)
Hsin-Chou Yang (19577)
Chi-Hong Chu (80551)
Jyh-Cherng Yu (146771)
Lie-Fen Shyur (471003)

May 2019

Supporting information for delineation of CYP epoxygenase-associated networks as theranostic targets...

Additional file 3: of Integrated omics-based pathway analyses uncover CYP epoxygenase-associated networks as theranostic targets for metastatic triple negative breast cancer

Maria Apaya (5820440)
Jeng-Yuan Shiau (2327821)
Guo-Shiou Liao (839303)
Yu-Jen Liang (29024)
Chia-Wei Chen (395946)
Hsin-Chou Yang (19577)
Chi-Hong Chu (80551)
Jyh-Cherng Yu (146771)
Lie-Fen Shyur (471003)

May 2019

Gene enrichment associations for the tumor specimens in the discovery set with mRNA expression z sco...

Additional file 1: of Integrated omics-based pathway analyses uncover CYP epoxygenase-associated networks as theranostic targets for metastatic triple negative breast cancer

Maria Apaya (5820440)
Jeng-Yuan Shiau (2327821)
Guo-Shiou Liao (839303)
Yu-Jen Liang (29024)
Chia-Wei Chen (395946)
Hsin-Chou Yang (19577)
Chi-Hong Chu (80551)
Jyh-Cherng Yu (146771)
Lie-Fen Shyur (471003)

May 2019

Table S1. Publicly available resources utilized to download and process relevant data for multi-omic...

Additional file 5: of Integrated omics-based pathway analyses uncover CYP epoxygenase-associated networks as theranostic targets for metastatic triple negative breast cancer

Maria Apaya (5820440)
Jeng-Yuan Shiau (2327821)
Guo-Shiou Liao (839303)
Yu-Jen Liang (29024)
Chia-Wei Chen (395946)
Hsin-Chou Yang (19577)
Chi-Hong Chu (80551)
Jyh-Cherng Yu (146771)
Lie-Fen Shyur (471003)

May 2019

Quantitative proteomic data of eight paired TNBC tumors and adjacent normal tissues using iTRAQ. (XL...

Additional file 4: of Targeted next-generation sequencing identifies clinically relevant somatic mutations in a large cohort of inflammatory breast cancer

Xu Liang (433535)
Sophie Vacher (233965)
Anais Boulai (5612039)
Virginie Bernard (2226220)
Sylvain Baulande (5113562)
Mylene Bohec (5612042)
Ivan Bièche (3492)
Florence Lerebours (303656)
Céline Callens (424227)

August 2018

Figure S2. Comparison of biological pathway between IBC and non-IBC in four subgroups. (a) The perce...

Additional file 1: of Chromoanasynthesis is a common mechanism that leads to ERBB2 amplifications in a cohort of early stage HER2+ breast cancer samples

George Vasmatzis (69257)
Xue Wang (102830)
James Smadbeck (529262)
Stephen Murphy (2853776)
Katherine Geiersbach (5514989)
Sarah Johnson (248721)
Athanasios Gaitatzes (5514986)
Yan Asmann (217921)
Farhad Kosari (69256)
Mitesh Borad (5514992)
Daniel Serie (746689)
Sarah McLaughlin (582072)
Jennifer Kachergus (3664783)
Brian Necela (3664780)
E. Thompson (3570971)

July 2018

Figure S1-S17. Genome U plots of all the additional cases. Figure S18 Heat map of the EGFR and ERBB3...

Additional file 4: of Classification of triple-negative breast cancers based on Immunogenomic profiling

Yin He (120155)
Zehang Jiang (6164414)
Cai Chen (181184)
Xiaosheng Wang (553236)

December 2018

Figure S3. Identification of TNBC subtype-specific pathways and gene ontology. A. KEGG pathways enri...

Additional file 1: of The PDGFRβ/ERK1/2 pathway regulates CDCP1 expression in triple-negative breast cancer

Luca Forte (5269745)
Federica Turdo (5269748)
Cristina Ghirelli (3209526)
Piera Aiello (5269757)
Patrizia Casalini (282859)
Marilena Iorio (5269763)
Elvira D’Ippolito (5269754)
Patrizia Gasparini (4169077)
Roberto Agresti (5269751)
Beatrice Belmonte (5269742)
Gabriella Sozzi (371979)
Lucia Sfondrini (3224457)
Elda Tagliabue (222687)
Manuela Campiglio (5269760)
Francesca Bianchi (316618)

May 2018

Figure S1. Gating strategy for CDCP1 flow cytometric analysis. Flow cytometric analysis of MDA-MB-23...

Additional file 6 of An integrated meta-analysis approach to identifying medications with potential to alter breast cancer risk through connectivity mapping

Gayathri Thillaiyampalam (4711104)
Fabio Liberante (4711101)
Liam Murray (584595)
Chris Cardwell (4676743)
Ken Mills (204775)
Shu-Dong Zhang (231229)

December 2017

Tumor vs Normal 415-gene signature KEGG pathways. Full results of the KEGG human pathway enrichment ...

Additional file 7 of An integrated meta-analysis approach to identifying medications with potential to alter breast cancer risk through connectivity mapping

Gayathri Thillaiyampalam (4711104)
Fabio Liberante (4711101)
Liam Murray (584595)
Chris Cardwell (4676743)
Ken Mills (204775)
Shu-Dong Zhang (231229)

December 2017

Tumor vs Adjacent 164-gene signature KEGG pathways. Full results of the KEGG human pathway enrichmen...

Additional file 6: of The molecular landscape of premenopausal breast cancer

Serena Liao (3582692)
Ryan Hartmaier (109111)
Kandace McGuire (3582695)
Shannon Puhalla (3582689)
Soumya Luthra (732484)
Uma Chandran (732485)
Tianzhou Ma (3582698)
Rohit Bhargava (562035)
Francesmary Modugno (757958)
Nancy Davidson (3512738)
Steve Benz (3582686)
Adrian Lee (3161067)
George Tseng (150934)
Steffi Oesterreich (109122)

August 2015

The Cancer Genome Atlas (TCGA) Ingenuity pathway analysis (IPA) upstream regulators. Table S1., Tabl...

Additional file 4: of Investigation of lipid metabolism dysregulation and the effects on immune microenvironments in pan-cancer using multiple omics data

Yang Hao (155400)
Daixi Li (5830415)
Yong Xu (17491)
Jian Ouyang (179347)
Yongkun Wang (608397)
Yuqi Zhang (286958)
Baoguo Li (143191)
Lu Xie (55571)
Guangrong Qin (594367)

May 2019

The correlation of transcripition factor and target pairs in key lipidÂ metabolism pathways. (XLSX 5...

Additional file 8: of Transcriptional factor six2 promotes the competitive endogenous RNA network between CYP4Z1 and pseudogene CYP4Z2P responsible for maintaining the stemness of breast cancer cells

Lufeng Zheng (4668964)
Qianqian Guo (339283)
Chenxi Xiang (4668967)
Shijia Liu (5370089)
Yuzhang Jiang (6424109)
Lanlan Gao (5219339)
Haiwei Ni (5219336)
Ting Wang (16292)
Qiong Zhao (256201)
Hai Liu (1362186)
Yingying Xing (754619)
Yaohui Wang (784185)
Xiaoman Li (181664)
Tao Xi (141120)

March 2019

Figure S2. CeRNET_CC promotes the stemness of MDA-MB-231 cells in vitro. (A and B) The infection eff...

Additional file 6: of Molecular characterization of breast cancer cell lines through multiple omic approaches

Shari Smith (3508343)
Paul Mellor (499155)
Alison Ward (518675)
Stephanie Kendall (3508355)
Megan McDonald (4069948)
Frederick Vizeacoumar (483154)
Franco Vizeacoumar (3508349)
Scott Napper (219101)
Deborah Anderson (3508340)

June 2017

Table S4. Pathscan analysis of receptors and pathways intrinsically activated in a panel of breast c...

Additional file 1: Table S1. of A transcriptome-based protein network that identifies new therapeutic targets in colorectal cancer

Stéphanie Durand (149800)
Killian Trillet (4480687)
Arnaud Uguen (587564)
Aude Saint-Pierre (4480696)
Catherine Le Jossic-Corcos (4480693)
Laurent Corcos (176717)

September 2017

List of genes from the five different RT² Profiler™ PCR Array Human Systems used in this study, clas...

Additional file 2: of Integrated omics-based pathway analyses uncover CYP epoxygenase-associated networks as theranostic targets for metastatic triple negative breast cancer

Maria Apaya (5820440)
Jeng-Yuan Shiau (2327821)
Guo-Shiou Liao (839303)
Yu-Jen Liang (29024)
Chia-Wei Chen (395946)
Hsin-Chou Yang (19577)
Chi-Hong Chu (80551)
Jyh-Cherng Yu (146771)
Lie-Fen Shyur (471003)

May 2019

Supporting information for delineation of CYP epoxygenase-associated networks as theranostic targets...

Additional file 3: of Integrated omics-based pathway analyses uncover CYP epoxygenase-associated networks as theranostic targets for metastatic triple negative breast cancer

Maria Apaya (5820440)
Jeng-Yuan Shiau (2327821)
Guo-Shiou Liao (839303)
Yu-Jen Liang (29024)
Chia-Wei Chen (395946)
Hsin-Chou Yang (19577)
Chi-Hong Chu (80551)
Jyh-Cherng Yu (146771)
Lie-Fen Shyur (471003)

May 2019

Gene enrichment associations for the tumor specimens in the discovery set with mRNA expression z sco...

Additional file 1: of Integrated omics-based pathway analyses uncover CYP epoxygenase-associated networks as theranostic targets for metastatic triple negative breast cancer

Maria Apaya (5820440)
Jeng-Yuan Shiau (2327821)
Guo-Shiou Liao (839303)
Yu-Jen Liang (29024)
Chia-Wei Chen (395946)
Hsin-Chou Yang (19577)
Chi-Hong Chu (80551)
Jyh-Cherng Yu (146771)
Lie-Fen Shyur (471003)

May 2019

Table S1. Publicly available resources utilized to download and process relevant data for multi-omic...

Additional file 5: of Integrated omics-based pathway analyses uncover CYP epoxygenase-associated networks as theranostic targets for metastatic triple negative breast cancer

Maria Apaya (5820440)
Jeng-Yuan Shiau (2327821)
Guo-Shiou Liao (839303)
Yu-Jen Liang (29024)
Chia-Wei Chen (395946)
Hsin-Chou Yang (19577)
Chi-Hong Chu (80551)
Jyh-Cherng Yu (146771)
Lie-Fen Shyur (471003)

May 2019

Quantitative proteomic data of eight paired TNBC tumors and adjacent normal tissues using iTRAQ. (XL...

Additional file 4: of Targeted next-generation sequencing identifies clinically relevant somatic mutations in a large cohort of inflammatory breast cancer

Xu Liang (433535)
Sophie Vacher (233965)
Anais Boulai (5612039)
Virginie Bernard (2226220)
Sylvain Baulande (5113562)
Mylene Bohec (5612042)
Ivan Bièche (3492)
Florence Lerebours (303656)
Céline Callens (424227)

August 2018

Figure S2. Comparison of biological pathway between IBC and non-IBC in four subgroups. (a) The perce...

Additional file 1: of Chromoanasynthesis is a common mechanism that leads to ERBB2 amplifications in a cohort of early stage HER2+ breast cancer samples

George Vasmatzis (69257)
Xue Wang (102830)
James Smadbeck (529262)
Stephen Murphy (2853776)
Katherine Geiersbach (5514989)
Sarah Johnson (248721)
Athanasios Gaitatzes (5514986)
Yan Asmann (217921)
Farhad Kosari (69256)
Mitesh Borad (5514992)
Daniel Serie (746689)
Sarah McLaughlin (582072)
Jennifer Kachergus (3664783)
Brian Necela (3664780)
E. Thompson (3570971)

July 2018

Figure S1-S17. Genome U plots of all the additional cases. Figure S18 Heat map of the EGFR and ERBB3...

Additional file 4: of Classification of triple-negative breast cancers based on Immunogenomic profiling

Yin He (120155)
Zehang Jiang (6164414)
Cai Chen (181184)
Xiaosheng Wang (553236)

December 2018

Figure S3. Identification of TNBC subtype-specific pathways and gene ontology. A. KEGG pathways enri...

Additional file 1: of The PDGFRβ/ERK1/2 pathway regulates CDCP1 expression in triple-negative breast cancer

Luca Forte (5269745)
Federica Turdo (5269748)
Cristina Ghirelli (3209526)
Piera Aiello (5269757)
Patrizia Casalini (282859)
Marilena Iorio (5269763)
Elvira D’Ippolito (5269754)
Patrizia Gasparini (4169077)
Roberto Agresti (5269751)
Beatrice Belmonte (5269742)
Gabriella Sozzi (371979)
Lucia Sfondrini (3224457)
Elda Tagliabue (222687)
Manuela Campiglio (5269760)
Francesca Bianchi (316618)

May 2018

Figure S1. Gating strategy for CDCP1 flow cytometric analysis. Flow cytometric analysis of MDA-MB-23...

Additional file 6 of An integrated meta-analysis approach to identifying medications with potential to alter breast cancer risk through connectivity mapping

Gayathri Thillaiyampalam (4711104)
Fabio Liberante (4711101)
Liam Murray (584595)
Chris Cardwell (4676743)
Ken Mills (204775)
Shu-Dong Zhang (231229)

December 2017

Tumor vs Normal 415-gene signature KEGG pathways. Full results of the KEGG human pathway enrichment ...

Additional file 7 of An integrated meta-analysis approach to identifying medications with potential to alter breast cancer risk through connectivity mapping

Gayathri Thillaiyampalam (4711104)
Fabio Liberante (4711101)
Liam Murray (584595)
Chris Cardwell (4676743)
Ken Mills (204775)
Shu-Dong Zhang (231229)

December 2017

Tumor vs Adjacent 164-gene signature KEGG pathways. Full results of the KEGG human pathway enrichmen...

Additional file 6: of The molecular landscape of premenopausal breast cancer

Serena Liao (3582692)
Ryan Hartmaier (109111)
Kandace McGuire (3582695)
Shannon Puhalla (3582689)
Soumya Luthra (732484)
Uma Chandran (732485)
Tianzhou Ma (3582698)
Rohit Bhargava (562035)
Francesmary Modugno (757958)
Nancy Davidson (3512738)
Steve Benz (3582686)
Adrian Lee (3161067)
George Tseng (150934)
Steffi Oesterreich (109122)

August 2015

The Cancer Genome Atlas (TCGA) Ingenuity pathway analysis (IPA) upstream regulators. Table S1., Tabl...

Additional file 4: of Investigation of lipid metabolism dysregulation and the effects on immune microenvironments in pan-cancer using multiple omics data

Yang Hao (155400)
Daixi Li (5830415)
Yong Xu (17491)
Jian Ouyang (179347)
Yongkun Wang (608397)
Yuqi Zhang (286958)
Baoguo Li (143191)
Lu Xie (55571)
Guangrong Qin (594367)

May 2019

The correlation of transcripition factor and target pairs in key lipidÂ metabolism pathways. (XLSX 5...

Additional file 8: of Transcriptional factor six2 promotes the competitive endogenous RNA network between CYP4Z1 and pseudogene CYP4Z2P responsible for maintaining the stemness of breast cancer cells

Lufeng Zheng (4668964)
Qianqian Guo (339283)
Chenxi Xiang (4668967)
Shijia Liu (5370089)
Yuzhang Jiang (6424109)
Lanlan Gao (5219339)
Haiwei Ni (5219336)
Ting Wang (16292)
Qiong Zhao (256201)
Hai Liu (1362186)
Yingying Xing (754619)
Yaohui Wang (784185)
Xiaoman Li (181664)
Tao Xi (141120)

March 2019

Figure S2. CeRNET_CC promotes the stemness of MDA-MB-231 cells in vitro. (A and B) The infection eff...

Additional file 6: of Molecular characterization of breast cancer cell lines through multiple omic approaches

Shari Smith (3508343)
Paul Mellor (499155)
Alison Ward (518675)
Stephanie Kendall (3508355)
Megan McDonald (4069948)
Frederick Vizeacoumar (483154)
Franco Vizeacoumar (3508349)
Scott Napper (219101)
Deborah Anderson (3508340)

June 2017

Table S4. Pathscan analysis of receptors and pathways intrinsically activated in a panel of breast c...

Additional file 1: Table S1. of A transcriptome-based protein network that identifies new therapeutic targets in colorectal cancer

Stéphanie Durand (149800)
Killian Trillet (4480687)
Arnaud Uguen (587564)
Aude Saint-Pierre (4480696)
Catherine Le Jossic-Corcos (4480693)
Laurent Corcos (176717)

September 2017

List of genes from the five different RT² Profiler™ PCR Array Human Systems used in this study, clas...

Additional file 4: of Integrated omics-based pathway analyses uncover CYP epoxygenase-associated networks as theranostic targets for metastatic triple negative breast cancer

Abstract

Extracted data

Additional file 4: of Integrated omics-based pathway analyses uncover CYP epoxygenase-associated networks as theranostic targets for metastatic triple negative breast cancer

Abstract

Extracted data

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