bluuebunny/crossref_metadata_2025 huggingface dataset:
Supplementary Methods from Cathepsin B Is Dispensable for Cellular Processing of Cathepsin B-Cleavable Antibody–Drug Conjugates
Authors: Caculitan Niña G. , dela Cruz Chuh Josefa , Ma Yong , Zhang Donglu , Kozak Katherine R. , Liu Yichin , Pillow Thomas H. , Sadowsky Jack , Cheung Tommy K. , Phung Qui , Haley Benjamin , Lee Byoung-Chul , Akita Robert W. , Sliwkowski Mark X. , Polson Andrew G.
Published: March 2023

Supplementary Methods
Figure S6 and S7 from Blocking Myristoylation of Src Inhibits Its Kinase Activity and Suppresses Prostate Cancer Progression
Authors: Kim Sungjin , Alsaidan Omar Awad , Goodwin Octavia , Li Qianjin , Sulejmani Essilvo , Han Zhen , Bai Aiping , Albers Thomas , Beharry Zanna , Zheng Y. George , Norris James S. , Szulc Zdzislaw M. , Bielawska Alicja , Lebedyeva Iryna , Pegan Scott D. , Cai Houjian
Published: March 2023

Figure S6. Expression and purification of NMT1. Figure S7. Kinetic analysis of purified NMT1.
Figure S5 from Blocking Myristoylation of Src Inhibits Its Kinase Activity and Suppresses Prostate Cancer Progression
Authors: Kim Sungjin , Alsaidan Omar Awad , Goodwin Octavia , Li Qianjin , Sulejmani Essilvo , Han Zhen , Bai Aiping , Albers Thomas , Beharry Zanna , Zheng Y. George , Norris James S. , Szulc Zdzislaw M. , Bielawska Alicja , Lebedyeva Iryna , Pegan Scott D. , Cai Houjian
Published: March 2023

Loss of myristoylation in Src kinase inhibits its interaction with androgen receptor (AR) and activation of AR down-stream signaling.
Figure S7 from Cathepsin B Is Dispensable for Cellular Processing of Cathepsin B-Cleavable Antibody–Drug Conjugates
Authors: Caculitan Niña G. , dela Cruz Chuh Josefa , Ma Yong , Zhang Donglu , Kozak Katherine R. , Liu Yichin , Pillow Thomas H. , Sadowsky Jack , Cheung Tommy K. , Phung Qui , Haley Benjamin , Lee Byoung-Chul , Akita Robert W. , Sliwkowski Mark X. , Polson Andrew G.
Published: March 2023

Supplementary Figure 7: Dose-titration curves for BJAB exposed to anti-CD22-VC(S)-PBD and anti-CD22-VC(R)-PBD.
Figure S11 to S13 from Blocking Myristoylation of Src Inhibits Its Kinase Activity and Suppresses Prostate Cancer Progression
Authors: Kim Sungjin , Alsaidan Omar Awad , Goodwin Octavia , Li Qianjin , Sulejmani Essilvo , Han Zhen , Bai Aiping , Albers Thomas , Beharry Zanna , Zheng Y. George , Norris James S. , Szulc Zdzislaw M. , Bielawska Alicja , Lebedyeva Iryna , Pegan Scott D. , Cai Houjian
Published: March 2023

Figure S11. The myristoyl-CoA analog, B13 has limited effect in PNT2 normal prostate cells and 293T cells. Figure S12. The additive effect of B13 with knockdown of Src kinase in regulating proliferation of 22Rv1 and PC-3 cells. Figure S13. Effects of B13 in host mice.
Figure S5 from Cathepsin B Is Dispensable for Cellular Processing of Cathepsin B-Cleavable Antibody–Drug Conjugates
Authors: Caculitan Niña G. , dela Cruz Chuh Josefa , Ma Yong , Zhang Donglu , Kozak Katherine R. , Liu Yichin , Pillow Thomas H. , Sadowsky Jack , Cheung Tommy K. , Phung Qui , Haley Benjamin , Lee Byoung-Chul , Akita Robert W. , Sliwkowski Mark X. , Polson Andrew G.
Published: March 2023

Supplementary Figure 5: Control spectrum obtained via quantitative LC-MS for the anti-HER2-VC(S)-MMAE ADC after 3 hours with in buffer with no proteolytic solution.
Supplemental Figures and Figure Legends from Age-Dependent Cellular and Behavioral Deficits Induced by Molecularly Targeted Drugs Are Reversible
Authors: Scafidi Joseph , Ritter Jonathan , Talbot Brooke M. , Edwards Jorge , Chew Li-Jin , Gallo Vittorio
Published: March 2023

This file contains the supplemental data figures and figure legends that support the main findings in this manuscript. Supplemental file folder contains developmental expression analysis of molecular targets in the white matter and hippocampus, representative confocal images, cell quantification, biochemical and behavioral analyses. These data support drug-induced, cell-specific changes in the younger developmental age compared to adult treatment.
Supplementary Table S11 from Multiscale Modeling of Inflammation-Induced Tumorigenesis Reveals Competing Oncogenic and Oncoprotective Roles for Inflammation
Authors: Guo Yucheng , Nie Qing , MacLean Adam L. , Li Yanda , Lei Jinzhi , Li Shao
Published: March 2023

Mutation rate of the 6 biological processes.
Supplemental figures from Tumorigenic and Antiproliferative Properties of the TALE-Transcription Factors MEIS2D and MEIS2A in Neuroblastoma
Authors: Groß Anja , Schulz Catrine , Kolb Jasmine , Koster Jan , Wehner Sibylle , Czaplinski Sebastian , Khilan Abdulghani , Rohrer Hermann , Harter Patrick N. , Klingebiel Thomas , Langer Julian D. , Geerts Dirk , Schulte Dorothea
Published: March 2023

This file contains additional data related to the results shown in figures 1-5 of the main manuscript.
Supplemental Figures from Enhanced Lymphodepletion Is Insufficient to Replace Exogenous IL2 or IL15 Therapy in Augmenting the Efficacy of Adoptively Transferred Effector CD8+ T Cells
Authors: Johnson C. Bryce , May Bennett R. , Riesenberg Brian P. , Suriano Samantha , Mehrotra Shikhar , Garrett-Mayer Elizabeth , Salem Mohamed L. , Jeng Emily K. , Wong Hing C. , Paulos Chrystal M. , Wrangle John M. , Cole David J. , Rubinstein Mark P.
Published: March 2023

This file contains the following figures: Supplemental Figure 1. The return of host lymphocytes is affected by the type of donor CD8+ T cells. Supplemental Figure 2. Return of myeloid cells after CTX leads to more rapid host cell reconstitution than TBI-containing regimens. Supplemental Figure 3. CTX and TBI differentially affect host T cells and NK cells. Supplemental Figure 4. Donor CD8+ T cells transferred into a TBI-conditioned host maintain functional efficacy. Supplemental Figure 5. ALT-803 (IL-15/IL-15Ra complexes) augment the persistence of Tc1 cells in irradiated hosts.
Video2.FN.TNC from Tenascin-C Promotes Tumor Cell Migration and Metastasis through Integrin α9β1–Mediated YAP Inhibition
Authors: Sun Zhen , Schwenzer Anja , Rupp Tristan , Murdamoothoo Devadarssen , Vegliante Rolando , Lefebvre Olivier , Klein Annick , Hussenet Thomas , Orend Gertraud
Published: March 2023

KRIB cell migration on FN/TNC
Supplementary Figures and Legends from Targeting CDK6 and BCL2 Exploits the “MYB Addiction” of Ph+ Acute Lymphoblastic Leukemia
Authors: De Dominici Marco , Porazzi Patrizia , Soliera Angela Rachele , Mariani Samanta A. , Addya Sankar , Fortina Paolo , Peterson Luke F. , Spinelli Orietta , Rambaldi Alessandro , Martinelli Giovanni , Ferrari Anna , Iacobucci Ilaria , Calabretta Bruno
Published: March 2023

S1. MYB silencing reduces viability and proliferation of Ph+ ALL cell lines; S2. Expression of shMYB-resistant MYB cDNA rescues the effects of MYB silencing; S3. MYB silencing suppresses leukemia in NSG mice injected with BV173 or SUP-B15 cells; S4. MYB silencing alters the expression of cell cycle regulatory genes in SUP-B15 cells; S5. Restoring CDK4 nuclear localization rescues the impaired proliferation of MYB-silenced BV173 cells; S6. CDK6, Cyclin D3 and BCL2 but not p21 cooperate to rescue the cell growth of MYB silenced BV173 cells; S7. MYB regulation of CDK6 but not of BCL2 is dependent on p300/CBP recruitment; S8. Palbociclib reduces Ph+ ALL proliferation in vitro and leukemia formation in vivo; S9. Venetoclax or Sabutoclax in combination with the CDK4/6 inhibitor palbociclib synergistically reduce the viability of Ph+ ALL cells.
Video1.FN from Tenascin-C Promotes Tumor Cell Migration and Metastasis through Integrin α9β1–Mediated YAP Inhibition
Authors: Sun Zhen , Schwenzer Anja , Rupp Tristan , Murdamoothoo Devadarssen , Vegliante Rolando , Lefebvre Olivier , Klein Annick , Hussenet Thomas , Orend Gertraud
Published: March 2023

KRIB cell migration on FN
Supplementary data from Tenascin-C Promotes Tumor Cell Migration and Metastasis through Integrin α9β1–Mediated YAP Inhibition
Authors: Sun Zhen , Schwenzer Anja , Rupp Tristan , Murdamoothoo Devadarssen , Vegliante Rolando , Lefebvre Olivier , Klein Annick , Hussenet Thomas , Orend Gertraud
Published: March 2023

Supplementary data
Supplementary Table S4 from Single-Cell RNA-seq Reveals a Subpopulation of Prostate Cancer Cells with Enhanced Cell-Cycle–Related Transcription and Attenuated Androgen Response
Authors: Horning Aaron M. , Wang Yao , Lin Che-Kuang , Louie Anna D. , Jadhav Rohit R. , Hung Chia-Nung , Wang Chiou-Miin , Lin Chun-Lin , Kirma Nameer B. , Liss Michael A. , Kumar Addanki P. , Sun LuZhe , Liu Zhijie , Chao Wei-Ting , Wang Qianben , Jin Victor X. , Chen Chun-Liang , Huang Tim H.-M.
Published: March 2023

Supplementary Table S4: List of genes most highly associated with each subcluster
Supplementary Table S3 from Single-Cell RNA-seq Reveals a Subpopulation of Prostate Cancer Cells with Enhanced Cell-Cycle–Related Transcription and Attenuated Androgen Response
Authors: Horning Aaron M. , Wang Yao , Lin Che-Kuang , Louie Anna D. , Jadhav Rohit R. , Hung Chia-Nung , Wang Chiou-Miin , Lin Chun-Lin , Kirma Nameer B. , Liss Michael A. , Kumar Addanki P. , Sun LuZhe , Liu Zhijie , Chao Wei-Ting , Wang Qianben , Jin Victor X. , Chen Chun-Liang , Huang Tim H.-M.
Published: March 2023

Supplementary Table S3: P values for significant differences between 0, 6, 12, 24, 36, and 72 hour R1881-treated LNCaP cells
Supplementary Fig. S1 from Targeting the SphK1/S1P/S1PR1 Axis That Links Obesity, Chronic Inflammation, and Breast Cancer Metastasis
Authors: Nagahashi Masayuki , Yamada Akimitsu , Katsuta Eriko , Aoyagi Tomoyoshi , Huang Wei-Ching , Terracina Krista P. , Hait Nitai C. , Allegood Jeremy C. , Tsuchida Junko , Yuza Kizuki , Nakajima Masato , Abe Manabu , Sakimura Kenji , Milstien Sheldon , Wakai Toshifumi , Spiegel Sarah , Takabe Kazuaki
Published: March 2023

Sphingosine-1-phosphate (S1P) levels in cells and media. S1P levels were measured in cells and media from breast cancer cells with SphK1-overexpression and vehicle (Veh).
Supplementary Table S2 from Single-Cell RNA-seq Reveals a Subpopulation of Prostate Cancer Cells with Enhanced Cell-Cycle–Related Transcription and Attenuated Androgen Response
Authors: Horning Aaron M. , Wang Yao , Lin Che-Kuang , Louie Anna D. , Jadhav Rohit R. , Hung Chia-Nung , Wang Chiou-Miin , Lin Chun-Lin , Kirma Nameer B. , Liss Michael A. , Kumar Addanki P. , Sun LuZhe , Liu Zhijie , Chao Wei-Ting , Wang Qianben , Jin Victor X. , Chen Chun-Liang , Huang Tim H.-M.
Published: March 2023

Supplementary Table S2: qPCR primer for subcluster E genes
Caption for Suppl Fig. S1 from Targeting the SphK1/S1P/S1PR1 Axis That Links Obesity, Chronic Inflammation, and Breast Cancer Metastasis
Authors: Nagahashi Masayuki , Yamada Akimitsu , Katsuta Eriko , Aoyagi Tomoyoshi , Huang Wei-Ching , Terracina Krista P. , Hait Nitai C. , Allegood Jeremy C. , Tsuchida Junko , Yuza Kizuki , Nakajima Masato , Abe Manabu , Sakimura Kenji , Milstien Sheldon , Wakai Toshifumi , Spiegel Sarah , Takabe Kazuaki
Published: March 2023

Caption for Suppl Fig. S1
Figure S4 from Mitotic Phosphorylation of SENP3 Regulates DeSUMOylation of Chromosome-Associated Proteins and Chromosome Stability
Authors: Wei Bo , Huang Chao , Liu Bin , Wang Yang , Xia Nansong , Fan Qiuju , Chen Guo-Qiang , Cheng Jinke
Published: March 2023

Abnormal chromosome segregation and cell proliferation in SENP3 9A cells
Figure S3 from Mitotic Phosphorylation of SENP3 Regulates DeSUMOylation of Chromosome-Associated Proteins and Chromosome Stability
Authors: Wei Bo , Huang Chao , Liu Bin , Wang Yang , Xia Nansong , Fan Qiuju , Chen Guo-Qiang , Cheng Jinke
Published: March 2023

Phosphorylation of SENP3 inhibited its de-SUMOylation activity in vitro
Supplementary table 3 from ConsensusDriver Improves upon Individual Algorithms for Predicting Driver Alterations in Different Cancer Types and Individual Patients
Authors: Bertrand Denis , Drissler Sibyl , Chia Burton K. , Koh Jia Yu , Li Chenhao , Suphavilai Chayaporn , Tan Iain Beehuat , Nagarajan Niranjan
Published: March 2023

List of PIK3CA oncogenic mutations
Supplementary table 2 from ConsensusDriver Improves upon Individual Algorithms for Predicting Driver Alterations in Different Cancer Types and Individual Patients
Authors: Bertrand Denis , Drissler Sibyl , Chia Burton K. , Koh Jia Yu , Li Chenhao , Suphavilai Chayaporn , Tan Iain Beehuat , Nagarajan Niranjan
Published: March 2023

List of actionable genes
Supplementary table 1 from ConsensusDriver Improves upon Individual Algorithms for Predicting Driver Alterations in Different Cancer Types and Individual Patients
Authors: Bertrand Denis , Drissler Sibyl , Chia Burton K. , Koh Jia Yu , Li Chenhao , Suphavilai Chayaporn , Tan Iain Beehuat , Nagarajan Niranjan
Published: March 2023

List of cancer diver genes and passenger genes
Supplementary Data from IκB Kinase α Is Required for Development and Progression of KRAS-Mutant Lung Adenocarcinoma
Authors: Vreka Malamati , Lilis Ioannis , Papageorgopoulou Maria , Giotopoulou Georgia A. , Lianou Marina , Giopanou Ioanna , Kanellakis Nikolaos I. , Spella Magda , Agalioti Theodora , Armenis Vasileios , Goldmann Torsten , Marwitz Sebastian , Yull Fiona E. , Blackwell Timothy S. , Pasparakis Manolis , Marazioti Antonia , Stathopoulos Georgios T.
Published: March 2023

Supplementary file containing Supplementary Methods (pertaining to reagents, imaging, immunoblotting, cellular studies, microarray data, NF-κB ELISA, PCR, cell culture, histology, cytology, flow cytometry, constructs, and cellular Assays), 4 Supplementary Tables (pertaining to number of experimental mice, PCR primers, antibodies, and lentiviral shRNA pools), and 7 Supplementary Figures (described in the main and Supplementary text).
Table S5 from Circulating Tumor Cells Undergoing EMT Provide a Metric for Diagnosis and Prognosis of Patients with Hepatocellular Carcinoma
Authors: Qi Lu-Nan , Xiang Bang-De , Wu Fei-Xiang , Ye Jia-Zhou , Zhong Jian-Hong , Wang Yan-Yan , Chen Yuan-Yuan , Chen Zu-Shun , Ma Liang , Chen Jie , Gong Wen-Feng , Han Ze-Guang , Lu Yan , Shang Jin-Jie , Li Le-Qun
Published: March 2023

Biological process categories of the 67 differentially expressed cancer-related genes
Supplementary Table 6 from Energy Balance Modulation Impacts Epigenetic Reprogramming, ERα and ERβ Expression, and Mammary Tumor Development in MMTV-neu Transgenic Mice
Authors: Rossi Emily L. , Dunlap Sarah M. , Bowers Laura W. , Khatib Subreen A. , Doerstling Steven S. , Smith Laura A. , Ford Nikki A. , Holley Darcy , Brown Powel H. , Estecio Marcos R. , Kusewitt Donna F. , deGraffenried Linda A. , Bultman Scott J. , Hursting Stephen D.
Published: March 2023

Diet Composition Comparison
Table S4 from Circulating Tumor Cells Undergoing EMT Provide a Metric for Diagnosis and Prognosis of Patients with Hepatocellular Carcinoma
Authors: Qi Lu-Nan , Xiang Bang-De , Wu Fei-Xiang , Ye Jia-Zhou , Zhong Jian-Hong , Wang Yan-Yan , Chen Yuan-Yuan , Chen Zu-Shun , Ma Liang , Chen Jie , Gong Wen-Feng , Han Ze-Guang , Lu Yan , Shang Jin-Jie , Li Le-Qun
Published: March 2023

Recurrence time and recurrence mode for early and later recurrence
Table S2 from Circulating Tumor Cells Undergoing EMT Provide a Metric for Diagnosis and Prognosis of Patients with Hepatocellular Carcinoma
Authors: Qi Lu-Nan , Xiang Bang-De , Wu Fei-Xiang , Ye Jia-Zhou , Zhong Jian-Hong , Wang Yan-Yan , Chen Yuan-Yuan , Chen Zu-Shun , Ma Liang , Chen Jie , Gong Wen-Feng , Han Ze-Guang , Lu Yan , Shang Jin-Jie , Li Le-Qun
Published: March 2023

Primer design for the BCAT1 gene and EMT markers
Supplementary Table 4 from Energy Balance Modulation Impacts Epigenetic Reprogramming, ERα and ERβ Expression, and Mammary Tumor Development in MMTV-neu Transgenic Mice
Authors: Rossi Emily L. , Dunlap Sarah M. , Bowers Laura W. , Khatib Subreen A. , Doerstling Steven S. , Smith Laura A. , Ford Nikki A. , Holley Darcy , Brown Powel H. , Estecio Marcos R. , Kusewitt Donna F. , deGraffenried Linda A. , Bultman Scott J. , Hursting Stephen D.
Published: March 2023

Ensembl Regulatory Build of the ESR2 genomic landscape
Table S1 from Circulating Tumor Cells Undergoing EMT Provide a Metric for Diagnosis and Prognosis of Patients with Hepatocellular Carcinoma
Authors: Qi Lu-Nan , Xiang Bang-De , Wu Fei-Xiang , Ye Jia-Zhou , Zhong Jian-Hong , Wang Yan-Yan , Chen Yuan-Yuan , Chen Zu-Shun , Ma Liang , Chen Jie , Gong Wen-Feng , Han Ze-Guang , Lu Yan , Shang Jin-Jie , Li Le-Qun
Published: March 2023

Capture probe sequences for the EpCAM, CK8/18/19, vimentin, Twist, CD45, and BCAT1 genes.
Supplementary Table 3 from Energy Balance Modulation Impacts Epigenetic Reprogramming, ERα and ERβ Expression, and Mammary Tumor Development in MMTV-neu Transgenic Mice
Authors: Rossi Emily L. , Dunlap Sarah M. , Bowers Laura W. , Khatib Subreen A. , Doerstling Steven S. , Smith Laura A. , Ford Nikki A. , Holley Darcy , Brown Powel H. , Estecio Marcos R. , Kusewitt Donna F. , deGraffenried Linda A. , Bultman Scott J. , Hursting Stephen D.
Published: March 2023

Ensembl Regulatory Build of the ESR1 genomic landscape
Supplementary Table 2 from Energy Balance Modulation Impacts Epigenetic Reprogramming, ERα and ERβ Expression, and Mammary Tumor Development in MMTV-neu Transgenic Mice
Authors: Rossi Emily L. , Dunlap Sarah M. , Bowers Laura W. , Khatib Subreen A. , Doerstling Steven S. , Smith Laura A. , Ford Nikki A. , Holley Darcy , Brown Powel H. , Estecio Marcos R. , Kusewitt Donna F. , deGraffenried Linda A. , Bultman Scott J. , Hursting Stephen D.
Published: March 2023

Differentially methylated CpG dinucleotides at ESR1 and near ESR2
Supplemental Figure 3 from Circulating Tumor Cells Undergoing EMT Provide a Metric for Diagnosis and Prognosis of Patients with Hepatocellular Carcinoma
Authors: Qi Lu-Nan , Xiang Bang-De , Wu Fei-Xiang , Ye Jia-Zhou , Zhong Jian-Hong , Wang Yan-Yan , Chen Yuan-Yuan , Chen Zu-Shun , Ma Liang , Chen Jie , Gong Wen-Feng , Han Ze-Guang , Lu Yan , Shang Jin-Jie , Li Le-Qun
Published: March 2023

A detailed description of the "Pathways in cancer" KEGG cluster related to differentially expressed genesï¼^made by the ClusterProfiler Packageï¼‰. This cluster (Pathways in cancer) includes nine important canonical cancer pathways, such as the Wnt, FAK, and PI3K-AKT signaling pathways, and many differentially expressed cancer-related genes/ gene clusters are found in these nine canonical pathways.
Supplementary Table 1 from Energy Balance Modulation Impacts Epigenetic Reprogramming, ERα and ERβ Expression, and Mammary Tumor Development in MMTV-neu Transgenic Mice
Authors: Rossi Emily L. , Dunlap Sarah M. , Bowers Laura W. , Khatib Subreen A. , Doerstling Steven S. , Smith Laura A. , Ford Nikki A. , Holley Darcy , Brown Powel H. , Estecio Marcos R. , Kusewitt Donna F. , deGraffenried Linda A. , Bultman Scott J. , Hursting Stephen D.
Published: March 2023

Reduced representation bisulfite sequencing mapping statistics
Supplemental Figure 2 from Circulating Tumor Cells Undergoing EMT Provide a Metric for Diagnosis and Prognosis of Patients with Hepatocellular Carcinoma
Authors: Qi Lu-Nan , Xiang Bang-De , Wu Fei-Xiang , Ye Jia-Zhou , Zhong Jian-Hong , Wang Yan-Yan , Chen Yuan-Yuan , Chen Zu-Shun , Ma Liang , Chen Jie , Gong Wen-Feng , Han Ze-Guang , Lu Yan , Shang Jin-Jie , Li Le-Qun
Published: March 2023

Imaging modalities and cumulative total CTC count by each CTC type for the other seven patients who had increased CTC counts 1 to 2 months before detectable recurrence or the appearance of metastatic lesions; six of these patients also had increased M-CTC percentage (i.e., patients 1, 2, 3, 4, 5 and 7).
Supplemental Figure 1 from Circulating Tumor Cells Undergoing EMT Provide a Metric for Diagnosis and Prognosis of Patients with Hepatocellular Carcinoma
Authors: Qi Lu-Nan , Xiang Bang-De , Wu Fei-Xiang , Ye Jia-Zhou , Zhong Jian-Hong , Wang Yan-Yan , Chen Yuan-Yuan , Chen Zu-Shun , Ma Liang , Chen Jie , Gong Wen-Feng , Han Ze-Guang , Lu Yan , Shang Jin-Jie , Li Le-Qun
Published: March 2023

DNA sequencing analysis of three other patients who had the R249S mutation in the P53 gene in the primary tumor but not in non-tumor liver tissues.
Supplementary File from Peripheral Neuropathy Induced by Microtubule-Targeted Chemotherapies: Insights into Acute Injury and Long-term Recovery
Authors: Wozniak Krystyna M. , Vornov James J. , Wu Ying , Liu Ying , Carozzi Valentina A. , Rodriguez-Menendez Virginia , Ballarini Elisa , Alberti Paola , Pozzi Eleonora , Semperboni Sara , Cook Brett M. , Littlefield Bruce A. , Nomoto Kenichi , Condon Krista , Eckley Sean , DesJardins Christopher , Wilson Leslie , Jordan Mary A. , Feinstein Stuart C. , Cavaletti Guido , Polydefkis Michael , Slusher Barbara S.
Published: March 2023

File contains description of supplementary methods used for sciatic nerve immunofluorescence data generation and quantification with Supplementary Fig 1 showing how raw fluorescence intensity values were normalized in order to compare levels of acetylated alpha tubulin from samples across treatment groups. Supplementary Figs 2 thru 4 show DRG and sciatic nerve morphology/morphometrics for chemotherapies other than PACLI. Supplementary Table 1 adds perspective to how MTD used to compare the chemotherapies in this study relates to their pharmacokinetic and IC50 properties.
Supplementary materials from Keratin 19 Expression in Hepatocellular Carcinoma Is Regulated by Fibroblast-Derived HGF via a MET-ERK1/2-AP1 and SP1 Axis
Authors: Rhee Hyungjin , Kim Hye-Young , Choi Ji-Hye , Woo Hyun Goo , Yoo Jeong Eun , Nahm Ji Hae , Choi Jin-Sub , Park Young Nyun
Published: March 2023

Supplementary materials and methods about the generation of conditioned media and ELISA, quantitative real time PCR, western blot analysis and phospho-receptor tyrosine kinase array, plasmids, siRNA, and transfection, dual luciferase assay, oligo pull-down and ChIP, immunofluorescence staining. Supplementary tables S1-S10. S1: Clinicopathologic characteristics of hepatocellular carcinoma cohort (n=339). S2: List of antibodies used for the immunohistochemistry. S3: Criteria for qualitative immunohistochemistry analysis. S4: Criteria for semiquantitative immunohistochemistry analysis. S5: Primer sequences for PCR reaction. S6: List of antibodies. S7: shRNA/siRNA target sequence for gene knockdown. S8: Clinicopathologic characteristics of hepatocellular carcinoma with HGF or MET expression. S9: Univariate and multivariate analyses of disease-specific survival. S10: Univariate and multivariate analyses of disease-free survival.
supplementary video 2 from Visualization of Breast Cancer Metabolism Using Multimodal Nonlinear Optical Microscopy of Cellular Lipids and Redox State
Authors: Hou Jue , Williams Joshua , Botvinick Elliot L. , Potma Eric O. , Tromberg Bruce J.
Published: March 2023

The 3D reconstruction of T47D cancer acinus treated with E2.
Table S2 from Osteoblast-Secreted Factors Mediate Dormancy of Metastatic Prostate Cancer in the Bone via Activation of the TGFβRIII–p38MAPK–pS249/T252RB Pathway
Authors: Yu-Lee Li-Yuan , Yu Guoyu , Lee Yu-Chen , Lin Song-Chang , Pan Jing , Pan Tianhong , Yu Kai-Jie , Liu Bin , Creighton Chad J. , Rodriguez-Canales Jaime , Villalobos Pamela A. , Wistuba Ignacio I. , de Nadal Eulalia , Posas Francesc , Gallick Gary E. , Lin Sue-Hwa
Published: March 2023

Gene array analysis of undifferentiated (Day 0) versus differentiated osteoblasts (Day 30 differentiation).
Table S1 from Osteoblast-Secreted Factors Mediate Dormancy of Metastatic Prostate Cancer in the Bone via Activation of the TGFβRIII–p38MAPK–pS249/T252RB Pathway
Authors: Yu-Lee Li-Yuan , Yu Guoyu , Lee Yu-Chen , Lin Song-Chang , Pan Jing , Pan Tianhong , Yu Kai-Jie , Liu Bin , Creighton Chad J. , Rodriguez-Canales Jaime , Villalobos Pamela A. , Wistuba Ignacio I. , de Nadal Eulalia , Posas Francesc , Gallick Gary E. , Lin Sue-Hwa
Published: March 2023

PCR primers used.
figure S1 from Visualization of Breast Cancer Metabolism Using Multimodal Nonlinear Optical Microscopy of Cellular Lipids and Redox State
Authors: Hou Jue , Williams Joshua , Botvinick Elliot L. , Potma Eric O. , Tromberg Bruce J.
Published: March 2023

Figure S1 that contains information about cell metabolic rate during acini formation.
Figure S5 from Osteoblast-Secreted Factors Mediate Dormancy of Metastatic Prostate Cancer in the Bone via Activation of the TGFβRIII–p38MAPK–pS249/T252RB Pathway
Authors: Yu-Lee Li-Yuan , Yu Guoyu , Lee Yu-Chen , Lin Song-Chang , Pan Jing , Pan Tianhong , Yu Kai-Jie , Liu Bin , Creighton Chad J. , Rodriguez-Canales Jaime , Villalobos Pamela A. , Wistuba Ignacio I. , de Nadal Eulalia , Posas Francesc , Gallick Gary E. , Lin Sue-Hwa
Published: March 2023

TGFβRIII and RB levels in PCa cell lines.
Figure S3 from Osteoblast-Secreted Factors Mediate Dormancy of Metastatic Prostate Cancer in the Bone via Activation of the TGFβRIII–p38MAPK–pS249/T252RB Pathway
Authors: Yu-Lee Li-Yuan , Yu Guoyu , Lee Yu-Chen , Lin Song-Chang , Pan Jing , Pan Tianhong , Yu Kai-Jie , Liu Bin , Creighton Chad J. , Rodriguez-Canales Jaime , Villalobos Pamela A. , Wistuba Ignacio I. , de Nadal Eulalia , Posas Francesc , Gallick Gary E. , Lin Sue-Hwa
Published: March 2023

TGFβ2 and GDF10 activate p38MAPK but not Smad signaling in C4-2B4 PCa cells.
Figure S2 from Osteoblast-Secreted Factors Mediate Dormancy of Metastatic Prostate Cancer in the Bone via Activation of the TGFβRIII–p38MAPK–pS249/T252RB Pathway
Authors: Yu-Lee Li-Yuan , Yu Guoyu , Lee Yu-Chen , Lin Song-Chang , Pan Jing , Pan Tianhong , Yu Kai-Jie , Liu Bin , Creighton Chad J. , Rodriguez-Canales Jaime , Villalobos Pamela A. , Wistuba Ignacio I. , de Nadal Eulalia , Posas Francesc , Gallick Gary E. , Lin Sue-Hwa
Published: March 2023

TGFβ2 and GDF10 induce long-term dormancy in C4-2B4 cells.
Supplemental Methods from Synthetic Lethality of PARP Inhibitors in Combination with MYC Blockade Is Independent of BRCA Status in Triple-Negative Breast Cancer
Authors: Carey Jason. P.W. , Karakas Cansu , Bui Tuyen , Chen Xian , Vijayaraghavan Smruthi , Zhao Yang , Wang Jing , Mikule Keith , Litton Jennifer K. , Hunt Kelly K. , Keyomarsi Khandan
Published: March 2023

This file contains all the methods pertaining to the supplemental figures
Supplemental Figures 9-12 from Synthetic Lethality of PARP Inhibitors in Combination with MYC Blockade Is Independent of BRCA Status in Triple-Negative Breast Cancer
Authors: Carey Jason. P.W. , Karakas Cansu , Bui Tuyen , Chen Xian , Vijayaraghavan Smruthi , Zhao Yang , Wang Jing , Mikule Keith , Litton Jennifer K. , Hunt Kelly K. , Keyomarsi Khandan
Published: March 2023

Supplementary Figure 9 The effect of treatment with c-myc inhibitor 10058-F4 in combination with niraparib Supplementary Figure 10 Screening of known MYC-inhibiting drugs. Supplementary Figure 11 Synergistic assessment of combination treatment with dinaciclib and PARPi on TNBC in vitro Supplementary Figure 12 Immunofluorescent analysis of breast cancer cells treated for 72-h with DMSO (control), niraparib (5 μM), dinaciclib (10 nM), or niraparib and dinaciclib (Combo).
Supplemental Figures 5-8 from Synthetic Lethality of PARP Inhibitors in Combination with MYC Blockade Is Independent of BRCA Status in Triple-Negative Breast Cancer
Authors: Carey Jason. P.W. , Karakas Cansu , Bui Tuyen , Chen Xian , Vijayaraghavan Smruthi , Zhao Yang , Wang Jing , Mikule Keith , Litton Jennifer K. , Hunt Kelly K. , Keyomarsi Khandan
Published: March 2023

Supplementary Figure 5 PARPi sensitivity of BRCA1 short hairpin (shBRCA1)-knockdown cells. Supplementary Figure 6 TCGA analysis of MYC and DNA repair pathway. Supplementary Figure 7 Immunohistochemical analysis of a TNBC patient cohort before and after chemotherapy. Supplementary Figure 8 Inhibition of MYC expression (via siMYC) in TNBC cell lines (MB231 and SUM149).
Supplementary Figures S1-S3 from The Inhibitory NKR-P1B:Clr-b Recognition Axis Facilitates Detection of Oncogenic Transformation and Cancer Immunosurveillance
Authors: Tanaka Miho , Fine Jason H. , Kirkham Christina L. , Aguilar Oscar A. , Belcheva Antoaneta , Martin Alberto , Ketela Troy , Moffat Jason , Allan David S.J. , Carlyle James R.
Published: March 2023

Supplementary Figures S1 to S3 with legends - Figure S1 shows downregulation of Clr-b by Ras isoforms; Figures S2 shows functional analysis of Clr-b deficient C1498 cells (C1498.â^†Clr-b); Figure S3 shows NK ligand expression on C1498 cells expressing inducible CA Ras or c-Myc.
Supplemental Figures 13-16 from Synthetic Lethality of PARP Inhibitors in Combination with MYC Blockade Is Independent of BRCA Status in Triple-Negative Breast Cancer
Authors: Carey Jason. P.W. , Karakas Cansu , Bui Tuyen , Chen Xian , Vijayaraghavan Smruthi , Zhao Yang , Wang Jing , Mikule Keith , Litton Jennifer K. , Hunt Kelly K. , Keyomarsi Khandan
Published: March 2023

Supplementary Figure 13 Effects of treatment with Dinaciclib and niraparib on TNBC in vivo. Supplementary Figure 14 Niraparib resistance of breast cancer cells. (a-d) Knockdown of 53BP1 expression in HCC1806 cells. Supplementary Figure 15 Analysis of MYC mRNA expression in different TCGA cancer patient cohorts. Supplementary Figure 16 Evaluation of TCGA cohort of 82 patients with TNBC, separated according to MYC expression and showing correlation with HR mutation status. Molecular analysis of the patients' tumors predicted their response to PARPi-targeted therapy.
Supplementary Figures from Complement Activation via a C3a Receptor Pathway Alters CD4+ T Lymphocytes and Mediates Lung Cancer Progression
Authors: Kwak Jeff W. , Laskowski Jennifer , Li Howard Y. , McSharry Maria V. , Sippel Trisha R. , Bullock Bonnie L. , Johnson Amber M. , Poczobutt Joanna M. , Neuwelt Alexander J. , Malkoski Stephen P. , Weiser-Evans Mary C. , Lambris John D. , Clambey Eric T. , Thurman Joshua M. , Nemenoff Raphael A.
Published: March 2023

These figures show experiments of tumor growth in Factor B-/- mice. They also show gating strategy for flow cytometry and changes in inflammatory cells. Data showing loss of CIITA in cancer cells alters the response to complement depletion.
Supplemental Figure legends. from Synthetic Lethality of PARP Inhibitors in Combination with MYC Blockade Is Independent of BRCA Status in Triple-Negative Breast Cancer
Authors: Carey Jason. P.W. , Karakas Cansu , Bui Tuyen , Chen Xian , Vijayaraghavan Smruthi , Zhao Yang , Wang Jing , Mikule Keith , Litton Jennifer K. , Hunt Kelly K. , Keyomarsi Khandan
Published: March 2023

This file contains figure legends pertaining to the supplementary figures.
Table S3 from A Pyrrole-Imidazole Polyamide Is Active against Enzalutamide-Resistant Prostate Cancer
Authors: Kurmis Alexis A. , Yang Fei , Welch Timothy R. , Nickols Nicholas G. , Dervan Peter B.
Published: March 2023

GSEA of gene expression signatures in LREX' tumors using gene ontology
Table S2 from A Pyrrole-Imidazole Polyamide Is Active against Enzalutamide-Resistant Prostate Cancer
Authors: Kurmis Alexis A. , Yang Fei , Welch Timothy R. , Nickols Nicholas G. , Dervan Peter B.
Published: March 2023

GSEA of gene expression signatures in LREX' tumors using Hallmark pathways
Supplemental Methods from Downregulating Neuropilin-2 Triggers a Novel Mechanism Enabling EGFR-Dependent Resistance to Oncogene-Targeted Therapies
Authors: Rizzolio Sabrina , Battistini Chiara , Cagnoni Gabriella , Apicella Maria , Vella Viviana , Giordano Silvia , Tamagnone Luca
Published: March 2023

This document describes Materials and Methods applied for siRNA, shRNA, and cDNA transfer in mammalian cells, by means of transfection or lentiviral-mediated cell transduction. Moreover, supplementary information are provided about genomic DNA and RNA isolation and Real-time quantitative PCR analysis, as well as gene promoter reporter assays. Finally, cell surface protein-biotinylation and Western blotting methods are described.
Supplementary data from A Pyrrole-Imidazole Polyamide Is Active against Enzalutamide-Resistant Prostate Cancer
Authors: Kurmis Alexis A. , Yang Fei , Welch Timothy R. , Nickols Nicholas G. , Dervan Peter B.
Published: March 2023

Supplementary data
Figure S3 from A Pyrrole-Imidazole Polyamide Is Active against Enzalutamide-Resistant Prostate Cancer
Authors: Kurmis Alexis A. , Yang Fei , Welch Timothy R. , Nickols Nicholas G. , Dervan Peter B.
Published: March 2023

Animal weights and tumor immunohistochemistry
Figure S2 from A Pyrrole-Imidazole Polyamide Is Active against Enzalutamide-Resistant Prostate Cancer
Authors: Kurmis Alexis A. , Yang Fei , Welch Timothy R. , Nickols Nicholas G. , Dervan Peter B.
Published: March 2023

Heatmap of gene expression changes in LREX' cells
Table S1 from NK-cell Editing Mediates Epithelial-to-Mesenchymal Transition via Phenotypic and Proteomic Changes in Melanoma Cell Lines
Authors: Huergo-Zapico Leticía , Parodi Monica , Cantoni Claudia , Lavarello Chiara , Fernández-Martínez Juan L. , Petretto Andrea , DeAndrés-Galiana Enrique J. , Balsamo Mirna , López-Soto Alejandro , Pietra Gabriella , Bugatti Mattia , Munari Enrico , Marconi Marcella , Mingari Maria Cristina , Vermi William , Moretta Lorenzo , González Segundo , Vitale Massimo
Published: March 2023

Table S1
SI Materials and Methods from NK-cell Editing Mediates Epithelial-to-Mesenchymal Transition via Phenotypic and Proteomic Changes in Melanoma Cell Lines
Authors: Huergo-Zapico Leticía , Parodi Monica , Cantoni Claudia , Lavarello Chiara , Fernández-Martínez Juan L. , Petretto Andrea , DeAndrés-Galiana Enrique J. , Balsamo Mirna , López-Soto Alejandro , Pietra Gabriella , Bugatti Mattia , Munari Enrico , Marconi Marcella , Mingari Maria Cristina , Vermi William , Moretta Lorenzo , González Segundo , Vitale Massimo
Published: March 2023

Supplementary Materials and Methods
Figures S1-S13 from NK-cell Editing Mediates Epithelial-to-Mesenchymal Transition via Phenotypic and Proteomic Changes in Melanoma Cell Lines
Authors: Huergo-Zapico Leticía , Parodi Monica , Cantoni Claudia , Lavarello Chiara , Fernández-Martínez Juan L. , Petretto Andrea , DeAndrés-Galiana Enrique J. , Balsamo Mirna , López-Soto Alejandro , Pietra Gabriella , Bugatti Mattia , Munari Enrico , Marconi Marcella , Mingari Maria Cristina , Vermi William , Moretta Lorenzo , González Segundo , Vitale Massimo
Published: March 2023

Fig S1-S3: Effect of NK cells on melanoma cell lines. Fig S4: Outline of transwell experiments. Fig S5: Effects of blocking mAbs on NK-induced EMT. Fig S6-S7: effects of EMT on NK-receptor ligand expression. Fig S8: effects of NK cells on melanoma cell susceptibility to drugs or g-radiation. Fig S9: Supplemental proteomic data. Fig S10,12: IHC. Fig S11: Effect of NK cells on autophagy. Fig S13: Effect of NK cells on two epithelial cell lines
Supplementary Figures S1-S7 from Interferon-γ Signaling in Melanocytes and Melanoma Cells Regulates Expression of CTLA-4
Authors: Mo Xuan , Zhang Hanghang , Preston Sarah , Martin Kayla , Zhou Bo , Vadalia Nish , Gamero Ana M. , Soboloff Jonathan , Tempera Italo , Zaidi M. Raza
Published: March 2023

Supplementary Figure S1: CTLA4 mRNA expression in human tumor cell lines. Supplementary Figure S2: CTLA4 promoter analysis. Supplementary Figure S3: UCSC genome browser view of human CTLA4 locus. Supplementary Figure S4: Recruitment of STAT1 and POL II to CTLA4 promoter by IFNG treatment. Supplementary Figure S5: The effects of CBP inhibitors on CTLA4 expression. Supplementary Figure S6: Quantification of western blotting in Fig. 5H. Supplementary Figure S7: The effects of Ruxolitinib on expression of genes of IFNG signaling pathway.
Supplementary Tables from Amplification of EGFR Wild-Type Alleles in Non–Small Cell Lung Cancer Cells Confers Acquired Resistance to Mutation-Selective EGFR Tyrosine Kinase Inhibitors
Authors: Nukaga Shigenari , Yasuda Hiroyuki , Tsuchihara Katsuya , Hamamoto Junko , Masuzawa Keita , Kawada Ichiro , Naoki Katsuhiko , Matsumoto Shingo , Mimaki Sachiyo , Ikemura Shinnosuke , Goto Koichi , Betsuyaku Tomoko , Soejima Kenzo
Published: March 2023

This file includes six supplementary Tables. Supplementary Table S1:List of primer sequences. Supplementary Table S2:The calculated IC50 values of PC9 parental and H1975 parental, and corresponding resistant clones. Supplementary Table S3:Summary of whole exome sequencing data. Supplementary Table S4:Number of tags in PIK3CA G118D position in H1975 parental and resistant clones. Supplementary Table S5:The results of the FISH analysis in PC9 and PC9-COR#9 cells. Supplementary Table S6:Number of tags in EGFR E746_A750del position in PC9 parental and resistant clones.
Supplementary Information Figure S1 to S5 from HER2-Driven Breast Tumorigenesis Relies upon Interactions of the Estrogen Receptor with Coactivator MED1
Authors: Yang Yongguang , Leonard Marissa , Zhang Yijuan , Zhao Dan , Mahmoud Charif , Khan Shugufta , Wang Jiang , Lower Elyse E. , Zhang Xiaoting
Published: March 2023

Supplementary Information - This file contains Supplemental Procedures, Supplemental References, Supplemental Table1, Supplementary Figure Legends, and Supplementary Figures. Supplemental Procedure describes the methods and PCR primers used in this study. Supplemental References lists the references cited in the supplemental procedures. Supplemental Table1 shows the patients demographics and tumor data. Supplementary Figure Legends describe the legend for each supplementary figure. Figure S1 shows MED1 LxxLL motif mutations reduce cell proliferation and the expression ER target genes in grafted tumors. Figure S2 shows IGF1 rescues MED1KI/KI mammary gland development. Figure S3 shows inhibition of IGF1 signaling does not affect HER2+ mammary tumor cell apoptosis. Figure S4 shows inhibition of IGF1 reduces HER2+/ER+ human breast cancer cell migration, invasion and CSC formation. Figure S5 shows the relation between MED1 and HER2 status as well as clinical outcomes of breast cancer patients by analyzing public data.
Supplementary Figures from Amplification of EGFR Wild-Type Alleles in Non–Small Cell Lung Cancer Cells Confers Acquired Resistance to Mutation-Selective EGFR Tyrosine Kinase Inhibitors
Authors: Nukaga Shigenari , Yasuda Hiroyuki , Tsuchihara Katsuya , Hamamoto Junko , Masuzawa Keita , Kawada Ichiro , Naoki Katsuhiko , Matsumoto Shingo , Mimaki Sachiyo , Ikemura Shinnosuke , Goto Koichi , Betsuyaku Tomoko , Soejima Kenzo
Published: March 2023

This file includes eight supplementary Figures. Supplementary Figure S1:Flow cytometric data for PC9 and PC9-COR cells treated with DMSO or rociletinib. Supplementary Figure S2:Results of human phospho-RTK array experiments in PC9, H1975, and corresponding resistant cells. Supplementary Figure S3:The results of MTS cell proliferation assays for third-generation EGFR-TKIs resistant clones. Supplementary Figure S4:Copy number variants (CNVs) in PC9 and H1975 resistant cells analyzed from exome sequence data. Supplementary Figure S5:Sequence reads for KRAS in PC9-AZDR#4, PC9-AZDR#5, and PC9 parental cells. Supplementary Figure S6:Loss of heterozygosity (LOH) in H1975 resistant cells. Supplementary Figure S7:Efficacy of rociletinib and cetuximab or afatinib co-treatment with H1975 cells expressing wild type or C797S. Supplementary Figure S8:Summary of the mechanisms underlying acquired resistance to third-generation EGFR-TKIs.
Supplemental Table S1 from ERAP1-Dependent Antigen Cross-Presentation Determines Efficacy of Adoptive T-cell Therapy in Mice
Authors: Schmidt Karin , Keller Christin , Kühl Anja A. , Textor Ana , Seifert Ulrike , Blankenstein Thomas , Willimsky Gerald , Kloetzel Peter-Michael
Published: March 2023

Numerical summary of tumor rejection experiments
Supplementary Tables S1, S2 and S3. from CD39 Expression Defines Cell Exhaustion in Tumor-Infiltrating CD8+ T Cells
Authors: Canale Fernando P. , Ramello María C. , Núñez Nicolás , Furlan Cintia L. Araujo , Bossio Sabrina N. , Serrán Melisa Gorosito , Boari Jimena Tosello , del Castillo Andrés , Ledesma Marta , Sedlik Christine , Piaggio Eliane , Gruppi Adriana , Rodríguez Eva V. Acosta , Montes Carolina L.
Published: March 2023

Tables S1. Fluorochromes and clones of mAbs. Table S2. CD39 expression on human CD8+ TILs from breast cancer patients. Table S3. CD39 and iRs expression on in vitro stimulated human CD8+ T cells.
Supplemental Methods from ERAP1-Dependent Antigen Cross-Presentation Determines Efficacy of Adoptive T-cell Therapy in Mice
Authors: Schmidt Karin , Keller Christin , Kühl Anja A. , Textor Ana , Seifert Ulrike , Blankenstein Thomas , Willimsky Gerald , Kloetzel Peter-Michael
Published: March 2023

File contains supplementary methods describing HPLC analysis, peptide translocation assay, histological staining, western blot analysis, flow cytometry, retroviral transductions, CTL assays, and in vivo cytotoxicity assays.
Supplementary Legends from CD39 Expression Defines Cell Exhaustion in Tumor-Infiltrating CD8+ T Cells
Authors: Canale Fernando P. , Ramello María C. , Núñez Nicolás , Furlan Cintia L. Araujo , Bossio Sabrina N. , Serrán Melisa Gorosito , Boari Jimena Tosello , del Castillo Andrés , Ledesma Marta , Sedlik Christine , Piaggio Eliane , Gruppi Adriana , Rodríguez Eva V. Acosta , Montes Carolina L.
Published: March 2023

Legends of Supplementary Figures and Tables
Supplemental Figures S1-S7 from ERAP1-Dependent Antigen Cross-Presentation Determines Efficacy of Adoptive T-cell Therapy in Mice
Authors: Schmidt Karin , Keller Christin , Kühl Anja A. , Textor Ana , Seifert Ulrike , Blankenstein Thomas , Willimsky Gerald , Kloetzel Peter-Michael
Published: March 2023

File contains supplementary figures showing TAP-specific peptide translocation, growth of WT and Erap1-/- HCC in different recipients, gating strategy for T cell analysis, antigen-dependent T cell expansion, rejection of WT and Erap1-/- HCC through polyclonal T cells, and antigen cross-presentation experiments.
Supplemental Figures and Tables from Deficiency in Protein Tyrosine Phosphatase PTP1B Shortens Lifespan and Leads to Development of Acute Leukemia
Authors: Le Sommer Samantha , Morrice Nicola , Pesaresi Martina , Thompson Dawn , Vickers Mark A. , Murray Graeme I. , Mody Nimesh , Neel Benjamin G. , Bence Kendra K. , Wilson Heather M. , Delibegović Mirela
Published: March 2023

Supplemental Figure 1 (SF1) describes lifespan in global PTP1B-/- mice. SF2 shows development of leukemia is associated with myeloid PTP1B complete deficiency. SF3 shows tumors in LysM PTP1B-/- mice. SF4 presents LysM PTP1B-/- microarray data. SF5 presents STAT5 expression data. SF6 presents additional STAT3 ChIP seq data from LysM PTP1B mice. Tables 1-4 demonstrate detailed statistics for survival data on LysM PTP1B and global PTP1B-/- mice as well as hepatic pre-tumour microarray data from LysM PTP1B-/- and control mice.
Supplementary Methods from Small-Molecule Inhibition of Axl Targets Tumor Immune Suppression and Enhances Chemotherapy in Pancreatic Cancer
Authors: Ludwig Kathleen F. , Du Wenting , Sorrelle Noah B. , Wnuk-Lipinska Katarzyna , Topalovski Mary , Toombs Jason E. , Cruz Victoria H. , Yabuuchi Shinichi , Rajeshkumar N.V. , Maitra Anirban , Lorens James B. , Brekken Rolf A.
Published: March 2023

Expanded Methods
Supplementary Figures from Small-Molecule Inhibition of Axl Targets Tumor Immune Suppression and Enhances Chemotherapy in Pancreatic Cancer
Authors: Ludwig Kathleen F. , Du Wenting , Sorrelle Noah B. , Wnuk-Lipinska Katarzyna , Topalovski Mary , Toombs Jason E. , Cruz Victoria H. , Yabuuchi Shinichi , Rajeshkumar N.V. , Maitra Anirban , Lorens James B. , Brekken Rolf A.
Published: March 2023

Supplementary Figures 1-7 and Supplementary Table 1. Supplementary Figure 1 H&E stain and trichrome stain of representative 7-week-old KIC tumor tissue. Supplementary Figure 2 Axl gene expression in pancreatic cancer patient-derived xenografts. Supplementary Figure 3 Immunofluorescence of cleaved-caspase 3, p-histon-3, endomucin and EMT markers in Pan02 tumor tissue. Supplementary Figure 4 Western blot of TBK1/NF-κB signaling in tumor lysates from KIC mice treated with/without BGB324. Supplementary Figure 5 F4/80 stain in tumor tissue from KIC mice treated with BGB324 +/- gemcitabine. Supplementary Figure 6 Arginase 1 mRNA expression level in bone marrow-derived macrophages treated with IL-4 +/- BGB324. Supplementary Figure 7 Flow cytometry of KPC-M09 subcutaneous tumors treated with/without BGB324. Supplementary Table 1 Cytokine/Chemokine Concentration in KIC tumor lysates from different treatment groups.
Supplementary figure S3 from CD4+ T-cell–Mediated Rejection of MHC Class II–Positive Tumor Cells Is Dependent on Antigen Secretion and Indirect Presentation on Host APCs
Authors: Haabeth Ole Audun W. , Fauskanger Marte , Manzke Melanie , Lundin Katrin U. , Corthay Alexandre , Bogen Bjarne , Tveita Anders A.
Published: March 2023

In vitro toxicity of Trp-specific T cells against wild type and MHC II-deficient B16 melanoma variants. Results of adoptive T cell therapy experiments in mice challenged with wild type B16 tumor cells.
Supplementary figure S2 from CD4+ T-cell–Mediated Rejection of MHC Class II–Positive Tumor Cells Is Dependent on Antigen Secretion and Indirect Presentation on Host APCs
Authors: Haabeth Ole Audun W. , Fauskanger Marte , Manzke Melanie , Lundin Katrin U. , Corthay Alexandre , Bogen Bjarne , Tveita Anders A.
Published: March 2023

T-cell stimulatory ability and cytokine profile of cells isolated from lymph nodes of mice challenged with various A20 lymphoma variants. Confirmatory data showing tumor-specific T cell infiltration in tumor and draining lymph nodes of adoptive T cell transfer experiments using haplotype-mismatched recipients. Functional confirmation of MHC II knockout in A20 variants.
Supplementary figure S1 from CD4+ T-cell–Mediated Rejection of MHC Class II–Positive Tumor Cells Is Dependent on Antigen Secretion and Indirect Presentation on Host APCs
Authors: Haabeth Ole Audun W. , Fauskanger Marte , Manzke Melanie , Lundin Katrin U. , Corthay Alexandre , Bogen Bjarne , Tveita Anders A.
Published: March 2023

Flow cytometry characterization of costimulatory ligands of A20 lymphoma cell variants
Fig. S1 from The FACT inhibitor CBL0137 Synergizes with Cisplatin in Small-Cell Lung Cancer by Increasing NOTCH1 Expression and Targeting Tumor-Initiating Cells
Authors: De Sarmishtha , Lindner Daniel J. , Coleman Claire J. , Wildey Gary , Dowlati Afshin , Stark George R.
Published: March 2023

Supplementary Fig S1. CBL0137 in combination with cisplatin attenuates SCLC tumor growth. H82 SCLC cells, mixed with Matrigel (1:1), were inoculated subcutaneously into the flanks of NSG mice (n=8). Once the tumors reached â^¼50 mm3, the mice were randomized to treatment with vehicle control, CBL0137 (CBL) alone (60 mg/kg i.v., weekly), cisplatin (Cis) alone (5 mg/kg i.p., weekly), or CBL0137 plus cisplatin (CBL+Cis). Tumor diameters were measured 3 times a week for 32 days. The results are represented as means {plus minus} SE.
Figure S4 from Reactivation of Mutant-EGFR Degradation through Clathrin Inhibition Overcomes Resistance to EGFR Tyrosine Kinase Inhibitors
Authors: Ménard Ludovic , Floc'h Nicolas , Martin Matthew J. , Cross Darren A.E.
Published: March 2023

Clathrin inhibition promotes apoptosis of mutant-EGFR expressing cell lines but not WT-EGFR expressing cell lines
Figure S3 from Reactivation of Mutant-EGFR Degradation through Clathrin Inhibition Overcomes Resistance to EGFR Tyrosine Kinase Inhibitors
Authors: Ménard Ludovic , Floc'h Nicolas , Martin Matthew J. , Cross Darren A.E.
Published: March 2023

Mutant-EGFR lysosomal degradation induced by dynamin inhibition
Supplementary Materials and Methods, Tables and Figure legends from A20/TNFAIP3 Regulates the DNA Damage Response and Mediates Tumor Cell Resistance to DNA-Damaging Therapy
Authors: Yang Chuanzhen , Zang Weicheng , Tang Zefang , Ji Yapeng , Xu Ruidan , Yang Yongfeng , Luo Aiping , Hu Bin , Zhang Zemin , Liu Zhihua , Zheng Xiaofeng
Published: March 2023

Supplementary Materials and Methods, Tables S1-2, and Figure legends
Supplementary Figures 1-12 from A20/TNFAIP3 Regulates the DNA Damage Response and Mediates Tumor Cell Resistance to DNA-Damaging Therapy
Authors: Yang Chuanzhen , Zang Weicheng , Tang Zefang , Ji Yapeng , Xu Ruidan , Yang Yongfeng , Luo Aiping , Hu Bin , Zhang Zemin , Liu Zhihua , Zheng Xiaofeng
Published: March 2023

Supplementary Figures 1-12
Figure S1 from Reactivation of Mutant-EGFR Degradation through Clathrin Inhibition Overcomes Resistance to EGFR Tyrosine Kinase Inhibitors
Authors: Ménard Ludovic , Floc'h Nicolas , Martin Matthew J. , Cross Darren A.E.
Published: March 2023

Clathrin inhibition induces mutant-EGFR degradation but not WT EGFR and TfnR degradation.