bluuebunny/crossref_metadata_2025 huggingface dataset:
Supplementary Figure 4 from LINC00152 Promotes Invasion through a 3′-Hairpin Structure and Associates with Prognosis in Glioblastoma
Authors: Reon Brian J. , Takao Real Karia Bruno , Kiran Manjari , Dutta Anindya
Published: April 2023

A protein-bound stem loop in LINC00152. A and B) The two lowest free-energy structures of LINC00152, predicted by mfold. Boxed areas show overlapping stem-loop regions between the structures which also overlaps with the PARIS reads and Ribo-seq reads. C) IGV view of PARIS reads (two separate experiments) generated from HeLa cells. The boxed areas overlap with the beige area in A. The darker shaded areas show the reads obtained from PARIS with 2-bp gap where indicated. D) Top three tracks: IGV view of Ribo-seq reads from the brain showing sites bound by RNPs as darker shaded areas in the top five tracks. Boxed area is the same as the boxed area in A. Bottom three tracks: RNA-seq reads from the brain that map to exon 2 of LINC00152. The different tracks represent three biological samples. If there is >20% of reads at a position is different from the reference genome (due to mutation, polymorphism, cross-link site), the nucleotide is colored as follows: A: green; T: red; C: blue; G: orange.
Figure S1-S6,Table S1,Supplementary Methods from Epigenetic Profiling Identifies LIF as a Super-enhancer-Controlled Regulator of Stem Cell–like Properties in Osteosarcoma
Authors: Lu Bing , He Yangyang , He Jincan , Wang Li , Liu Zhenguo , Yang Jiayan , Gao Zhuoxing , Lu Guohao , Zou Changye , Zhao Wei
Published: April 2023

Supplementary Figure 1. Super-enhancers (SEs) in osteosarcoma cells. Related to Figure 1. Supplementary Figure 2. LIF promotes epithelial-mesenchymal transition (EMT) gene expression. Related to Figure 2. Supplementary Figure 3. GSK-J4 inhibits stem cell-like properties of osteosarcoma cells. Related to Figure 3. Supplementary Figure 4. GSK-J4 treatment results in stemness related gene inactivation. Related to Figure 4. Supplementary Figure 5. LIF activates NOTCH1 signaling pathway. Related to Figure 5. Supplementary Figure 6. Crenigacestat suppresses NOTCH1 signaling pathway genes. Related to Figure 6. Supplementary Table 1. Primers used in this study
Supplementary Figure 8 from SPHK1 Is a Novel Target of Metformin in Ovarian Cancer
Authors: Hart Peter C. , Chiyoda Tatsuyuki , Liu Xiaojing , Weigert Melanie , Curtis Marion , Chiang Chun-Yi , Loth Rachel , Lastra Ricardo , McGregor Stephanie M. , Locasale Jason W. , Lengyel Ernst , Romero Iris L.
Published: April 2023

Knockdown of SPHK1 in OvCa cells.
Supplementary Figure 1 from SPHK1 Is a Novel Target of Metformin in Ovarian Cancer
Authors: Hart Peter C. , Chiyoda Tatsuyuki , Liu Xiaojing , Weigert Melanie , Curtis Marion , Chiang Chun-Yi , Loth Rachel , Lastra Ricardo , McGregor Stephanie M. , Locasale Jason W. , Lengyel Ernst , Romero Iris L.
Published: April 2023

Analysis of S1P-related enzymes in two OvCa cell lines.
Supplementary Information from Olaparib-induced Adaptive Response Is Disrupted by FOXM1 Targeting that Enhances Sensitivity to PARP Inhibition
Authors: Fang Pingping , Madden Jill A. , Neums Lisa , Moulder Ryan K. , Forrest M. Laird , Chien Jeremy
Published: April 2023

The supplementary information contains 10 figures and 3 tables. Figures S1-S8 provide supplementary experimental results, describing the effect of olaparib on BRCA1 and RAD51 protein expression (Fig S1); FOXM1 isoform expression in ovarian carcinoma (Fig S2); Synergistic effects of thiostrepton and olaparib or carboplatin (Fig S3); Alterations in gene expression and pathways affected by thiostrepton (Fig S4); ENCODE data analysis of FOXM1 binding sites in HR genes (Fig S5); Effects of thiostrepton on HR genes'' expression and cell cycle (Fig S6); The effect of thiostrepton and olaparib or carboplatin on DNA damage (Fig S7); and the effect of thiostrepton on rucaparib sensitivity (Fig S8). Figure S9 and S10 contains results describing efficiency of thiostrepton encapsulation in micelles (Fig S9) and analysis of particle sizes of micelles (Fig S10). The supplement information also contains materials and methods associated with the supplementary figures. Finally, the document contains data describing the zeta potential of micelles (Table S1), qPCR primers'' sequences (Table S2) and the description of datasets from Connectivity Map project that was used in this study (Table S3).
Figure S5 from Antisecretory Factor–Mediated Inhibition of Cell Volume Dynamics Produces Antitumor Activity in Glioblastoma
Authors: Ilkhanizadeh Shirin , Sabelström Hanna , Miroshnikova Yekaterina A. , Frantz Aaron , Zhu Wen , Idilli Aurora , Lakins Jon N. , Schmidt Christin , Quigley David A. , Fenster Trenten , Yuan Edith , Trzeciak Jacqueline R. , Saxena Supna , Lindberg Olle R. , Mouw Janna K. , Burdick Jason A. , Magnitsky Sergey , Berger Mitchel S. , Phillips Joanna J. , Arosio Daniele , Sun Dandan , Weaver Valerie M. , Weiss William A. , Persson Anders I.
Published: April 2023

Fig. S5. AF prevents restoration of cell volume of GC22 cells under hyperosmolar conditions. (A) AF peptide (5 μg/ml) and bumetanide (BMT, 10 μM) reduced fluorescence of excited calcein-AM dye when GC22 cells were transferred to hypertonic conditions (432 mOsm). Scale bar: 10 μm. (B) Cell shrinkage was induced with hypertonic exposure in both BMT and AF peptide treated cells with no regulatory volume increase recorded within 20 minutes of hypertonic exposure. (C) Quantification of regulatory volume increase data. (n=3, *P < 0.05, one-way ANOVA).
Supplementary Figure Legends from Paracrine Interaction of Cancer Stem Cell Populations Is Regulated by the Senescence-Associated Secretory Phenotype (SASP)
Authors: Lagunas Angelica M. , Francis Marybeth , Maniar Nisha B. , Nikolova Gergana , Wu Jianchun , Crowe David L.
Published: April 2023

Supplementary Figure Legends
Table S3 from Precision Oncology beyond Targeted Therapy: Combining Omics Data with Machine Learning Matches the Majority of Cancer Cells to Effective Therapeutics
Authors: Ding Michael Q. , Chen Lujia , Cooper Gregory F. , Young Jonathan D. , Lu Xinghua
Published: April 2023

Performance metrics of best elastic net models
Table S1 from Precision Oncology beyond Targeted Therapy: Combining Omics Data with Machine Learning Matches the Majority of Cancer Cells to Effective Therapeutics
Authors: Ding Michael Q. , Chen Lujia , Cooper Gregory F. , Young Jonathan D. , Lu Xinghua
Published: April 2023

A list of FDA approved medications tested in the GDSC study.
Supplementary Figure S2 from Differential Regulation of LET-7 by LIN28B Isoform–Specific Functions
Authors: Mizuno Rei , Chatterji Priya , Andres Sarah , Hamilton Kathryn , Simon Lauren , Foley Shawn W. , Jeganathan Arjun , Gregory Brian D. , Madison Blair , Rustgi Anil K.
Published: April 2023

LIN28B mRNA expression in human CRC samples
Supplemental Figures 1 - 6 from Ezrin Promotes Stem Cell Properties in Pancreatic Ductal Adenocarcinoma
Authors: Penchev Vesselin R. , Chang Yu-Tai , Begum Asma , Ewachiw Theodore , Gocke Christian , Li Joey , McMillan Ross H. , Wang Qiuju , Anders Robert , Marchionni Luigi , Maitra Anirban , Uren Aykut , Rasheed Zeshaan , Matsui William
Published: April 2023

S1. Ezrin expression in PDAC CSCs. S2. Effects of Ezrin on self-renewal and migration in PDAC cells. S3. Actin dynamics following Ezrin knock-down and in low-passage PDAC xenografts. S4. Actin dynamics in L3.6pl cells. S5. Treatment of PDAC cells with NSC305787. S6. Effects of Ezrin loss on in vivo tumor initiation.
Supplemental Figures from Epigenetic Targeting of Adipocytes Inhibits High-Grade Serous Ovarian Cancer Cell Migration and Invasion
Authors: Tang Jessica , Pulliam Nicholas , Özeş Ali , Buechlein Aaron , Ding Ning , Keer Harold , Rusch Doug , O'Hagan Heather , Stack M. Sharon , Nephew Kenneth P.
Published: April 2023

Supplemental Figures 1-6
Materials and Methods from D-2-Hydroxyglutarate Is Necessary and Sufficient for Isocitrate Dehydrogenase 1 Mutant–Induced MIR148A Promoter Methylation
Authors: Li Tie , Cox Christopher D. , Ozer Byram H. , Nguyen Nhung T. , Nguyen HuyTram N. , Lai Thomas J. , Li Sichen , Liu Fei , Kornblum Harley I. , Liau Linda M. , Nghiemphu Phioanh L. , Cloughesy Timothy F. , Lai Albert
Published: April 2023

Supplementary Materials and Methods
Supplementary Table S3 from A Novel FGFR3 Splice Variant Preferentially Expressed in African American Prostate Cancer Drives Aggressive Phenotypes and Docetaxel Resistance
Authors: Olender Jacqueline , Wang Bi-Dar , Ching Travers , Garmire Lana X. , Garofano Kaitlin , Ji Youngmi , Knox Tessa , Latham Patricia , Nguyen Kenneth , Rhim Johng , Lee Norman H.
Published: April 2023

Supplemental Table S3. Relative phospho-protein expression with and without dovitinib treatment.
Supplementary Data File 2 from GSK2801, a BAZ2/BRD9 Bromodomain Inhibitor, Synergizes with BET Inhibitors to Induce Apoptosis in Triple-Negative Breast Cancer
Authors: Bevill Samantha M. , Olivares-Quintero Jose F. , Sciaky Noah , Golitz Brian T. , Singh Darshan , Beltran Adriana S. , Rashid Naim U. , Stuhlmiller Timothy J. , Hale Andrew , Moorman Nathaniel J. , Santos Charlene M. , Angus Steven P. , Zawistowski Jon S. , Johnson Gary L.
Published: April 2023

File includes drug synergy scores for 6 cell lines screened against JQ1
Supplementary Figure S1 from A Novel FGFR3 Splice Variant Preferentially Expressed in African American Prostate Cancer Drives Aggressive Phenotypes and Docetaxel Resistance
Authors: Olender Jacqueline , Wang Bi-Dar , Ching Travers , Garmire Lana X. , Garofano Kaitlin , Ji Youngmi , Knox Tessa , Latham Patricia , Nguyen Kenneth , Rhim Johng , Lee Norman H.
Published: April 2023

S1. Prostate cancer cells overexpressing FGFR3-S are resistance to the combination of dovitinib- and docetaxel-induced apoptotic activity.
Supplementary Table S5 from Nomogram Integrating Genomics with Clinicopathologic Features Improves Prognosis Prediction for Colorectal Cancer
Authors: Xiong Yongfu , You Wenxian , Hou Min , Peng Linglong , Zhou He , Fu Zhongxue
Published: April 2023

Description of CRC patients of the 9 public datasets
Supplementary Figure S2 from Nomogram Integrating Genomics with Clinicopathologic Features Improves Prognosis Prediction for Colorectal Cancer
Authors: Xiong Yongfu , You Wenxian , Hou Min , Peng Linglong , Zhou He , Fu Zhongxue
Published: April 2023

Supplementary Figure S2. Cluster analysis of multiple cohorts combined CRC set. A-C. Principal components analysis performed on all CRC patients using the top 500 mRNAs showing the highest standard deviation across all patients. The first four principal components which explain the most of the data variation are shown. Patients are labeled with different color according to the cohort which they belong. (A) The first two principal components; (B) The third and fourth principal components; (C) Explained variances of each principal components. D. Hierarchical clustering of CRC patients using the Ward method to compute the distance between patients.
Figure S1 from BRD4 Regulates Metastatic Potential of Castration-Resistant Prostate Cancer through AHNAK
Authors: Shafran Jordan S. , Andrieu Guillaume P. , Györffy Balázs , Denis Gerald V.
Published: April 2023

Validation of BET protein depletion by BET-specific siRNAs
Supplementary Table 1, Supplementary Figures 1-8 from Centrosome Amplification in Cancer Disrupts Autophagy and Sensitizes to Autophagy Inhibition
Authors: Denu Ryan A. , Kaur Gulpreet , Sass Madilyn M. , Lakkaraju Aparna , Burkard Mark E.
Published: April 2023

Supp Table 1. Primer sequences for qRT-PCR. Supplemental Figure 1: Validation of centrosome amplification cell models. Supplemental Figure 2: Centrosome amplification induced by cytokinesis failure and STIL overexpression also disrupts autophagy. Supplemental Figure 3: PLK4 inhibition reduces centrosomes and autophagy defect in some cancer cell lines with centrosome amplification. Supplemental Figure 4: Centrosome amplification increases autophagy gene expression but does not significantly alter LC3B-II/I ratio. Supplemental Figure 5: Centrosome amplification does not alter lysosomal hub organization around the centrosomes. Supplemental Figure 6: Centrosome amplification-mediated autophagy disruption does not depend significantly on mitosis. Supplemental Figure 7: Microtubule disruption inhibits autophagy. Supplemental Figure 8: Centrosome amplified cells are less sensitive to mitotic inhibitors.
Supplementary Table S2 from The Transcription Factor AP4 Promotes Oncogenic Phenotypes and Cisplatin Resistance by Regulating LAPTM4B Expression
Authors: Wang Lu , Meng Yue , Xu Jian-Jun , Zhang Qing-Yun
Published: April 2023

Supplementary Table S2 shows the antibodies used in western-blot assay.
Supplementary Figure S2 from The Transcription Factor AP4 Promotes Oncogenic Phenotypes and Cisplatin Resistance by Regulating LAPTM4B Expression
Authors: Wang Lu , Meng Yue , Xu Jian-Jun , Zhang Qing-Yun
Published: April 2023

Supplementary Figure S2 shows the potential transcription factors binding to the promoter region of LAPTM4B*1 and LAPTM4B*2.
Supplementary figure legends and materials from HuR Suppresses Fas Expression and Correlates with Patient Outcome in Liver Cancer
Authors: Zhu Haifeng , Berkova Zuzana , Mathur Rohit , Sehgal Lalit , Khashab Tamer , Tao Rong-Hua , Ao Xue , Feng Lei , Sabichi Anita L. , Blechacz Boris , Rashid Asif , Samaniego Felipe
Published: April 2023

Supplementary figure legends and materials
Table S5 from Transcriptome-wide Landscape of Pre-mRNA Alternative Splicing Associated with Metastatic Colonization
Authors: Lu Zhi-xiang , Huang Qin , Park Juw Won , Shen Shihao , Lin Lan , Tokheim Collin J. , Henry Michael D. , Xing Yi
Published: April 2023

Table S5. Enriched GO terms of differentially expressed genes
Supplementary Data 1 from Anti–miR-21 Suppresses Hepatocellular Carcinoma Growth via Broad Transcriptional Network Deregulation
Authors: Wagenaar Timothy R. , Zabludoff Sonya , Ahn Sung-Min , Allerson Charles , Arlt Heike , Baffa Raffaele , Cao Hui , Davis Scott , Garcia-Echeverria Carlos , Gaur Rajula , Huang Shih-Min A. , Jiang Lan , Kim Deokhoon , Metz-Weidmann Christiane , Pavlicek Adam , Pollard Jack , Reeves Jason , Rocnik Jennifer L. , Scheidler Sabine , Shi Chaomei , Sun Fangxian , Tolstykh Tatiana , Weber William , Winter Christopher , Yu Eunsil , Yu Qunyan , Zheng Gang , Wiederschain Dmitri
Published: April 2023

Supplementary Data 1. Excel sheet with fold change in gene expression following anti-miR-21 treatment.
Supplementary Table S4 from Salt-Inducible Kinase 2 Regulates Mitotic Progression and Transcription in Prostate Cancer
Authors: Bon Hélène , Wadhwa Karan , Schreiner Alexander , Osborne Michelle , Carroll Thomas , Ramos-Montoya Antonio , Ross-Adams Helen , Visser Matthieu , Hoffmann Ralf , Ahmed Ahmed Ashour , Neal David E. , Mills Ian G.
Published: April 2023

Supplementary Table S4. A detailed list of genes involved in the processes of "mitotic cell cycle", "protein folding" and "response to stress". Genes are ranked according to their levels of expression after SIK2 knock-down (SIK2si) or over-expression of kinase-dead SIK2 (KI).
Supplementary Table S3 from Salt-Inducible Kinase 2 Regulates Mitotic Progression and Transcription in Prostate Cancer
Authors: Bon Hélène , Wadhwa Karan , Schreiner Alexander , Osborne Michelle , Carroll Thomas , Ramos-Montoya Antonio , Ross-Adams Helen , Visser Matthieu , Hoffmann Ralf , Ahmed Ahmed Ashour , Neal David E. , Mills Ian G.
Published: April 2023

Supplementary Table S3. Detailed list of differentially expressed genes (DEG) up- or down-regulated after both Forskolin treatment and kinase-dead SIK2 over-expression (Forsk. / KI), Forskolin treatment and SIK2 knock-down (Forsk. / SIK2si), kinase-dead SIK2 over-expression and SIK2 knock-down (KI / SIK2si) and in all three conditions. The number of DEG in each list is indicated.
Supplementary Figure 4 from Salt-Inducible Kinase 2 Regulates Mitotic Progression and Transcription in Prostate Cancer
Authors: Bon Hélène , Wadhwa Karan , Schreiner Alexander , Osborne Michelle , Carroll Thomas , Ramos-Montoya Antonio , Ross-Adams Helen , Visser Matthieu , Hoffmann Ralf , Ahmed Ahmed Ashour , Neal David E. , Mills Ian G.
Published: April 2023

Supplementary Figure 4 (Relates to Figure 4) - SIK2 localises at the centrosomes of SKOv3 and LNCaP cells.
Supplementary Figure 2 from Salt-Inducible Kinase 2 Regulates Mitotic Progression and Transcription in Prostate Cancer
Authors: Bon Hélène , Wadhwa Karan , Schreiner Alexander , Osborne Michelle , Carroll Thomas , Ramos-Montoya Antonio , Ross-Adams Helen , Visser Matthieu , Hoffmann Ralf , Ahmed Ahmed Ashour , Neal David E. , Mills Ian G.
Published: April 2023

Supplementary Figure 2 (Relates to Figure 2) - SIK2 knock-down reduces proliferation and viability of LNCaP-Bic, C4-2 and DuCaP cells.
Supplemental Figure Legends from Mitochondrial β-Carotene 9′,10′ Oxygenase Modulates Prostate Cancer Growth via NF-κB Inhibition: A Lycopene-Independent Function
Authors: Gong Xiaoming , Marisiddaiah Raju , Zaripheh Susan , Wiener Doris , Rubin Lewis P.
Published: April 2023

Figure S1 (Related to Figure 4A): Lycopene and lycopene metabolites inhibit cell growth in C4-2 prostate cancer cells. In these representative experiments, C4-2 cells (8 x 104) were seeded onto 6-well plates, then treated with 1 μM lycopene or apo-10-lycopenal, or vehicle (DMSO) for up to 3 days. Every 24 h, duplicate samples were trypsinized and counted. Data represent mean {plus minus} SD (n=3). Figure S2 (Related to Figure 4B): Lycopene and lycopene metabolites inhibit cell growth in PC3 prostate cancer cells. In these representative experiments, 8 x 104 PC3 cells were seeded onto 6-well plates, then treated with 1 μM lycopene or apo-10-lycopenal, or vehicle (DMSO) for up to 3 days. Every 24 h, duplicate samples were trypsinized and counted. Data represent mean {plus minus} SD (n=3). Figure S3: Sequence alignments of human BCO2, BCO1, RPE65, and bovine RPE65, showing conserved active site residues targeted for mutation (numbered as BCO2): Glu194, His226, His 286, His 387, Glu465, Glu499, His573). Figure S4: A. Active site structure of the human BCO2 enzyme showing the catalytic iron coordination site with four conserved histidine residues and second shell glutamate residues. B. Predicted 3D structure of human BCO2. Seven bladed β-propellers are indicated in yellow (I through VII) and the four α-helices in pink. Figure S5 (Related to Figure 5C,D): A. Representative colony formation assay for transfected C4-2 cells. B. Quantification of colonies per well from two 6-well plates of transfected C4-2 cells indicated in A. Data represent mean {plus minus} SD (n=4); (*, p< 0.05, BCO2 or BCO2-mt vs. control).
Data Supplement from The Lipid Kinase PI4KIIIβ Is Highly Expressed in Breast Tumors and Activates Akt in Cooperation with Rab11a
Authors: Morrow Anne A. , Alipour Mohsen Amir , Bridges Dave , Yao Zemin , Saltiel Alan R. , Lee Jonathan M.
Published: April 2023

Supplementary Figure 1
Figure S2 from Circular RNA hsa_circ_0014130 Inhibits Apoptosis in Non–Small Cell Lung Cancer by Sponging miR-136-5p and Upregulating BCL2
Authors: Geng Ying , Bao Yongxia , Deng Lili , Su Dongju , Zheng Hongyan , Zhang Wei
Published: April 2023

Supplementary Figure 2 Hsa_circ_0014130's oncogenic roles are partially via sponging miR-136-5p, and then activating Bcl-2 in PC-9 cells.
Data Supplement from The Lipid Kinase PI4KIIIβ Is Highly Expressed in Breast Tumors and Activates Akt in Cooperation with Rab11a
Authors: Morrow Anne A. , Alipour Mohsen Amir , Bridges Dave , Yao Zemin , Saltiel Alan R. , Lee Jonathan M.
Published: April 2023

Supplementary Figure 5
Data Supplement from The Lipid Kinase PI4KIIIβ Is Highly Expressed in Breast Tumors and Activates Akt in Cooperation with Rab11a
Authors: Morrow Anne A. , Alipour Mohsen Amir , Bridges Dave , Yao Zemin , Saltiel Alan R. , Lee Jonathan M.
Published: April 2023

Supplementary Figure 6
Table S2 from Distinct Transcriptional Changes and Epithelial–Stromal Interactions Are Altered in Early-Stage Colon Cancer Development
Authors: Mo Allen , Jackson Stephen , Varma Kamini , Carpino Alan , Giardina Charles , Devers Thomas J. , Rosenberg Daniel W.
Published: April 2023

Differentially expressed genes between normal and ACF epithelium.
Supplementary methods from Targeting MPS1 Enhances Radiosensitization of Human Glioblastoma by Modulating DNA Repair Proteins
Authors: Maachani Uday Bhanu , Kramp Tamalee , Hanson Ryan , Zhao Shuping , Celiku Orieta , Shankavaram Uma , Colombo Riccardo , Caplen Natasha J. , Camphausen Kevin , Tandle Anita
Published: April 2023

Supplementary methods
Table S1 from Distinct Transcriptional Changes and Epithelial–Stromal Interactions Are Altered in Early-Stage Colon Cancer Development
Authors: Mo Allen , Jackson Stephen , Varma Kamini , Carpino Alan , Giardina Charles , Devers Thomas J. , Rosenberg Daniel W.
Published: April 2023

Molecular characteristics of Samples
Figure S1 from Distinct Transcriptional Changes and Epithelial–Stromal Interactions Are Altered in Early-Stage Colon Cancer Development
Authors: Mo Allen , Jackson Stephen , Varma Kamini , Carpino Alan , Giardina Charles , Devers Thomas J. , Rosenberg Daniel W.
Published: April 2023

Identification of potential batch effects and pseudogene amplification
Supplementary Figure 2 from Targeting MPS1 Enhances Radiosensitization of Human Glioblastoma by Modulating DNA Repair Proteins
Authors: Maachani Uday Bhanu , Kramp Tamalee , Hanson Ryan , Zhao Shuping , Celiku Orieta , Shankavaram Uma , Colombo Riccardo , Caplen Natasha J. , Camphausen Kevin , Tandle Anita
Published: April 2023

Supplementary Figure 2. Molecular profiling reveals changes in genes associated with DNA replication, recombination and repair.
supplemental figures from Grainyhead-like 2 Reverses the Metabolic Changes Induced by the Oncogenic Epithelial–Mesenchymal Transition: Effects on Anoikis
Authors: Farris Joshua C. , Pifer Phillip M. , Zheng Liang , Gottlieb Eyal , Denvir James , Frisch Steven M.
Published: April 2023

Figure S1. GRHL2 sensitizes MCF10A neoT cells to anoikis. A. Caspase 3/7 activation assay on 24 hour anoikis assay (zero hour subtracted). B. shRNA depletion of GRHL2 decreases anoikis sensitivity in MCF10A neoT cells. Figure S2. EMT causes a metabolic shift from glycolysis to oxidative phosphorylation, that is partially reversed by GRHL2. Figure S3. MSP cells are able to maintain ATP in spite of inhibition of glucose utilization with 2-deoxyglucose; reversal by GRHL2. Figure S4. Multiple carbon sources, including fatty acids, contribute to the elevated mitochondrial function in MSP cells. Figure S5. EMT decreases overall ROS and results in anoikis resistance, but elevates superoxide levels. Figure S6. Treatment of MSP+GRHL2 cells with antioxidant compounds results in elevated Î"Î¨. Figure S7. Depletion of CD44 with stable shRNA transduction increases anoikis and ROS. Figure S8. HMLE and MSP cells have similar levels of reduced glutathione. Figure S9. GRHL2 downregulates GLUD1 in MCF10A neoT cells and depletion of GLUD1 from HMLE+Twist-ER cells increases ROS and anoikis. Figure S10. Treatment of MSP+GRHL2 cells with DM-Î±KG (10 mM) results in decreased ROS and protection from anoikis.
Figure S2 from DNA Replication Stress Induced by Trifluridine Determines Tumor Cell Fate According to p53 Status
Authors: Kataoka Yuki , Iimori Makoto , Fujisawa Ryo , Morikawa-Ichinose Tomomi , Niimi Shinichiro , Wakasa Takeshi , Saeki Hiroshi , Oki Eiji , Miura Daisuke , Tsurimoto Toshiki , Maehara Yoshihiko , Kitao Hiroyuki
Published: April 2023

Data related to Fig. 2
Supplemental methods, supplemental tables 1 and 2, supplemental figures 1-11, and supplemental references. from The Relative Expression of ERα Isoforms ERα66 and ERα36 Controls the Cellular Response to 24R,25-Dihydroxyvitamin D3 in Breast Cancer
Authors: Verma Anjali , Cohen D. Joshua , Jacobs Thomas W. , Boyan Barbara D. , Schwartz Zvi
Published: April 2023

Supplemental Table 1: Gene expression primers used in quantitative real-time PCR. Supplemental Table 2: Antibodies used in western blots. Figure S1: The effect of 24R,25(OH)2D3 on MDA-MB-231 cells. Figure S2: The effect of 24R,25(OH)2D3 on T-47D cells. Figure S3: Silencing CAV1 in HCC38 cells. Figure S4: Whole western blot of silencing of caveolin-1 in HCC38 cells from Supplemental Figure S3. Figure S5: Overexpression of ESR1 in HCC38 changes ERα isoform expression. Figure S6: Whole western blot of transient overexpression of ESR1 in HCC38 cells from Supplemental Figure S5. Figure S7: Overexpression of ESR1 in C2C12. Figure S8: Whole western blot of stable overexpression of ESR1 in C2C12 cells from Supplemental Figure 7. Figure S9: ERα66 was stably knocked down in MCF7 using a recombinant plasmid with a puromycin antibiotic resistant selection marker. Figure S10: Whole western blot of stable silencing of ERα66 in MCF7 cells from Supplemental Figure 9. Figure S11: Silencing the ERα66 isoform reversed the pro-apoptotic effect of 24R,25(OH)2D3 on MCF7 cells.
Supplementary Fig. S4 from Hepatitis B Virus X Protein Induces RHAMM-Dependent Motility in Hepatocellular Carcinoma Cells via PI3K–Akt–Oct-1 Signaling
Authors: Liu Yu-Chin , Lu Li-Feng , Li Chia-Jung , Sun Nian-Kang , Guo Jing-You , Huang Ya-Hui , Yeh Chau-Ting , Chao Chuck C.-K.
Published: April 2023

The association of the gene signatures pattern and HBV driven modulation with prognosis.
Table S1 from miR-29a Is Repressed by MYC in Pancreatic Cancer and Its Restoration Drives Tumor-Suppressive Effects via Downregulation of LOXL2
Authors: Dey Shatovisha , Kwon Jason J. , Liu Sheng , Hodge Gabriel A. , Taleb Solaema , Zimmers Teresa A. , Wan Jun , Kota Janaiah
Published: April 2023

Primer sequences for real-time PCR.
Supplementary Figures 1 - 5 from miR-29a Is Repressed by MYC in Pancreatic Cancer and Its Restoration Drives Tumor-Suppressive Effects via Downregulation of LOXL2
Authors: Dey Shatovisha , Kwon Jason J. , Liu Sheng , Hodge Gabriel A. , Taleb Solaema , Zimmers Teresa A. , Wan Jun , Kota Janaiah
Published: April 2023

S1.(A) cBioportal analysis of genetic alterations in putative pri-miR-29a/b1 promoter binding transcription factors in CCLE datasets of pancreatic cancer cells. (B) Regression plot indicating negative correlation between miR-29a and MYC expressions in CCLE pancreatic cancer cell lines (CFPAC-1, Capan-1, HUP-T3, KP4, L3_3, PSN1, Panc_02_03, and Panc_08_13) showing MYC alterations. (C) Relative luciferase activity in MIA PaCa-2 cell line. (D) Real-time PCR analysis of DNA fragments precipitated in a CHIP assay using MIA PaCa-2 cell line. S2. (A) Volcano plot for differentially expressed genes in miR-29a overexpressing (OE) and control PaCa-2 cells. (B) Venn diagram of upregulated transcripts in Panc-1 and/or MIA Paca-2 datasets. (C) Genes among the 20 most differentially expressed overlapping genes in Panc-1 and MIA PaCa-2 datasets belonging to one or more of the four tested GO categories. Highlighted genes are predicted miR-29a targets. S3. (A) Western Blot for miR-29a target genes in MIA PaCa-2 cells transfected with different concentrations (5nM, 10nM and 20nM) of control (CTRL) or miR-29a mimics. (B) Migration assays for MIA PaCa-2 cells transfected with siCTRL, siMYBL2, siLOXL2, siCLDN1, siHGK, and siNRAS, or CTRL and miR-29a mimic. S4. (A)Relative luciferase activityin MIA PaCa-2 cell line.(B)Relative miR-29a expressions in Panc-1 and MIA PaCa-2 cells transfected with siLOXL2. (C) Western Blot of LOXL2 and MYC in MIA PaCa-2 cells transfected with siCTRLor siMYC. (D) MIA PaCa-2 cells transfected with CTRL or miR-29a mimic, and siCTRLand siLOXL2 were cultured in serum free media for 48 hrs. Conditioned media (CM) thus obtained were subjected to ELISA for detection of secreted LOXL2. (E) Newly crosslinked pepsin-soluble collagen in ECM of MIA PaCa-2 cells transfected with CTRL or miR-29a mimic, and siCTRLand siLOXL2. (F)Hydroxyproline content representing heavily cross-linked insoluble collagen in ECM of transfected MIA PaCa-2 cells. S5. Correlation analysis between expressions of miR-29a and its target genes (CLDN1, HGK, NRAS and MYBL2) in PDAC patients from the TCGA database.
Figure S5 from CD44 Regulates Formation of Spheroids and Controls Organ-Specific Metastatic Colonization in Epithelial Ovarian Carcinoma
Authors: Sacks Suarez Joelle , Gurler Main Hilal , Muralidhar Goda G. , Elfituri Osama , Xu Hao-Liang , Kajdacsy-Balla Andre A. , Barbolina Maria V.
Published: April 2023

SUPPLEMENTARY FIGURE 5. CD44 is required for spheroid formation.
Supplemental Figure 2 from The Role of Nitric Oxide Synthase Uncoupling in Tumor Progression
Authors: Rabender Christopher S. , Alam Asim , Sundaresan Gobalakrishnan , Cardnell Robert J. , Yakovlev Vasily A. , Mukhopadhyay Nitai D. , Graves Paul , Zweit Jamal , Mikkelsen Ross B.
Published: April 2023

Supplemental Figure 2: shows a time course of changes in BH4:BH2 in MCF7 cells after addition of SP. This established the time course used in the in vitro experiments.
Nanostring Raw Data from Novel Small-Molecule CX3CR1 Antagonist Impairs Metastatic Seeding and Colonization of Breast Cancer Cells
Authors: Shen Fei , Zhang Yun , Jernigan Danielle L. , Feng Xin , Yan Jie , Garcia Fernando U. , Meucci Olimpia , Salvino Joseph M. , Fatatis Alessandro
Published: April 2023

Nanostring Raw fold-change data
Fig. S4. Nanostring Pathway score for Notch signaling pathway. from Novel Small-Molecule CX3CR1 Antagonist Impairs Metastatic Seeding and Colonization of Breast Cancer Cells
Authors: Shen Fei , Zhang Yun , Jernigan Danielle L. , Feng Xin , Yan Jie , Garcia Fernando U. , Meucci Olimpia , Salvino Joseph M. , Fatatis Alessandro
Published: April 2023

Tissue specimens harvested by Laser Capture Microdissection from skeletal tumors generated in mice either administered with JMS-17-2 or grafted with cells silenced for CX3CR1 by CRISPRi show similar de-regulation of the Notch pathway, established using the Pathfier analysis module, as compared to vehicle-treated control animals.
Supplementary Table S3 from DNA Methylome Analyses Implicate Fallopian Tube Epithelia as the Origin for High-Grade Serous Ovarian Cancer
Authors: Klinkebiel David , Zhang Wa , Akers Stacey N. , Odunsi Kunle , Karpf Adam R.
Published: April 2023

Bowtell 450K FTE (n=7) and HGSC Samples (n=78)
Supplementary Table 2 from Prognostic Potential of DNA Methylation and Transcript Levels of HIF1A and EPAS1 in Colorectal Cancer
Authors: Rawłuszko-Wieczorek Agnieszka Anna , Horbacka Karolina , Krokowicz Piotr , Misztal Matthew , Jagodziński Paweł Piotr
Published: April 2023

PDF file - 95K, HIF1A and EPAS1 transcript levels in primary cancerous and histopathologically unchanged tissue samples from patient with CRC.
Supplementary Figure 6 from Cooperativity of E-cadherin and Smad4 Loss to Promote Diffuse-Type Gastric Adenocarcinoma and Metastasis
Authors: Park Jun Won , Jang Seok Hoon , Park Dong Min , Lim Na Jung , Deng Chuxia , Kim Dae Yong , Green Jeffrey E. , Kim Hark Kyun
Published: April 2023

PDF - 108K, MMP8 expression at the invasive front of gastric cancer.
Supplemental Material from EMT Transition Alters Interstitial Fluid Flow–Induced Signaling in ERBB2-Positive Breast Cancer Cells
Authors: Tchafa Alimatou M. , Ta Mi , Reginato Mauricio J. , Shieh Adrian C.
Published: April 2023

Supplemental figures with captions
Table S3 from c-MYC Generates Repair Errors via Increased Transcription of Alternative-NHEJ Factors, LIG3 and PARP1, in Tyrosine Kinase–Activated Leukemias
Authors: Muvarak Nidal , Kelley Shannon , Robert Carine , Baer Maria R. , Perrotti Danilo , Gambacorti-Passerini Carlo , Civin Curt , Scheibner Kara , Rassool Feyruz V.
Published: April 2023

Table S3. Clinical and molecular features of CML patients
Supplementary Figures S1-2, Tables S1-3 from Next-Gen Sequencing Exposes Frequent MED12 Mutations and Actionable Therapeutic Targets in Phyllodes Tumors
Authors: Cani Andi K. , Hovelson Daniel H. , McDaniel Andrew S. , Sadis Seth , Haller Michaela J. , Yadati Venkata , Amin Anmol M. , Bratley Jarred , Bandla Santhoshi , Williams Paul D. , Rhodes Kate , Liu Chia-Jen , Quist Michael J. , Rhodes Daniel R. , Grasso Catherine S. , Kleer Celina G. , Tomlins Scott A.
Published: April 2023

Supplementary Figures S1-2, Tables S1-3. Figure S1. Comparison of the number of high confidence, non-synonymous somatic point mutations/indels and high level copy number alterations (CNAs) by tumor grade. Figure S2. Copy number plots of representative benign and borderline phyllodes tumors. Table S2: Somatic non-synonymous mutations identified in FFPE phyllodes tumors subjected to targeted next generation sequencing. Table S3: Detailed information about identified somatic non-synonymous mutations.
Supplemental Table 1 from Cholesterol Sulfonation Enzyme, SULT2B1b, Modulates AR and Cell Growth Properties in Prostate Cancer
Authors: Vickman Renee E. , Crist Scott A. , Kerian Kevin , Eberlin Livia , Cooks R. Graham , Burcham Grant N. , Buhman Kimberly K. , Hu Chang-Deng , Mesecar Andrew D. , Cheng Liang , Ratliff Timothy L.
Published: April 2023

Cell line authentication.
Supplemental Figure 2 from BET Bromodomain Inhibitors Enhance Efficacy and Disrupt Resistance to AR Antagonists in the Treatment of Prostate Cancer
Authors: Asangani Irfan A. , Wilder-Romans Kari , Dommeti Vijaya L. , Krishnamurthy Pranathi M. , Apel Ingrid J. , Escara-Wilke June , Plymate Stephen R. , Navone Nora M. , Wang Shaomeng , Feng Felix Y. , Chinnaiyan Arul M.
Published: April 2023

Direct comparison of various BET inhibitors in prostate cancer cells.
Supplemental Figure 1 from BET Bromodomain Inhibitors Enhance Efficacy and Disrupt Resistance to AR Antagonists in the Treatment of Prostate Cancer
Authors: Asangani Irfan A. , Wilder-Romans Kari , Dommeti Vijaya L. , Krishnamurthy Pranathi M. , Apel Ingrid J. , Escara-Wilke June , Plymate Stephen R. , Navone Nora M. , Wang Shaomeng , Feng Felix Y. , Chinnaiyan Arul M.
Published: April 2023

Enzalutamide resistant VCaP prostate cancer cells.
Figure S2 from MAPK7 Regulates EMT Features and Modulates the Generation of CTCs
Authors: Javaid Sarah , Zhang Jianmin , Smolen Gromoslaw A. , Yu Min , Wittner Ben S. , Singh Anurag , Arora Kshitij S. , Madden Marissa W. , Desai Rushil , Zubrowski Matthew J. , Schott Benjamin J. , Ting David T. , Stott Shannon L. , Toner Mehmet , Maheswaran Shyamala , Shioda Toshi , Ramaswamy Sridhar , Haber Daniel A.
Published: April 2023

Figure S2. Scatter-plots showing a linear relationship between expression of housekeeping genes.
Supplementary Table S2 from AMPK-Independent LKB1 Activity Is Required for Efficient Epithelial Ovarian Cancer Metastasis
Authors: Buensuceso Adrian , Ramos-Valdes Yudith , DiMattia Gabriel E. , Shepherd Trevor G.
Published: April 2023

Data from reverse phase protein array analysis (data used to calculate log2-fold change for Figure 6A)
S5 from Augmented TME O-GlcNAcylation Promotes Tumor Proliferation through the Inhibition of p38 MAPK
Authors: Moriwaki Kazumasa , Asahi Michio
Published: April 2023

Supplemental Table 2.
Supplementary Figure Legends from AMPK-Independent LKB1 Activity Is Required for Efficient Epithelial Ovarian Cancer Metastasis
Authors: Buensuceso Adrian , Ramos-Valdes Yudith , DiMattia Gabriel E. , Shepherd Trevor G.
Published: April 2023

Figure legends for Supplementary Figures S1-6
Supplementary Figure 5 from TGFβ and Hippo Pathways Cooperate to Enhance Sarcomagenesis and Metastasis through the Hyaluronan-Mediated Motility Receptor (HMMR)
Authors: Ye Shuai , Liu Ying , Fuller Ashley M. , Katti Rohan , Ciotti Gabrielle E. , Chor Susan , Alam Md. Zahidul , Devalaraja Samir , Lorent Kristin , Weber Kristy , Haldar Malay , Pack Michael A. , Eisinger-Mathason T.S. Karin
Published: April 2023

S5. The role of RHAMM in UPS in proliferation and TGFB signaling
Supplementary Data from Circadian Oscillations Persist in Cervical and Esophageal Cancer Cells Displaying Decreased Expression of Tumor-Suppressing Circadian Clock Genes
Authors: van der Watt Pauline J. , Roden Laura C. , Davis Kate T. , Parker M. Iqbal , Leaner Virna D.
Published: April 2023

Supplementary figure legends
Supplementary Table 1 from Iron Regulatory Protein 2 Exerts its Oncogenic Activities by Suppressing TAp63 Expression
Authors: Zhang Yanhong , Feng Xiuli , Zhang Jin , Chen Xinbin
Published: April 2023

The oligos used for generation of sgRNA expression vectors
Supplementary Figures from Loss of SWI/SNF Chromatin Remodeling Alters NRF2 Signaling in Non–Small Cell Lung Carcinoma
Authors: Song Shujie , Nguyen Vinh , Schrank Travis , Mulvaney Kathleen , Walter Vonn , Wei Darmood , Orvis Tess , Desai Nisarg , Zhang Jiren , Hayes D. Neil , Zheng Yanfang , Major Michael B. , Weissman Bernard E.
Published: April 2023

Supplementary Figure 1 shows BRG1 deficiency activates transcription of a subset of NRF2 target genes in second H358 BRG1 knockdown cell line; Supplementary Figure 2 shows western blot of BRG1 and BRM knockout samples used for RNA-seq.
Supplementary Table S3 from Integrative Genomic Analyses Yield Cell-Cycle Regulatory Programs with Prognostic Value
Authors: Cheng Chao , Lou Shaoke , Andrews Erik H. , Ung Matthew H. , Varn Frederick S.
Published: April 2023

Gene sets significantly associated with patient survival in liposarcoma
Supplementary Tables S1 to S5 and Supplemental Figures 1 to 15 from SLAMF3-Mediated Signaling via ERK Pathway Activation Promotes Aggressive Phenotypic Behaviors in Multiple Myeloma
Authors: Ishibashi Mariko , Takahashi Risa , Tsubota Asako , Sasaki Makoto , Handa Hiroshi , Imai Yoichi , Tanaka Norina , Tsukune Yutaka , Tanosaki Sakae , Ito Shigeki , Asayama Toshio , Sunakawa Mika , Kaito Yuta , Kuribayashi-Hamada Yasuko , Onodera Asaka , Moriya Keiichi , Komatsu Norio , Tanaka Junji , Odajima Takeshi , Sugimori Hiroki , Inokuchi Koiti , Tamura Hideto
Published: April 2023

Table S1. Primer sequences Table S2. Patient characteristics in cell - surface SLAMF3 and CD138 expression analysis. Table S3. One hundred and sixty-eight gene sets that were significantly upregulated in SLAMF3-KMS34 cells compared with Î"SLAMF3 cells (NOM P-value <0.05, FDR q-value <0.20). Table S4. Core enrichment genes in MAPK/ERK signal-related gene sets which were significantly enriched in SLAMF3.KMS34 cells compared with Î"SLAMF3 cells. Table S5. Characteristics of MGUS and newly diagnosed MM patients. Figure S1. SLAMF3 expression in MM patients. Figure S2. Expression of cell markers CD38, CD138, CD34, CD45, CD19, and CD27 in SLAMF3high and SLAMF3low cell fractions of U266 cells. Figure S3. SLAMF3, SHP2, and GRB2 mRNA in MM cell lines and patient samples. Figure S4. Melphalan sensitivity and BrdU incorporation in MM cells treated with SHP2- and GRB2-specific siRNA and NSC87877. Figure S5. Enrichment plots for the gene sets in Supplementary Table S3 which were associated with survival and cell proliferation. Figure S6. SLAMF3 expression on MM cells induced gene expression associated with survival and cell proliferation. Figure S7. Soluble SLAMF3 (sSLAMF3) in MM patients and cell lines. Figure S8. Correlation of serum sSLAMF3 levels with the percentage of BM plasma and SLAMF3-positive cells, and serum IL-6 concentrations. Figure S9. Receiver operating characteristics (ROC) curve for predicting the R-ISS score (I vs. II/ III) for patients with MM. Figure S10. Effect of soluble SLAMF3 on MM cells. Figure S11. Receiver operating characteristics (ROC) curve (ROC) curve Receiver operating characteristics (ROC) curve for predicting the R-ISS score (I vs. II/ III) for patients with MM. Figure S12. Effect of soluble SLAMF3 on MM cells. Figure S13. Proposed mechanism of disease progression via SLAMF3 signaling in MM. Figure S14. Expression of cell markers CD38, CD138, CD34, CD45, CD19, CD27 and c -kit in SLAMF3high and SLAMF3low cell fractions of U266 cells. Figure S15. Characteristics of SLAMF3high and SLAMF3low U266 cells.
Table S3 from NRF2-Driven KEAP1 Transcription in Human Lung Cancer
Authors: Tian Yijun , Liu Qian , Yu Shengnan , Chu Qian , Chen Yuan , Wu Kongming , Wang Liang
Published: April 2023

ChIP-seq datasets used in this research
Table S2 from NRF2-Driven KEAP1 Transcription in Human Lung Cancer
Authors: Tian Yijun , Liu Qian , Yu Shengnan , Chu Qian , Chen Yuan , Wu Kongming , Wang Liang
Published: April 2023

Sequences of primers and oligos used in this research
Supplementary Figure 2 from Colorectal Carcinogenesis: Connecting K-RAS–Induced Transformation and CREB Activity In Vitro and In Vivo
Authors: Steven André , Heiduk Max , Recktenwald Christian V. , Hiebl Bernhard , Wickenhauser Claudia , Massa Chiara , Seliger Barbara
Published: April 2023

Supplementary Figure 2: p-CREB Ser133 expression in colorectal carcinoma lesions with known K-RAS mutation status
Figure S3 from NRF2-Driven KEAP1 Transcription in Human Lung Cancer
Authors: Tian Yijun , Liu Qian , Yu Shengnan , Chu Qian , Chen Yuan , Wu Kongming , Wang Liang
Published: April 2023

Survival analysis using gene ratios in other SQC cohorts.
Figure S2 from NRF2-Driven KEAP1 Transcription in Human Lung Cancer
Authors: Tian Yijun , Liu Qian , Yu Shengnan , Chu Qian , Chen Yuan , Wu Kongming , Wang Liang
Published: April 2023

Cut-off finding and enrichment performance for gene ratio strategy.
Supplementary Figure 4 from The Chemokine (CCL2–CCR2) Signaling Axis Mediates Perineural Invasion
Authors: He Shizhi , He Shuangba , Chen Chun-Hao , Deborde Sylvie , Bakst Richard L. , Chernichenko Natalya , McNamara William F. , Lee Sei Young , Barajas Fernando , Yu Zhenkun , Al-Ahmadie Hikmat A. , Wong Richard J.
Published: April 2023

A. Close up views of the photomicrographs from Figure 4 show an association between the PC-3 cells and the wild type DRG neurites (Figure 4A), but fewer associations between the PC-3 cells and CCL2 -/- DRG neurites (Figure 4B). B. DRG's were harvested from wild type and CCL2 -/- mice and explanted in 15µl of growth-factor reduced Matrigel. Photographs were taken every other day. Neurite outgrowth rate was measured by measuring the area covered by the neurites and subtracting the center of the DRG (MetaMorph, Molecular Devices, Sunnyvale, CA).
Supplemental Table S2 from The Histone Demethylase Jumonji Coordinates Cellular Senescence Including Secretion of Neural Stem Cell–Attracting Cytokines
Authors: Perrigue Patrick M. , Silva Michael E. , Warden Charles D. , Feng Nathan L. , Reid Michael A. , Mota Daniel J. , Joseph Lauren P. , Tian Yangzi Isabel , Glackin Carlotta A. , Gutova Margarita , Najbauer Joseph , Aboody Karen S. , Barish Michael E.
Published: April 2023

Table S2. Lists of genes defining IPA analyses of "Cancer"- and "Inflammatory response"-related, and those common to both.
Supplemental Figure 2 from Genome-Wide Profiling of TRACK Kidneys Shows Similarity to the Human ccRCC Transcriptome
Authors: Fu Leiping , Minton Denise R. , Zhang Tuo , Nanus David M. , Gudas Lorraine J.
Published: April 2023

Supplemental Figure 2. Protein expression of NDUFA4L2, SLC16A3 and HK2 in clear cell proximal tubules.
Supplementary Figure legends 1-7 from PPARδ Interacts with the Hippo Coactivator YAP1 to Promote SOX9 Expression and Gastric Cancer Progression
Authors: Song Shumei , Wang Zhenning , Li Yuan , Ma Lang , Jin Jiankang , Scott Ailing W. , Xu Yan , Estrella Jeannelyn Santiano , Song Yongxi , Liu Bin , Johnson Randy L. , Ajani Jaffer A.
Published: April 2023

Supplemental Figure 1. PPARÎ'ï�¤and its agonist activate SOX9 transcription, while its antagonist suppresses SOX9 transcription and expression. Supplemental Figure 2. Diagram demonstrates cloning of human YAP1 and PPARÎ'ï�¤and their major domains as depicted. Supplemental Figure 3. Sequential ChIP using YAP1 and PPARÎ'ï�¤ antibodies in PPARÎ' transfected GAC (AGS) cells. Supplemental Figure 4. Mutation of the TEAD binding site of SOX9 promoter diminished the SOX9 transcriptional activity induced by PPARÎ'ï�¤agonist GW501516. Supplemental Figure 5. PPARÎ' and its agonist GW501516 activation of YAP1 expression and increased the binding of PPARÎ' and YAP1.Supplemental Figure 6. PPARÎ'ï€ Interacts with YAP1 by Yeast two-hybrid analyses. Supplemental Figure 7. PPARÎ' promotes oncogenic functions of GAC cells in vitro and in vivo.
FigureS7 from Clinical Characteristics and Exploratory Genomic Analyses of Germline BRCA1 or BRCA2 Mutations in Breast Cancer
Authors: Park Sehhoon , Lee Eunjin , Park Seri , Lee Sohee , Nam Seok Jin , Kim Seok Won , Lee Jeong Eon , Yu Jong-Han , Kim Ji-Yeon , Ahn Jin Seok , Im Young-Hyuck , Park Woong-Yang , Park Kyunghee , Park Yeon Hee
Published: April 2023

Figure S7. (A) Volcano plot of hallmark gene sets showing the difference between gBRCA1 and gBRCA2 mutant samples. (B) Hallmark gene sets enriched in either gBRCA1 mutants or gBRCA2 mutants and the list (C).
Supplementary Information from Interplay Between V-ATPase G1 and Small EV-miRNAs Modulates ERK1/2 Activation in GBM Stem Cells and Nonneoplastic Milieu
Authors: Bertolini Irene , Storaci Alessandra Maria , Terrasi Andrea , Cristofori Andrea Di , Locatelli Marco , Caroli Manuela , Ferrero Stefano , Altieri Dario C. , Vaira Valentina
Published: April 2023

Figure S1. Selection of optimal sEV concentration and Concanamycin A dose. Figure S2. Small EVs characterization. Figure S3. Functional effects of NS-derived small EVs. Figure S4. Bafilomycin A1 treatment in NS does not interfere with their ability to secrete small EVs. Figure S5. sEV-mediated modulation of cancer pathway in recipient cells. Figure S6. miRNA content in NS small EV.
FigureS5 from Clinical Characteristics and Exploratory Genomic Analyses of Germline BRCA1 or BRCA2 Mutations in Breast Cancer
Authors: Park Sehhoon , Lee Eunjin , Park Seri , Lee Sohee , Nam Seok Jin , Kim Seok Won , Lee Jeong Eon , Yu Jong-Han , Kim Ji-Yeon , Ahn Jin Seok , Im Young-Hyuck , Park Woong-Yang , Park Kyunghee , Park Yeon Hee
Published: April 2023

Figure S5. Heatmap plot of gene expression profile between samples from patients with gBRCA1 and gBRCA2 mutations showing the top 20 ranked genes.
Supplementary Materials and Methods from UBE2C Is Upregulated by Estrogen and Promotes Epithelial–Mesenchymal Transition via p53 in Endometrial Cancer
Authors: Liu Yan , Zhao Rong , Chi Shuqi , Zhang Wei , Xiao Chengyu , Zhou Xing , Zhao Yingchao , Wang Hongbo
Published: April 2023

This file shows supplementary materials and methods
Supplementary Figure S2 from UBE2C Is Upregulated by Estrogen and Promotes Epithelial–Mesenchymal Transition via p53 in Endometrial Cancer
Authors: Liu Yan , Zhao Rong , Chi Shuqi , Zhang Wei , Xiao Chengyu , Zhou Xing , Zhao Yingchao , Wang Hongbo
Published: April 2023

UBE2C promotes cell proliferation, migration, invasion, and EMT in RL95-2 cells.
Supplementary Figure 3 from Structure, Dynamics, and Functionality of Tankyrase Inhibitor-Induced Degradasomes
Authors: Thorvaldsen Tor Espen , Pedersen Nina Marie , Wenzel Eva M. , Schultz Sebastian W. , Brech Andreas , Liestøl Knut , Waaler Jo , Krauss Stefan , Stenmark Harald
Published: April 2023

Correlative light and electron microscopy (CLEM) of G007-LK-induced degradasomes.
Supplementary Figure S1 from UBE2C Is Upregulated by Estrogen and Promotes Epithelial–Mesenchymal Transition via p53 in Endometrial Cancer
Authors: Liu Yan , Zhao Rong , Chi Shuqi , Zhang Wei , Xiao Chengyu , Zhou Xing , Zhao Yingchao , Wang Hongbo
Published: April 2023

p53 mutation analysis in exons 5-8 of cell lines.
Supplementary Figure 2 from Structure, Dynamics, and Functionality of Tankyrase Inhibitor-Induced Degradasomes
Authors: Thorvaldsen Tor Espen , Pedersen Nina Marie , Wenzel Eva M. , Schultz Sebastian W. , Brech Andreas , Liestøl Knut , Waaler Jo , Krauss Stefan , Stenmark Harald
Published: April 2023

Endosomal and autophagosomal markers do not colocalize with Î²-catenin in degradasomes.
Supplementary figure legends from High-Fat Diet-Induced Complement Activation Mediates Intestinal Inflammation and Neoplasia, Independent of Obesity
Authors: Doerner Stephanie K. , Reis Edimara S. , Leung Elaine S. , Ko Justine S. , Heaney Jason D. , Berger Nathan A. , Lambris John D. , Nadeau Joseph H.
Published: April 2023

Suppl fig legends
Supplementary figure 4 from High-Fat Diet-Induced Complement Activation Mediates Intestinal Inflammation and Neoplasia, Independent of Obesity
Authors: Doerner Stephanie K. , Reis Edimara S. , Leung Elaine S. , Ko Justine S. , Heaney Jason D. , Berger Nathan A. , Lambris John D. , Nadeau Joseph H.
Published: April 2023

S4. Distribution of Complement C3 staining in the small intestines of B6.ApcMin/+ mice.