bluuebunny/crossref_metadata_2025 huggingface dataset:
Supplementary Data from Combining Neratinib with CDK4/6, mTOR, and MEK Inhibitors in Models of HER2-positive Cancer
Authors: Zhao Ming , Scott Stephen , Evans Kurt W. , Yuca Erkan , Saridogan Turcin , Zheng Xiaofeng , Wang Heping , Korkut Anil , Cruz Pico Christian X. , Demirhan Mehmet , Kirby Bryce , Kopetz Scott , Diala Irmina , Lalani Alshad S. , Piha-Paul Sarina , Meric-Bernstam Funda
Published: October 2024

Figure Legends
Supplementary Figure 3 from Targeting Chemoresistance in Advanced Bladder Cancers with a Novel Adjuvant Strategy
Authors: Seremak Juliette R. , Gupta Kunj Bihari , Bonigala Sunilkanth , Liu Elise , Marshall Brendan , Zhi Wenbo , Bokhtia Riham M. , Panda Siva S. , Lokeshwar Vinata B. , Lokeshwar Bal L.
Published: October 2024

Supplementary Figure 3 with legends
Supplementary Figure 2 from Targeting Chemoresistance in Advanced Bladder Cancers with a Novel Adjuvant Strategy
Authors: Seremak Juliette R. , Gupta Kunj Bihari , Bonigala Sunilkanth , Liu Elise , Marshall Brendan , Zhi Wenbo , Bokhtia Riham M. , Panda Siva S. , Lokeshwar Vinata B. , Lokeshwar Bal L.
Published: October 2024

Supplementary Figure 2 with legends
Supplementary Data from Targeting Chemoresistance in Advanced Bladder Cancers with a Novel Adjuvant Strategy
Authors: Seremak Juliette R. , Gupta Kunj Bihari , Bonigala Sunilkanth , Liu Elise , Marshall Brendan , Zhi Wenbo , Bokhtia Riham M. , Panda Siva S. , Lokeshwar Vinata B. , Lokeshwar Bal L.
Published: October 2024

Supplementary Tables and Methods
Supplementary Figure S7 from Iron-(Fe3+)-Dependent Reactivation of Telomerase Drives Colorectal Cancers
Authors: Shanmugam Raghuvaran , Majee Prativa , Shi Wei , Ozturk Mert B. , Vaiyapuri Thamil S. , Idzham Khaireen , Raju Anandhkumar , Shin Seung H. , Fidan Kerem , Low Joo-Leng , Chua Joelle Y.H. , Kong Yap C. , Qi Ong Y. , Tan Emile , Chok Aik Y. , Seow-En Isaac , Wee Ian , Macalinao Dominique C. , Chong Dawn Q. , Chang Hong Y. , Lee Fiona , Leow Wei Q. , Murata-Hori Maki , Xiaoqian Zhang , Shumei Chia , Tan Chris S.H. , Dasgupta Ramanuj , Tan Iain B. , Tergaonkar Vinay
Published: October 2024

SP2509 interaction with Iron-(Fe3+)
Supplementary Video 1 from CD28 Costimulation Augments CAR Signaling in NK Cells via the LCK/CD3ζ/ZAP70 Signaling Axis
Authors: Acharya Sunil , Basar Rafet , Daher May , Rafei Hind , Li Ping , Uprety Nadima , Ensley Emily , Shanley Mayra , Kumar Bijender , Banerjee Pinaki P. , Melo Garcia Luciana , Lin Paul , Mohanty Vakul , Kim Kun H. , Jiang Xianli , Pan Yuchen , Li Ye , Liu Bin , Nunez Cortes Ana K. , Zhang Chenyu , Fathi Mohsen , Rezvan Ali , Montalvo Melisa J. , Cha Sophia L. , Reyes-Silva Francia , Shrestha Rejeena , Guo Xingliang , Kundu Kiran , Biederstädt Alexander , Muniz-Feliciano Luis , Deyter Gary M. , Kaplan Mecit , Jiang Xin R. , Liu Enli , Jain Antrix , Roszik Janos , Fowlkes Natalie W. , Solis Soto Luisa M. , Raso Maria G. , Khoury Joseph D. , Lin Pei , Vega Francisco , Varadarajan Navin , Chen Ken , Marin David , Shpall Elizabeth J. , Rezvani Katayoun
Published: October 2024

CAR27-ζ NK cell serial killing against Raji cells.
Supplementary Figure S11 from Iron-(Fe3+)-Dependent Reactivation of Telomerase Drives Colorectal Cancers
Authors: Shanmugam Raghuvaran , Majee Prativa , Shi Wei , Ozturk Mert B. , Vaiyapuri Thamil S. , Idzham Khaireen , Raju Anandhkumar , Shin Seung H. , Fidan Kerem , Low Joo-Leng , Chua Joelle Y.H. , Kong Yap C. , Qi Ong Y. , Tan Emile , Chok Aik Y. , Seow-En Isaac , Wee Ian , Macalinao Dominique C. , Chong Dawn Q. , Chang Hong Y. , Lee Fiona , Leow Wei Q. , Murata-Hori Maki , Xiaoqian Zhang , Shumei Chia , Tan Chris S.H. , Dasgupta Ramanuj , Tan Iain B. , Tergaonkar Vinay
Published: October 2024

SP2509’s inhibitory action is specific to CRC specifically to CMS3 subtype
Supplementary Figure S1 from CD28 Costimulation Augments CAR Signaling in NK Cells via the LCK/CD3ζ/ZAP70 Signaling Axis
Authors: Acharya Sunil , Basar Rafet , Daher May , Rafei Hind , Li Ping , Uprety Nadima , Ensley Emily , Shanley Mayra , Kumar Bijender , Banerjee Pinaki P. , Melo Garcia Luciana , Lin Paul , Mohanty Vakul , Kim Kun H. , Jiang Xianli , Pan Yuchen , Li Ye , Liu Bin , Nunez Cortes Ana K. , Zhang Chenyu , Fathi Mohsen , Rezvan Ali , Montalvo Melisa J. , Cha Sophia L. , Reyes-Silva Francia , Shrestha Rejeena , Guo Xingliang , Kundu Kiran , Biederstädt Alexander , Muniz-Feliciano Luis , Deyter Gary M. , Kaplan Mecit , Jiang Xin R. , Liu Enli , Jain Antrix , Roszik Janos , Fowlkes Natalie W. , Solis Soto Luisa M. , Raso Maria G. , Khoury Joseph D. , Lin Pei , Vega Francisco , Varadarajan Navin , Chen Ken , Marin David , Shpall Elizabeth J. , Rezvani Katayoun
Published: October 2024

Expression of CD70 at the protein and mRNA levels in different tumor types.
Supplementary Table S3 from Biologic and Clinical Analysis of Childhood Gamma Delta T-ALL Identifies LMO2/STAG2 Rearrangements as Extremely High Risk
Authors: Kimura Shunsuke , Park Chun Shik , Montefiori Lindsey E. , Iacobucci Ilaria , Pölönen Petri , Gao Qingsong , Arnold Elizabeth D. , Attarbaschi Andishe , Brown Anthony , Buldini Barbara , Caldwell Kenneth J. , Chang Yunchao , Chen Chelsey , Cheng Cheng , Cheng Zhongshan , Choi John , Conter Valentino , Crews Kristine R. , de Groot-Kruseman Hester A. , Deguchi Takao , Eguchi Mariko , Muhle Hannah E. , Elitzur Sarah , Escherich Gabriele , Freeman Burgess B. , Gu Zhaohui , Han Katie , Horibe Keizo , Imamura Toshihiko , Jeha Sima , Kato Motohiro , Chiew Kean H. , Khan Tanya , Kicinski Michal , Köhrer Stefan , Kornblau Steven M. , Kotecha Rishi S. , Li Chi-Kong , Liu Yen-Chun , Locatelli Franco , Luger Selina M. , Paietta Elisabeth M. , Manabe Atsushi , Marquart Hanne V. , Masetti Riccardo , Maybury Mellissa , Mazilier Pauline , Meijerink Jules P.P. , Mitchell Sharnise , Miyamura Takako , Moore Andrew S. , Oshima Koichi , Pawinska-Wasikowska Katarzyna , Pieters Rob , Prater Mollie S. , Pruett-Miller Shondra M. , Pui Ching-Hon , Qu Chunxu , Reiterova Michaela , Reyes Noemi , Roberts Kathryn G. , Rowe Jacob M. , Sato Atsushi , Schmiegelow Kjeld , Schrappe Martin , Shen Shuhong , Skoczeń Szymon , Spinelli Orietta , Stary Jan , Svaton Michael , Takagi Masatoshi , Takita Junko , Tang Yanjing , Teachey David T. , Thomas Paul G. , Tomizawa Daisuke , Trka Jan , Varotto Elena , Vincent Tiffaney L. , Yang Jun J. , Yeoh Allen E.J. , Zhou Yinmei , Zimmermann Martin , Inaba Hiroto , Mullighan Charles G.
Published: October 2024

Cox proportional hazards regression analysis of EFS and OS.
Table S4 from Iron Chelation Therapy Elicits Innate Immune Control of Metastatic Ovarian Cancer
Authors: Sandoval Tito A. , Salvagno Camilla , Chae Chang-Suk , Awasthi Deepika , Giovanelli Paolo , Marin Falco Matias , Hwang Sung-Min , Teran-Cabanillas Eli , Suominen Lasse , Yamazaki Takahiro , Kuo Hui-Hsuan , Moyer Jenna E. , Martin M. Laura , Manohar Jyothi , Kim Kihwan , Sierra Maria A. , Ramos Yusibeska , Tan Chen , Emmanuelli Alexander , Song Minkyung , Morales Diana K. , Zamarin Dmitriy , Frey Melissa K. , Cantillo Evelyn , Chapman-Davis Eloise , Holcomb Kevin , Mason Christopher E. , Galluzzi Lorenzo , Ni Zhou Zhen , Vähärautio Anna , Cloonan Suzanne M. , Cubillos-Ruiz Juan R.
Published: October 2024

Table S4 describes the organoids used in this study
Table S3 from Iron Chelation Therapy Elicits Innate Immune Control of Metastatic Ovarian Cancer
Authors: Sandoval Tito A. , Salvagno Camilla , Chae Chang-Suk , Awasthi Deepika , Giovanelli Paolo , Marin Falco Matias , Hwang Sung-Min , Teran-Cabanillas Eli , Suominen Lasse , Yamazaki Takahiro , Kuo Hui-Hsuan , Moyer Jenna E. , Martin M. Laura , Manohar Jyothi , Kim Kihwan , Sierra Maria A. , Ramos Yusibeska , Tan Chen , Emmanuelli Alexander , Song Minkyung , Morales Diana K. , Zamarin Dmitriy , Frey Melissa K. , Cantillo Evelyn , Chapman-Davis Eloise , Holcomb Kevin , Mason Christopher E. , Galluzzi Lorenzo , Ni Zhou Zhen , Vähärautio Anna , Cloonan Suzanne M. , Cubillos-Ruiz Juan R.
Published: October 2024

Table S3 contains all statistically significant DEGs from RNAseq data
Supplementary Table S23 from Biologic and Clinical Analysis of Childhood Gamma Delta T-ALL Identifies LMO2/STAG2 Rearrangements as Extremely High Risk
Authors: Kimura Shunsuke , Park Chun Shik , Montefiori Lindsey E. , Iacobucci Ilaria , Pölönen Petri , Gao Qingsong , Arnold Elizabeth D. , Attarbaschi Andishe , Brown Anthony , Buldini Barbara , Caldwell Kenneth J. , Chang Yunchao , Chen Chelsey , Cheng Cheng , Cheng Zhongshan , Choi John , Conter Valentino , Crews Kristine R. , de Groot-Kruseman Hester A. , Deguchi Takao , Eguchi Mariko , Muhle Hannah E. , Elitzur Sarah , Escherich Gabriele , Freeman Burgess B. , Gu Zhaohui , Han Katie , Horibe Keizo , Imamura Toshihiko , Jeha Sima , Kato Motohiro , Chiew Kean H. , Khan Tanya , Kicinski Michal , Köhrer Stefan , Kornblau Steven M. , Kotecha Rishi S. , Li Chi-Kong , Liu Yen-Chun , Locatelli Franco , Luger Selina M. , Paietta Elisabeth M. , Manabe Atsushi , Marquart Hanne V. , Masetti Riccardo , Maybury Mellissa , Mazilier Pauline , Meijerink Jules P.P. , Mitchell Sharnise , Miyamura Takako , Moore Andrew S. , Oshima Koichi , Pawinska-Wasikowska Katarzyna , Pieters Rob , Prater Mollie S. , Pruett-Miller Shondra M. , Pui Ching-Hon , Qu Chunxu , Reiterova Michaela , Reyes Noemi , Roberts Kathryn G. , Rowe Jacob M. , Sato Atsushi , Schmiegelow Kjeld , Schrappe Martin , Shen Shuhong , Skoczeń Szymon , Spinelli Orietta , Stary Jan , Svaton Michael , Takagi Masatoshi , Takita Junko , Tang Yanjing , Teachey David T. , Thomas Paul G. , Tomizawa Daisuke , Trka Jan , Varotto Elena , Vincent Tiffaney L. , Yang Jun J. , Yeoh Allen E.J. , Zhou Yinmei , Zimmermann Martin , Inaba Hiroto , Mullighan Charles G.
Published: October 2024

The list of drugs for the patient-derived xenografts (PDX) cell screening.
Supplementary Tables S1-S6 from Perivascular NOTCH3+ Stem Cells Drive Meningioma Tumorigenesis and Resistance to Radiotherapy
Authors: Choudhury Abrar , Cady Martha A. , Lucas Calixto-Hope G. , Najem Hinda , Phillips Joanna J. , Palikuqi Brisa , Zakimi Naomi , Joseph Tara , Birrueta Janeth O. , Chen William C. , Oberheim Bush Nancy A. , Hervey-Jumper Shawn L. , Klein Ophir D. , Toedebusch Christine M. , Horbinski Craig M. , Magill Stephen T. , Bhaduri Aparna , Perry Arie , Dickinson Peter J. , Heimberger Amy B. , Ashworth Alan , Crouch Elizabeth E. , Raleigh David R.
Published: October 2024

Supplementary Table S1. Cell cluster marker genes from single-cell RNA sequencing of human meningiomas with loss of chromosome 22q. Supplementary Table S2. Cell cluster marker genes from single-cell RNA sequencing of dog meningiomas. Supplementary Table S3. RNA sequencing differential expression analyses across recurrent versus primary human meningiomas. Supplementary Table S4. Antibodies for multiplexed sequential immunofluorescence. Supplementary Table S5. Cell cluster marker genes from single-cell RNA sequencing of human cells from meningioma xenografts. Supplementary Table S6. Cell cluster marker genes from single-cell RNA sequencing of mouse cells from meningioma xenografts.
Supplementary Fig. S9 from Perivascular NOTCH3+ Stem Cells Drive Meningioma Tumorigenesis and Resistance to Radiotherapy
Authors: Choudhury Abrar , Cady Martha A. , Lucas Calixto-Hope G. , Najem Hinda , Phillips Joanna J. , Palikuqi Brisa , Zakimi Naomi , Joseph Tara , Birrueta Janeth O. , Chen William C. , Oberheim Bush Nancy A. , Hervey-Jumper Shawn L. , Klein Ophir D. , Toedebusch Christine M. , Horbinski Craig M. , Magill Stephen T. , Bhaduri Aparna , Perry Arie , Dickinson Peter J. , Heimberger Amy B. , Ashworth Alan , Crouch Elizabeth E. , Raleigh David R.
Published: October 2024

Supplementary Fig. 9. WHO grade 3 meningioma immunofluorescence microscopy for NOTCH3 and the endothelial cell marker VWF. NOTCH3 is expressed in and out of the perivascular niche, and is adjacent to endothelial cells in the perivascular niche, in meningiomas with WHO grade 3 histology. SF numbers indicate individual meningiomas. Representative of n=10 WHO grade 3 meningiomas. WHO grade defined using histological criteria. Scale bars, 10µm.
Supplementary Fig. S8 from Perivascular NOTCH3+ Stem Cells Drive Meningioma Tumorigenesis and Resistance to Radiotherapy
Authors: Choudhury Abrar , Cady Martha A. , Lucas Calixto-Hope G. , Najem Hinda , Phillips Joanna J. , Palikuqi Brisa , Zakimi Naomi , Joseph Tara , Birrueta Janeth O. , Chen William C. , Oberheim Bush Nancy A. , Hervey-Jumper Shawn L. , Klein Ophir D. , Toedebusch Christine M. , Horbinski Craig M. , Magill Stephen T. , Bhaduri Aparna , Perry Arie , Dickinson Peter J. , Heimberger Amy B. , Ashworth Alan , Crouch Elizabeth E. , Raleigh David R.
Published: October 2024

Supplementary Fig. 8. WHO grade 2 meningioma immunofluorescence microscopy for NOTCH3 and the endothelial cell marker VWF. NOTCH3 expression is primarily restricted to the perivascular niche adjacent to endothelial cells in meningiomas with WHO grade 2 histology. SF number indicates meningioma identifier. Representative of n=10 WHO grade 2 meningiomas. WHO grade defined using histological criteria. Scale bar, 10µm.
Supplementary Table S18 from Biologic and Clinical Analysis of Childhood Gamma Delta T-ALL Identifies LMO2/STAG2 Rearrangements as Extremely High Risk
Authors: Kimura Shunsuke , Park Chun Shik , Montefiori Lindsey E. , Iacobucci Ilaria , Pölönen Petri , Gao Qingsong , Arnold Elizabeth D. , Attarbaschi Andishe , Brown Anthony , Buldini Barbara , Caldwell Kenneth J. , Chang Yunchao , Chen Chelsey , Cheng Cheng , Cheng Zhongshan , Choi John , Conter Valentino , Crews Kristine R. , de Groot-Kruseman Hester A. , Deguchi Takao , Eguchi Mariko , Muhle Hannah E. , Elitzur Sarah , Escherich Gabriele , Freeman Burgess B. , Gu Zhaohui , Han Katie , Horibe Keizo , Imamura Toshihiko , Jeha Sima , Kato Motohiro , Chiew Kean H. , Khan Tanya , Kicinski Michal , Köhrer Stefan , Kornblau Steven M. , Kotecha Rishi S. , Li Chi-Kong , Liu Yen-Chun , Locatelli Franco , Luger Selina M. , Paietta Elisabeth M. , Manabe Atsushi , Marquart Hanne V. , Masetti Riccardo , Maybury Mellissa , Mazilier Pauline , Meijerink Jules P.P. , Mitchell Sharnise , Miyamura Takako , Moore Andrew S. , Oshima Koichi , Pawinska-Wasikowska Katarzyna , Pieters Rob , Prater Mollie S. , Pruett-Miller Shondra M. , Pui Ching-Hon , Qu Chunxu , Reiterova Michaela , Reyes Noemi , Roberts Kathryn G. , Rowe Jacob M. , Sato Atsushi , Schmiegelow Kjeld , Schrappe Martin , Shen Shuhong , Skoczeń Szymon , Spinelli Orietta , Stary Jan , Svaton Michael , Takagi Masatoshi , Takita Junko , Tang Yanjing , Teachey David T. , Thomas Paul G. , Tomizawa Daisuke , Trka Jan , Varotto Elena , Vincent Tiffaney L. , Yang Jun J. , Yeoh Allen E.J. , Zhou Yinmei , Zimmermann Martin , Inaba Hiroto , Mullighan Charles G.
Published: October 2024

Common differentially expressed genes (adjusted P <0.01 ) in PF382-STAG2KO v. PF382-WT model and primary samples with STAG2/LMO2 v. other subtypes.
Supplementary Table S16 from Biologic and Clinical Analysis of Childhood Gamma Delta T-ALL Identifies LMO2/STAG2 Rearrangements as Extremely High Risk
Authors: Kimura Shunsuke , Park Chun Shik , Montefiori Lindsey E. , Iacobucci Ilaria , Pölönen Petri , Gao Qingsong , Arnold Elizabeth D. , Attarbaschi Andishe , Brown Anthony , Buldini Barbara , Caldwell Kenneth J. , Chang Yunchao , Chen Chelsey , Cheng Cheng , Cheng Zhongshan , Choi John , Conter Valentino , Crews Kristine R. , de Groot-Kruseman Hester A. , Deguchi Takao , Eguchi Mariko , Muhle Hannah E. , Elitzur Sarah , Escherich Gabriele , Freeman Burgess B. , Gu Zhaohui , Han Katie , Horibe Keizo , Imamura Toshihiko , Jeha Sima , Kato Motohiro , Chiew Kean H. , Khan Tanya , Kicinski Michal , Köhrer Stefan , Kornblau Steven M. , Kotecha Rishi S. , Li Chi-Kong , Liu Yen-Chun , Locatelli Franco , Luger Selina M. , Paietta Elisabeth M. , Manabe Atsushi , Marquart Hanne V. , Masetti Riccardo , Maybury Mellissa , Mazilier Pauline , Meijerink Jules P.P. , Mitchell Sharnise , Miyamura Takako , Moore Andrew S. , Oshima Koichi , Pawinska-Wasikowska Katarzyna , Pieters Rob , Prater Mollie S. , Pruett-Miller Shondra M. , Pui Ching-Hon , Qu Chunxu , Reiterova Michaela , Reyes Noemi , Roberts Kathryn G. , Rowe Jacob M. , Sato Atsushi , Schmiegelow Kjeld , Schrappe Martin , Shen Shuhong , Skoczeń Szymon , Spinelli Orietta , Stary Jan , Svaton Michael , Takagi Masatoshi , Takita Junko , Tang Yanjing , Teachey David T. , Thomas Paul G. , Tomizawa Daisuke , Trka Jan , Varotto Elena , Vincent Tiffaney L. , Yang Jun J. , Yeoh Allen E.J. , Zhou Yinmei , Zimmermann Martin , Inaba Hiroto , Mullighan Charles G.
Published: October 2024

Differentially expressed genes (adjusted P <0.01 ) between PF382-STAG2KO and PF382-WT.
Supplementary Table S12 from Biologic and Clinical Analysis of Childhood Gamma Delta T-ALL Identifies LMO2/STAG2 Rearrangements as Extremely High Risk
Authors: Kimura Shunsuke , Park Chun Shik , Montefiori Lindsey E. , Iacobucci Ilaria , Pölönen Petri , Gao Qingsong , Arnold Elizabeth D. , Attarbaschi Andishe , Brown Anthony , Buldini Barbara , Caldwell Kenneth J. , Chang Yunchao , Chen Chelsey , Cheng Cheng , Cheng Zhongshan , Choi John , Conter Valentino , Crews Kristine R. , de Groot-Kruseman Hester A. , Deguchi Takao , Eguchi Mariko , Muhle Hannah E. , Elitzur Sarah , Escherich Gabriele , Freeman Burgess B. , Gu Zhaohui , Han Katie , Horibe Keizo , Imamura Toshihiko , Jeha Sima , Kato Motohiro , Chiew Kean H. , Khan Tanya , Kicinski Michal , Köhrer Stefan , Kornblau Steven M. , Kotecha Rishi S. , Li Chi-Kong , Liu Yen-Chun , Locatelli Franco , Luger Selina M. , Paietta Elisabeth M. , Manabe Atsushi , Marquart Hanne V. , Masetti Riccardo , Maybury Mellissa , Mazilier Pauline , Meijerink Jules P.P. , Mitchell Sharnise , Miyamura Takako , Moore Andrew S. , Oshima Koichi , Pawinska-Wasikowska Katarzyna , Pieters Rob , Prater Mollie S. , Pruett-Miller Shondra M. , Pui Ching-Hon , Qu Chunxu , Reiterova Michaela , Reyes Noemi , Roberts Kathryn G. , Rowe Jacob M. , Sato Atsushi , Schmiegelow Kjeld , Schrappe Martin , Shen Shuhong , Skoczeń Szymon , Spinelli Orietta , Stary Jan , Svaton Michael , Takagi Masatoshi , Takita Junko , Tang Yanjing , Teachey David T. , Thomas Paul G. , Tomizawa Daisuke , Trka Jan , Varotto Elena , Vincent Tiffaney L. , Yang Jun J. , Yeoh Allen E.J. , Zhou Yinmei , Zimmermann Martin , Inaba Hiroto , Mullighan Charles G.
Published: October 2024

Differentially expressed genes (adjusted P <0.01 ) in STAG2/LMO2 subtype compared to other T-ALL cases.
Supplementary Table S10 from Biologic and Clinical Analysis of Childhood Gamma Delta T-ALL Identifies LMO2/STAG2 Rearrangements as Extremely High Risk
Authors: Kimura Shunsuke , Park Chun Shik , Montefiori Lindsey E. , Iacobucci Ilaria , Pölönen Petri , Gao Qingsong , Arnold Elizabeth D. , Attarbaschi Andishe , Brown Anthony , Buldini Barbara , Caldwell Kenneth J. , Chang Yunchao , Chen Chelsey , Cheng Cheng , Cheng Zhongshan , Choi John , Conter Valentino , Crews Kristine R. , de Groot-Kruseman Hester A. , Deguchi Takao , Eguchi Mariko , Muhle Hannah E. , Elitzur Sarah , Escherich Gabriele , Freeman Burgess B. , Gu Zhaohui , Han Katie , Horibe Keizo , Imamura Toshihiko , Jeha Sima , Kato Motohiro , Chiew Kean H. , Khan Tanya , Kicinski Michal , Köhrer Stefan , Kornblau Steven M. , Kotecha Rishi S. , Li Chi-Kong , Liu Yen-Chun , Locatelli Franco , Luger Selina M. , Paietta Elisabeth M. , Manabe Atsushi , Marquart Hanne V. , Masetti Riccardo , Maybury Mellissa , Mazilier Pauline , Meijerink Jules P.P. , Mitchell Sharnise , Miyamura Takako , Moore Andrew S. , Oshima Koichi , Pawinska-Wasikowska Katarzyna , Pieters Rob , Prater Mollie S. , Pruett-Miller Shondra M. , Pui Ching-Hon , Qu Chunxu , Reiterova Michaela , Reyes Noemi , Roberts Kathryn G. , Rowe Jacob M. , Sato Atsushi , Schmiegelow Kjeld , Schrappe Martin , Shen Shuhong , Skoczeń Szymon , Spinelli Orietta , Stary Jan , Svaton Michael , Takagi Masatoshi , Takita Junko , Tang Yanjing , Teachey David T. , Thomas Paul G. , Tomizawa Daisuke , Trka Jan , Varotto Elena , Vincent Tiffaney L. , Yang Jun J. , Yeoh Allen E.J. , Zhou Yinmei , Zimmermann Martin , Inaba Hiroto , Mullighan Charles G.
Published: October 2024

Differentially expressed genes (adjusted P <0.05) in three TLX3 subtypes (TLX3 γδ, TLX3 immature, TLX3 DP-like) compared to other T-ALL cases.
Supplementary Figure S9 from Biologic and Clinical Analysis of Childhood Gamma Delta T-ALL Identifies LMO2/STAG2 Rearrangements as Extremely High Risk
Authors: Kimura Shunsuke , Park Chun Shik , Montefiori Lindsey E. , Iacobucci Ilaria , Pölönen Petri , Gao Qingsong , Arnold Elizabeth D. , Attarbaschi Andishe , Brown Anthony , Buldini Barbara , Caldwell Kenneth J. , Chang Yunchao , Chen Chelsey , Cheng Cheng , Cheng Zhongshan , Choi John , Conter Valentino , Crews Kristine R. , de Groot-Kruseman Hester A. , Deguchi Takao , Eguchi Mariko , Muhle Hannah E. , Elitzur Sarah , Escherich Gabriele , Freeman Burgess B. , Gu Zhaohui , Han Katie , Horibe Keizo , Imamura Toshihiko , Jeha Sima , Kato Motohiro , Chiew Kean H. , Khan Tanya , Kicinski Michal , Köhrer Stefan , Kornblau Steven M. , Kotecha Rishi S. , Li Chi-Kong , Liu Yen-Chun , Locatelli Franco , Luger Selina M. , Paietta Elisabeth M. , Manabe Atsushi , Marquart Hanne V. , Masetti Riccardo , Maybury Mellissa , Mazilier Pauline , Meijerink Jules P.P. , Mitchell Sharnise , Miyamura Takako , Moore Andrew S. , Oshima Koichi , Pawinska-Wasikowska Katarzyna , Pieters Rob , Prater Mollie S. , Pruett-Miller Shondra M. , Pui Ching-Hon , Qu Chunxu , Reiterova Michaela , Reyes Noemi , Roberts Kathryn G. , Rowe Jacob M. , Sato Atsushi , Schmiegelow Kjeld , Schrappe Martin , Shen Shuhong , Skoczeń Szymon , Spinelli Orietta , Stary Jan , Svaton Michael , Takagi Masatoshi , Takita Junko , Tang Yanjing , Teachey David T. , Thomas Paul G. , Tomizawa Daisuke , Trka Jan , Varotto Elena , Vincent Tiffaney L. , Yang Jun J. , Yeoh Allen E.J. , Zhou Yinmei , Zimmermann Martin , Inaba Hiroto , Mullighan Charles G.
Published: October 2024

Coverage of ATAC seq, H3K27ac ChIP seq, and RNAseq at the LIN28B and ID1 locus.
Supplementary Table S5 from CRISPR Dependency Screens in Primary Hematopoietic Stem Cells Identify KDM3B as a Genotype-specific Vulnerability in IDH2- and TET2-mutant Cells
Authors: Waarts Michael R. , Mowla Shoron , Boileau Meaghan , Martinez Benitez Anthony R. , Sango Junya , Bagish Maya , Fernández-Maestre Inés , Shan Yufan , Eisman Shira E. , Park Young C. , Wereski Matthew , Csete Isabelle , O’Connor Kavi , Romero-Vega Angelica C. , Miles Linde A. , Xiao Wenbin , Wu Xiaodi , Koche Richard P. , Armstrong Scott A. , Shih Alan H. , Papapetrou Eirini P. , Butler Jason M. , Cai Sheng F. , Bowman Robert L. , Levine Ross L.
Published: October 2024

ATAC-seq results
Supplementary Figure S10 from Biologic and Clinical Analysis of Childhood Gamma Delta T-ALL Identifies LMO2/STAG2 Rearrangements as Extremely High Risk
Authors: Kimura Shunsuke , Park Chun Shik , Montefiori Lindsey E. , Iacobucci Ilaria , Pölönen Petri , Gao Qingsong , Arnold Elizabeth D. , Attarbaschi Andishe , Brown Anthony , Buldini Barbara , Caldwell Kenneth J. , Chang Yunchao , Chen Chelsey , Cheng Cheng , Cheng Zhongshan , Choi John , Conter Valentino , Crews Kristine R. , de Groot-Kruseman Hester A. , Deguchi Takao , Eguchi Mariko , Muhle Hannah E. , Elitzur Sarah , Escherich Gabriele , Freeman Burgess B. , Gu Zhaohui , Han Katie , Horibe Keizo , Imamura Toshihiko , Jeha Sima , Kato Motohiro , Chiew Kean H. , Khan Tanya , Kicinski Michal , Köhrer Stefan , Kornblau Steven M. , Kotecha Rishi S. , Li Chi-Kong , Liu Yen-Chun , Locatelli Franco , Luger Selina M. , Paietta Elisabeth M. , Manabe Atsushi , Marquart Hanne V. , Masetti Riccardo , Maybury Mellissa , Mazilier Pauline , Meijerink Jules P.P. , Mitchell Sharnise , Miyamura Takako , Moore Andrew S. , Oshima Koichi , Pawinska-Wasikowska Katarzyna , Pieters Rob , Prater Mollie S. , Pruett-Miller Shondra M. , Pui Ching-Hon , Qu Chunxu , Reiterova Michaela , Reyes Noemi , Roberts Kathryn G. , Rowe Jacob M. , Sato Atsushi , Schmiegelow Kjeld , Schrappe Martin , Shen Shuhong , Skoczeń Szymon , Spinelli Orietta , Stary Jan , Svaton Michael , Takagi Masatoshi , Takita Junko , Tang Yanjing , Teachey David T. , Thomas Paul G. , Tomizawa Daisuke , Trka Jan , Varotto Elena , Vincent Tiffaney L. , Yang Jun J. , Yeoh Allen E.J. , Zhou Yinmei , Zimmermann Martin , Inaba Hiroto , Mullighan Charles G.
Published: October 2024

Exploration of targets in STAG2/LMO2 T-ALL.
Supplementary Figure S1 from Biologic and Clinical Analysis of Childhood Gamma Delta T-ALL Identifies LMO2/STAG2 Rearrangements as Extremely High Risk
Authors: Kimura Shunsuke , Park Chun Shik , Montefiori Lindsey E. , Iacobucci Ilaria , Pölönen Petri , Gao Qingsong , Arnold Elizabeth D. , Attarbaschi Andishe , Brown Anthony , Buldini Barbara , Caldwell Kenneth J. , Chang Yunchao , Chen Chelsey , Cheng Cheng , Cheng Zhongshan , Choi John , Conter Valentino , Crews Kristine R. , de Groot-Kruseman Hester A. , Deguchi Takao , Eguchi Mariko , Muhle Hannah E. , Elitzur Sarah , Escherich Gabriele , Freeman Burgess B. , Gu Zhaohui , Han Katie , Horibe Keizo , Imamura Toshihiko , Jeha Sima , Kato Motohiro , Chiew Kean H. , Khan Tanya , Kicinski Michal , Köhrer Stefan , Kornblau Steven M. , Kotecha Rishi S. , Li Chi-Kong , Liu Yen-Chun , Locatelli Franco , Luger Selina M. , Paietta Elisabeth M. , Manabe Atsushi , Marquart Hanne V. , Masetti Riccardo , Maybury Mellissa , Mazilier Pauline , Meijerink Jules P.P. , Mitchell Sharnise , Miyamura Takako , Moore Andrew S. , Oshima Koichi , Pawinska-Wasikowska Katarzyna , Pieters Rob , Prater Mollie S. , Pruett-Miller Shondra M. , Pui Ching-Hon , Qu Chunxu , Reiterova Michaela , Reyes Noemi , Roberts Kathryn G. , Rowe Jacob M. , Sato Atsushi , Schmiegelow Kjeld , Schrappe Martin , Shen Shuhong , Skoczeń Szymon , Spinelli Orietta , Stary Jan , Svaton Michael , Takagi Masatoshi , Takita Junko , Tang Yanjing , Teachey David T. , Thomas Paul G. , Tomizawa Daisuke , Trka Jan , Varotto Elena , Vincent Tiffaney L. , Yang Jun J. , Yeoh Allen E.J. , Zhou Yinmei , Zimmermann Martin , Inaba Hiroto , Mullighan Charles G.
Published: October 2024

The clinical features of γδ T-ALL.
Supplementary Figure S4 from CRISPR Dependency Screens in Primary Hematopoietic Stem Cells Identify KDM3B as a Genotype-specific Vulnerability in IDH2- and TET2-mutant Cells
Authors: Waarts Michael R. , Mowla Shoron , Boileau Meaghan , Martinez Benitez Anthony R. , Sango Junya , Bagish Maya , Fernández-Maestre Inés , Shan Yufan , Eisman Shira E. , Park Young C. , Wereski Matthew , Csete Isabelle , O’Connor Kavi , Romero-Vega Angelica C. , Miles Linde A. , Xiao Wenbin , Wu Xiaodi , Koche Richard P. , Armstrong Scott A. , Shih Alan H. , Papapetrou Eirini P. , Butler Jason M. , Cai Sheng F. , Bowman Robert L. , Levine Ross L.
Published: October 2024

In vivo validation of Kdm3b dependency
Supplementary Table S2 from Oncogenic KRAS-Dependent Stromal Interleukin-33 Directs the Pancreatic Microenvironment to Promote Tumor Growth
Authors: Donahue Katelyn L. , Watkoske Hannah R. , Kadiyala Padma , Du Wenting , Brown Kristee , Scales Michael K. , Elhossiny Ahmed M. , Espinoza Carlos E. , Lasse Opsahl Emily L. , Griffith Brian D. , Wen Yukang , Sun Lei , Velez-Delgado Ashley , Renollet Nur M. , Morales Jacqueline , Nedzesky Nicholas M. , Baliira Rachael K. , Menjivar Rosa E. , Medina-Cabrera Paola I. , Rao Arvind , Allen Benjamin , Shi Jiaqi , Frankel Timothy L. , Carpenter Eileen S. , Bednar Filip , Zhang Yaqing , Pasca di Magliano Marina
Published: October 2024

Table S2. Primer sequences used in qRT-PCR
Supplementary Table S1 from Oncogenic KRAS-Dependent Stromal Interleukin-33 Directs the Pancreatic Microenvironment to Promote Tumor Growth
Authors: Donahue Katelyn L. , Watkoske Hannah R. , Kadiyala Padma , Du Wenting , Brown Kristee , Scales Michael K. , Elhossiny Ahmed M. , Espinoza Carlos E. , Lasse Opsahl Emily L. , Griffith Brian D. , Wen Yukang , Sun Lei , Velez-Delgado Ashley , Renollet Nur M. , Morales Jacqueline , Nedzesky Nicholas M. , Baliira Rachael K. , Menjivar Rosa E. , Medina-Cabrera Paola I. , Rao Arvind , Allen Benjamin , Shi Jiaqi , Frankel Timothy L. , Carpenter Eileen S. , Bednar Filip , Zhang Yaqing , Pasca di Magliano Marina
Published: October 2024

Table S1. Single cell RNA sequencing datasets.
Supplementary Figure S3 from Oncogenic KRAS-Dependent Stromal Interleukin-33 Directs the Pancreatic Microenvironment to Promote Tumor Growth
Authors: Donahue Katelyn L. , Watkoske Hannah R. , Kadiyala Padma , Du Wenting , Brown Kristee , Scales Michael K. , Elhossiny Ahmed M. , Espinoza Carlos E. , Lasse Opsahl Emily L. , Griffith Brian D. , Wen Yukang , Sun Lei , Velez-Delgado Ashley , Renollet Nur M. , Morales Jacqueline , Nedzesky Nicholas M. , Baliira Rachael K. , Menjivar Rosa E. , Medina-Cabrera Paola I. , Rao Arvind , Allen Benjamin , Shi Jiaqi , Frankel Timothy L. , Carpenter Eileen S. , Bednar Filip , Zhang Yaqing , Pasca di Magliano Marina
Published: October 2024

Figure S3: Pancreatic fibroblasts secrete IL-33 in response to oxidative stress.
Data from Iron-(Fe3+)-Dependent Reactivation of Telomerase Drives Colorectal Cancers
Authors: Shanmugam Raghuvaran , Majee Prativa , Shi Wei , Ozturk Mert B. , Vaiyapuri Thamil S. , Idzham Khaireen , Raju Anandhkumar , Shin Seung H. , Fidan Kerem , Low Joo-Leng , Chua Joelle Y.H. , Kong Yap C. , Qi Ong Y. , Tan Emile , Chok Aik Y. , Seow-En Isaac , Wee Ian , Macalinao Dominique C. , Chong Dawn Q. , Chang Hong Y. , Lee Fiona , Leow Wei Q. , Murata-Hori Maki , Xiaoqian Zhang , Shumei Chia , Tan Chris S.H. , Dasgupta Ramanuj , Tan Iain B. , Tergaonkar Vinay
Published: October 2024

Abstract
Over-consumption of iron-rich red meat and hereditary or genetic iron overload are associated with an increased risk of colorectal carcinogenesis, yet the mechanistic basis of how metal-mediated signaling leads to oncogenesis remains enigmatic. Using fresh colorectal cancer samples we identify Pirin, an iron sensor, that overcomes a rate-limiting step in oncogenesis, by reactivating the dormant human telomerase reverse transcriptase (hTERT) subunit of the telomerase holoenzyme in an iron-(Fe3+)-dependent manner and thereby drives colorectal cancers. Chemical genetic screens combined with isothermal dose-response fingerprinting and mass spectrometry identified a small molecule SP2509 that specifically inhibits Pirin-mediated hTERT reactivation in colorectal cancers by competing with iron-(Fe3+) binding. Our findings, first to document how metal ions reactivate telomerase, provide a molecular mechanism for the well-known association between red meat and increased incidence of colorectal cancers. Small molecules like SP2509 represent a novel modality to target telomerase that acts as a driver of 90% of human cancers and is yet to be targeted in clinic.

Significance: We show how iron-(Fe3+) in collusion with genetic factors reactivates telomerase, providing a molecular mechanism for the association between iron overload and increased incidence of colorectal cancers. Although no enzymatic inhibitors of telomerase have entered the clinic, we identify SP2509, a small molecule that targets telomerase reactivation and function in colorectal cancers.
Data from Perivascular NOTCH3+ Stem Cells Drive Meningioma Tumorigenesis and Resistance to Radiotherapy
Authors: Choudhury Abrar , Cady Martha A. , Lucas Calixto-Hope G. , Najem Hinda , Phillips Joanna J. , Palikuqi Brisa , Zakimi Naomi , Joseph Tara , Birrueta Janeth O. , Chen William C. , Oberheim Bush Nancy A. , Hervey-Jumper Shawn L. , Klein Ophir D. , Toedebusch Christine M. , Horbinski Craig M. , Magill Stephen T. , Bhaduri Aparna , Perry Arie , Dickinson Peter J. , Heimberger Amy B. , Ashworth Alan , Crouch Elizabeth E. , Raleigh David R.
Published: October 2024

Abstract
Meningiomas are the most common primary intracranial tumors. Treatments for patients with meningiomas are limited to surgery and radiotherapy, and systemic therapies remain ineffective or experimental. Resistance to radiotherapy is common in high-grade meningiomas and the cell types and signaling mechanisms that drive meningioma tumorigenesis and resistance to radiotherapy are incompletely understood. Here, we report that NOTCH3 drives meningioma tumorigenesis and resistance to radiotherapy and find that perivascular NOTCH3+ stem cells are conserved across meningiomas from humans, dogs, and mice. Integrating single-cell transcriptomics with lineage tracing and imaging approaches in genetically engineered mouse models and xenografts, we show NOTCH3 drives tumor-initiating capacity, cell proliferation, angiogenesis, and resistance to radiotherapy to increase meningioma growth and reduce survival. To translate these findings to patients, we show that an antibody stabilizing the extracellular negative regulatory region of NOTCH3 blocks meningioma tumorigenesis and sensitizes meningiomas to radiotherapy, reducing tumor growth and improving survival.

Significance: There are no effective systemic therapies to treat meningiomas, and meningioma stem cells are poorly understood. Here, we report perivascular NOTCH3+ stem cells to drive meningioma tumorigenesis and resistance to radiotherapy. Our results identify a conserved mechanism and a therapeutic vulnerability to treat meningiomas that are resistant to standard interventions.
Supplementary Figure S8 from Health Disparities among Patients with Cancer Who Received Molecular Testing for Biomarker-Directed Therapy
Authors: Heath Elisabeth , Dyson Gregory , Ribeiro Jennifer R. , Xiu Joanne , Poorman Kelsey , Mamdani Hirva , Al-Hallak Mohammed N. , Shields Anthony F. , Elayoubi Jailan A. , Winer Ira S. , Cackowski Frank C. , Puckrein Gary A. , Lopes Gilberto de Lima , Jones Nathaniel , Hauke Ralph J. , Kareff Samuel A. , Radovich Milan , Sledge George W. , Spetzler David B. , Vidal Gregory A. , Marshall John L.
Published: October 2024

Comparison of overall survival among chemotherapy-treated TP53-mutated and TP53-wild type patients in Caris CODEai clinico-genomic database
Supplementary Figure S7 from Health Disparities among Patients with Cancer Who Received Molecular Testing for Biomarker-Directed Therapy
Authors: Heath Elisabeth , Dyson Gregory , Ribeiro Jennifer R. , Xiu Joanne , Poorman Kelsey , Mamdani Hirva , Al-Hallak Mohammed N. , Shields Anthony F. , Elayoubi Jailan A. , Winer Ira S. , Cackowski Frank C. , Puckrein Gary A. , Lopes Gilberto de Lima , Jones Nathaniel , Hauke Ralph J. , Kareff Samuel A. , Radovich Milan , Sledge George W. , Spetzler David B. , Vidal Gregory A. , Marshall John L.
Published: October 2024

Gene mutations according to poverty level and RUCA codes
Data from Health Disparities among Patients with Cancer Who Received Molecular Testing for Biomarker-Directed Therapy
Authors: Heath Elisabeth , Dyson Gregory , Ribeiro Jennifer R. , Xiu Joanne , Poorman Kelsey , Mamdani Hirva , Al-Hallak Mohammed N. , Shields Anthony F. , Elayoubi Jailan A. , Winer Ira S. , Cackowski Frank C. , Puckrein Gary A. , Lopes Gilberto de Lima , Jones Nathaniel , Hauke Ralph J. , Kareff Samuel A. , Radovich Milan , Sledge George W. , Spetzler David B. , Vidal Gregory A. , Marshall John L.
Published: October 2024

Abstract
Health disparities present a barrier to successful oncology treatment. The potential for precision oncology to reduce health disparities has not previously been analyzed. We performed a retrospective analysis of 12,627 patients from six major cancer centers whose tumors underwent molecular testing at Caris Life Sciences between 2010 and 2020. Kaplan–Meier and Cox regression were used to describe and analyze overall survival. The molecular and demographic features of the cohort were analyzed by χ2 and ANOVA tests. Black patients composed 25% of the cohort and White patients 63%. Among this molecularly-tested cohort, there were minimal outcome differences based on race, geographic location, or poverty level. When analyzing the interaction of age, race, and sex, racial-based disparities were noted primarily for young non-White women in the study cohort but were more pronounced for men and women of all ages in the broader patient population within the Surveillance, Epidemiology, and End Results database. Mutations in five genes—APC, EGFR, STK11, TP53, and KRAS—were found to affect overall survival among our cohort, and their prevalence varied by race in specific tumor types. Real-world outcomes data in mutation-defined cohorts also provided additional context to previously reported therapeutic response trends. Our study shows that patients who undergo molecular testing display reduced racial health disparities compared with the general population, whereas persistent racial disparities are influenced by age and sex. Genomic-driven racial disparities should be examined at a tumor lineage-specific level. Increased access to molecular testing for all eligible patients may play a role in improving health equity.

Significance: This study is the largest of its kind to analyze health disparities and genomic features among a diverse multiinstitutional cohort of patients who underwent molecular testing. Continuing to increase awareness of and access to molecular testing approaches may help to reduce cancer health disparities and improve outcomes for all patients.
Tumor NOS2 and COX2 Spatial Juxtaposition with CD8+ T Cells Promote Metastatic and Cancer Stem Cell Niches that Lead to Poor Outcome in ER− Breast Cancer
Authors: Ridnour Lisa A. , Heinz William F. , Cheng Robert Y.S. , Wink Adelaide L. , Kedei Noemi , Pore Milind , Imtiaz Fatima , Femino Elise L. , Gonzalez Ana L. , Coutinho Leandro L. , Moffat Rebecca L. , Butcher Donna , Edmondson Elijah F. , Li Xiaoxian , Rangel Maria Cristina , Kinders Robert J. , Rittscher Jens , Lipkowitz Stanley , Wong Stephen T.C. , Anderson Stephen K. , McVicar Daniel W. , Glynn Sharon A. , Billiar Timothy R. , Chang Jenny C. , Hewitt Stephen M. , Ambs Stefan , Lockett Stephen J. , Wink David A.
Published: October 2024

Estrogen receptor–negative breast cancer is an aggressive subtype with limited therapeutic options. Elevated nitric oxide synthase 2 (NOS2) and COX2 mediate immunosuppression and poor survival in these tumors. Therefore, the influence of tumor NOS2/COX2 on immune architecture was examined in 16 African American and five Caucasian estrogen receptor–negative tumors. Elevated tumor NOS2/COX2 limited CD8+ T-cell infiltration at 5-year survival. Distinct CD8+/−NOS2+/−COX2+/− phenotypes defining metastatic and cancer stem cell niches and immune desert regions were identified. These results were supported by an unbiased, unsupervised nonlinear dimensionality reduction technique, Uniform Manifold Approximation and Projection for Dimension Reduction, incorporating spatial relations between cells and validated in a separate gene expression cohort using NOS2/CD8 and COX2/CD8 ratios. Additionally, elongated tumor cells were specifically in CD8−NOS2+COX2+ regions, suggesting metastatic hot spots. This work demonstrates predictive power of spatial analyses of CD8/NOS2/COX2 architecture and supports the use of clinically available NOS2/COX2 inhibitors for improved survival in patients with these aggressive tumors.

Significance:

This work identifies CD8−NOS2+COX2+ and CD8−NOS2−COX2+ unique cellular neighborhoods that drive the tumor immune spatial architecture of CD8+ T cells predictive of clinical outcome and can be targeted with clinically available NOS inhibitors and NSAIDs.
Next-Generation Integrated Sequencing Identifies Poor Prognostic Factors in Patients with MYD88-Mutated Chronic Lymphocytic Leukemia in Taiwan
Authors: Huang Ying-Jung , Lim Jing Quan , Hsu Jacob Shujui , Kuo Ming-Chung , Wang Po-Nan , Kao Hsiao-Wen , Wu Jin-Hou , Chen Chiu-Chen , Tsai Shih-Feng , Ong Choon Kiat , Shih Lee-Yung
Published: October 2024

Introduction: Chronic lymphocytic leukemia (CLL) is the most common type of leukemia in the Western countries and is very rare in Asia. Methods: Peripheral blood or bone marrow mononuclear cells obtained at initial diagnosis from 215 patients with CLL were analyzed by using next-generation sequencing to investigate the ethnic differences in genetic abnormalities. Results: Whole-genome sequencing and whole-exome sequencing analyses on 30 cases showed that 9 genes, including IGLL5, MYD88, TCHH, DSCAM, AXDND1, BICRA, KMT2D, MYT1L, and RBM43, were more frequently mutated in our Taiwanese cohort compared with those of the Western cohorts. IGLL5, MYD88, and KMT2D genes were further analyzed by targeted sequencing in another 185 CLL patients, unraveling frequencies of 29.3%, 20.9%, and 15.0%, respectively. The most frequent positional mutation of MYD88 was V217F (26/45, 57.8%), followed by L265P (9/45, 20.0%). MYD88 mutations were significantly associated with IGLL5 mutations (p = 0.0004), mutated IGHV (p < 0.0001) and 13q deletion (p = 0.0164). CLL patients with co-occurrence of MYD88 mutations with KMT2D or/and IGLL5 mutations were associated with a significantly inferior survival compared to those with MYD88 mutation alone (not reached vs. 131.8 months, p = 0.007). In multivariate analysis, MYD88 mutation without KMT2D or IGLL5 mutations was an independently favorable predictor. Conclusions: IGLL5, MYD88, and KMT2D mutations were enriched in Taiwanese CLL, and co-occurrence of MYD88 mutations with KMT2D or/and IGLL5 mutations was associated with a poorer prognosis.
The future of artificial intelligence-driven robotics: applications and implications
Authors: Sutikno Tole
Published: October 2024

Artificial intelligence (AI)-driven robotics is a rapidly evolving field that is transforming various industries, including healthcare, manufacturing, transportation, logistics, security, retail, agri-food, and construction. The integration of artificial intelligence algorithms and machine learning techniques has propelled robotics beyond mere automation, enabling machines to modify, alter, adjust, learn, and interact with the world in ways previously deemed science fiction. The relentless pursuit of creating intelligent robotic systems has led to a symbiotic relationship between human inventiveness and AI, with AI-driven autonomous cars, drones, and robots transforming transportation, healthcare, and exploration. It offers flexibility and learning capabilities, transforming the way machines interact with humans. The integration of AI and robotics marks a transformative era in which machines become companions and cognitive extensions of human capabilities. In the future, we expect AI-driven robotics to bring significant changes to employment and societal well-being. However, the development of AI-driven robotics, which is the integration of AI and robotics, faces numerous challenges, including ethical concerns, legal issues, regulations, societal implications, and job market impacts for the proliferation of intelligent machines. Furthermore, it also presents challenges in terms of technical complexities in its development.
Experimental results on position and path control of an automated guided vehicle using fixed camera at ceiling and color markers
Authors: Pungle Ramesh , Andhare Atul , Pungle Durva
Published: October 2024

This article presents the results of experiments on path planning and control of automated guided vehicles (AGV) using single, fixed ceiling mounted, monocular cameras and colored markers. The camera employed in the system serves as both a sensor and controller. Initially, the working environment is structured using colored markers for given applications. For every new setup, structuring the environment is essential. The image processing algorithm identifies the colored markers and their positions, which are then utilized for path planning and segmentation. The actuation time required to transverse each segment is calculated and then AGV is actuated accordingly. A transformation or inverse mapping matrix (M), predetermined, is employed for calculating world coordinates from given image coordinates. Path planning and AGV control are across various paths, both with and without static obstacles, in real-time applications. The colored marker detection and recognition accuracy for the given setup have been found cent percentage while the AGV reaches the goal point with an error margin of around 3.9% on straight paths, both with and without obstacles.
Unveiling the Understudied: a Look at Phylogenetic Research on Mollusks in Brazil
Authors: Dornellas Ana Paula , Barroso Cristiane Xerez , Marques Rodrigo Cesar
Published: October 2024

Phylogenies are essential for organizing knowledge on biological diversity, structuring classifications, and providing insights into evolutionary events. Worldwide phylogenetic studies on mollusks emerged in the late 1980s, while in Brazil, phylogenetic analyses of mollusks started around 2000. For unknown reasons, phylogenies of lower hierarchical taxa, such as subfamilies, tribes, and genera, are not common in Malacology. Here, we analyzed articles published by malacologists and evaluated the proportion of alpha taxonomic reviews compared to phylogenetic systematic studies conducted at Brazilian institutions and worldwide. Our searches were performed using the Web of Science and Lattes Platform databases for Brazilian studies. We found 537 systematic/taxonomic papers, of which 11% included an explicit phylogenetic analysis. Additionally, 31 of these studies described a new genus or higher taxon, but only seven included phylogenetic inferences to support taxonomic decisions. The remaining 24 studies relied on alpha taxonomic classification, focusing primarily on conchological features of group-related units. We observed that publications worldwide describing higher taxa based on phylogenetic systematics began in the 1970s, with their proportion increasing over the years. The few phylogenetic analyses published after Willi Hennig’s cladistics suggest that malacologists at Brazilian institutions have not established a tradition of Phylogenetic Systematics for studies on molluscan diversity.
First record of Juan Fernández Petrel Pterodroma externa (Salvin, 1875) in Brazil
Authors: Barbosa Carla Beatriz , Sánchez-Sarmiento Angélica María , Ferioli Raquel Beneton , Leonardi Simone Baratto , Britto Mariana de Karam e , Alvarenga Fernando Siqueira , Nascimento Claudia Carvalho do , Serafini Patrícia Pereira , Kampel Milton , Gallo-Neto Hugo
Published: October 2024

We document the first recorded occurrence of a Juan Fernández Petrel Pterodroma externa specimen in São Paulo State, South Atlantic, Brazil. This finding improves our understanding of the distribution of this pelagic species, which is rarely observed along the coast. It also suggests that unusual oceanographic conditions may disorient seabirds, causing them to appear in atypical areas.
A gênese dos processos constitutivos da identidade latino-americana
Authors: Santos Fernando de Oliveira dos
Published: October 2024

Resenha do Livro: ALTAMIRANO, Carlos. A invenção de nossa América: Obsessões, Narrativas e Debates sobre a Identidade da América Latina. São Paulo: Editora da Universidade de São Paulo, 2023, p. 224.