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Long-term Remission After Cilta-Cel in Multiple Myeloma Is Linked to Diverse T Cells and Low Myeloid Suppression Open

Júnia Vieira dos Santos, David T. Melnekoff, Adolfo Aleman, Tarek H. Mouhieddine, Rocío Montes de , et al. · 2025

Alternative Promoters Drive Transcriptomic Reprogramming and Prognostic Stratification in TNBC Open

Simran Jit, Kirti Jain, Lovedeep Dhingra, Rahul Kumar, Sherry Bhalla · 2025

Alternative Promoters Drive Transcriptomic Reprogramming and Prognostic Stratification in TNBC Open

Simran Jit, Kirti Jain, Lovedeep Dhingra, Rahul Kumar, Sherry Bhalla · 2025

Transcriptional regulation frequently involves alternative promoters, yet the distinct regulatory mechanisms governing alternative versus reference promoters remain poorly understood in Triple-Negative Breast Cancer (TNBC), a high-risk bre…

Predictors of response to venetoclax and therapeutic potential of CDK7 inhibition in multiple myeloma Open

Rudra Prasad Dutta, Santiago Thibaud, Violetta V. Leshchenko, Meghana Ram, David T. Melnekoff , et al. · 2024

Data from A Critical Role for Fas-Mediated Off-Target Tumor Killing in T-cell Immunotherapy Open

Ranjan Upadhyay, Jonathan Boiarsky, Gvantsa Pantsulaia, Judit Svensson‐Arvelund, Matthew Lin , et al. · 2023

T cell–based therapies have induced cancer remissions, though most tumors ultimately progress, reflecting inherent or acquired resistance including antigen escape. Better understanding of how T cells eliminate tumors will help decipher res…

Supplementary Figures from A Critical Role for Fas-Mediated Off-Target Tumor Killing in T-cell Immunotherapy Open

Ranjan Upadhyay, Jonathan Boiarsky, Gvantsa Pantsulaia, Judit Svensson‐Arvelund, Matthew Lin , et al. · 2023

Supplementary Figures S1-S5

Supplementary Table S1 from A Critical Role for Fas-Mediated Off-Target Tumor Killing in T-cell Immunotherapy Open

Ranjan Upadhyay, Jonathan Boiarsky, Gvantsa Pantsulaia, Judit Svensson‐Arvelund, Matthew Lin , et al. · 2023

Supplementary Table S1

Supplementary Figures from A Critical Role for Fas-Mediated Off-Target Tumor Killing in T-cell Immunotherapy Open

Ranjan Upadhyay, Jonathan Boiarsky, Gvantsa Pantsulaia, Judit Svensson‐Arvelund, Matthew Lin , et al. · 2023

Supplementary Figures S1-S5

Supplementary Table S1 from A Critical Role for Fas-Mediated Off-Target Tumor Killing in T-cell Immunotherapy Open

Ranjan Upadhyay, Jonathan Boiarsky, Gvantsa Pantsulaia, Judit Svensson‐Arvelund, Matthew Lin , et al. · 2023

Supplementary Table S1

Data from A Critical Role for Fas-Mediated Off-Target Tumor Killing in T-cell Immunotherapy Open

Ranjan Upadhyay, Jonathan Boiarsky, Gvantsa Pantsulaia, Judit Svensson‐Arvelund, Matthew Lin , et al. · 2023

T cell–based therapies have induced cancer remissions, though most tumors ultimately progress, reflecting inherent or acquired resistance including antigen escape. Better understanding of how T cells eliminate tumors will help decipher res…

A Three-Gene Signature Predicts Response to Selinexor in Multiple Myeloma Open

Paula Restrepo, Sherry Bhalla, Yogita Ghodke‐Puranik, Adolfo Aleman, Violetta V. Leshchenko , et al. · 2022

PURPOSE Selinexor is the first selective inhibitor of nuclear export to be approved for the treatment of relapsed or refractory multiple myeloma (MM). Currently, there are no known genomic biomarkers or assays to help select MM patients at…

A three gene signature predicts response to selinexor in multiple myeloma Open

Paula Restrepo, Sherry Bhalla, Adolfo Aleman, Violetta V. Leshchenko, David T. Melnekoff , et al. · 2022

Selinexor is the first selective inhibitor of nuclear export (SINE) to be approved for treatment of relapsed or refractory multiple myeloma (MM). There are currently no known genomic biomarkers or assays to help select MM patients at highe…

Lessons learned in virulence factor identification and data management from a hackathon on microbial virulence Open

Brett E Pickett, Ryan Connor, Tamiru Berhanu-Denka, Sherry Bhalla, Vyacheslav Brover , et al. · 2022

Virulence is a complex mix of microbial traits and host susceptibility that could ultimately lead to disease. The increased prevalence of multidrug resistant infections complicates treatment options, augmenting the need for developing robu…

Patient similarity network of newly diagnosed multiple myeloma identifies patient subgroups with distinct genetic features and clinical implications Open

Sherry Bhalla, David T. Melnekoff, Adolfo Aleman, Violetta V. Leshchenko, Paula Restrepo , et al. · 2021

Integrative multiomics analysis of myeloma identifies 12 disease subtypes defined by specific patterns of genetic alterations.

Optimal Supportive Care With Selinexor Improves Outcomes in Patients With Relapsed/Refractory Multiple Myeloma Open

Ajai Chari, Erika Florendo, Ines Stefania Mancia, Hearn Cho, Deepu Madduri , et al. · 2021

These results suggests that in addition to more frequent dose reductions, prompter and more aggressive supportive care may have contributed to the low discontinuation rate, longer duration therapy, and greater efficacy rates observed in th…

FermFooDb: A database of bioactive peptides derived from fermented foods Open

Anita Chaudhary, Sherry Bhalla, Sumeet Patiyal, Gajendra P. S. Raghava, Girish Sahni · 2021

Crowdsourcing digital health measures to predict Parkinson’s disease severity: the Parkinson’s Disease Digital Biomarker DREAM Challenge Open

Solveig K. Sieberts, Jennifer Schaff, Marlena Duda, Bálint Pataki, Ming Sun , et al. · 2021

A Critical Role for Fas-Mediated Off-Target Tumor Killing in T-cell Immunotherapy Open

Ranjan Upadhyay, Jonathan Boiarsky, Gvantsa Pantsulaia, Judit Svensson‐Arvelund, Matthew Lin , et al. · 2021

T cell–based therapies have induced cancer remissions, though most tumors ultimately progress, reflecting inherent or acquired resistance including antigen escape. Better understanding of how T cells eliminate tumors will help decipher res…

90 Potentiation of T-cell mediated tumor killing via modulation of the fas/fasL pathway Open

Jonathan Boiarsky, Ranjan Upadhyay, Judit Svensson‐Arvelund, Aleksandra Wroblewska, Sherry Bhalla , et al. · 2020

Background T-cell based immunotherapies such as CAR-T, bispecific mAb, transgenic T cells and checkpoint blockade have profound efficacy in multiple tumor types but share a common limitation – target antigen (Ag) escape.^{1 2} One …

Patient Similarity Network of Newly Diagnosed Multiple Myeloma Identifies Patient Sub-groups with Distinct Genetic Features and Clinical Implications Open

Sherry Bhalla, David T. Melnekoff, Jonathan J. Keats, Kenan Onel, Jeffrey R. Sawyer , et al. · 2020

The remarkable genetic heterogeneity of Multiple Myeloma poses a significant challenge for proper prognostication and clinical management of patients. Here, we introduce MM-PSN, the first multi-omics Patient Similarity Network of Myeloma. …

Analysis and prediction of cholangiocarcinoma from transcriptomic profile of patients Open

Harpreet Kaur, Sherry Bhalla, Divya Garg, Nikhil Mehta, Gajendra P. S. Raghava · 2020

Community Assessment of the Predictability of Cancer Protein and Phosphoprotein Levels from Genomics and Transcriptomics Open

Mi Yang, Francesca Petralia, Zhi Li, Hongyang Li, Weiping Ma , et al. · 2020

Cancer is driven by genomic alterations, but the processes causing this disease are largely performed by proteins. However, proteins are harder and more expensive to measure than genes and transcripts. To catalyze developments of methods t…

Expression based biomarkers and models to classify early and late-stage samples of Papillary Thyroid Carcinoma Open

Sherry Bhalla, Harpreet Kaur, Rishemjit Kaur, Suresh Sharma, Gajendra P. S. Raghava · 2020

We identified 36 important RNA transcripts whose expression segregated early and late-stage samples with reasonable accuracy. The models and dataset used in this study are available from the webserver CancerTSP (http://webs.iiitd.edu.in/ra…

Computing Skin Cutaneous Melanoma Outcome From the HLA-Alleles and Clinical Characteristics Open

Anjali Dhall, Sumeet Patiyal, Harpreet Kaur, Sherry Bhalla, Chakit Arora , et al. · 2020

Human leukocyte antigen (HLA) are essential components of the immune system that stimulate immune cells to provide protection and defense against cancer. Thousands of HLA alleles have been reported in the literature, but only a specific se…

Processed_Datasets.zip Open

Gajendra P. S. Raghava, Sherry Bhalla, Harpreet Kaur, Rishemjit Kaur, Suresh Sharma · 2020

Processed Datasets associated with the study entitled "Expression based biomarkers and models to classify early and late stage samples of Papillary Thyroid Carcinoma"

CancerLivER: a database of liver cancer gene expression resources and biomarkers Open

Harpreet Kaur, Sherry Bhalla, Dilraj Kaur, Gajendra P. S. Raghava · 2020

Liver cancer is the fourth major lethal malignancy worldwide. To understand the development and progression of liver cancer, biomedical research generated a tremendous amount of transcriptomics and disease-specific biomarker data. However,…

Computing Skin Cutaneous Melanoma Outcome from the HLA-alleles and Clinical Characteristics Open

Anjali Dhall, Sumeet Patiyal, Harpreet Kaur, Sherry Bhalla, Chakit Arora , et al. · 2019

Human Leukocyte Antigen (HLA) is an essential component of the immune system which stimulates immune cells to provide protection and defense against cancer. More than thousands of HLA alleles have been reported in the literature; but, only…

GPSRdocker: A Docker-based Resource for Genomics, Proteomics and Systems biology Open

Piyush Agrawal, Rajesh Kumar, Salman Sadullah Usmani, Anjali Dhall, Sumeet Patiyal , et al. · 2019

Background In past number of web-based resources has been developed in the field of Bioinformatics. These resources are heavily used by scientific community to provide solution for challenges faced by experimental researchers particularly …

Prediction and Analysis of Skin Cancer Progression using Genomics Profiles of Patients Open

Sherry Bhalla, Harpreet Kaur, Anjali Dhall, Gajendra P. S. Raghava · 2019

The metastatic Skin Cutaneous Melanoma (SKCM) has been associated with diminished survival rates and high mortality rates worldwide. Thus, segregating metastatic melanoma from the primary tumors is crucial to employ an optimal therapeutic …

Classification of early and late stage liver hepatocellular carcinoma patients from their genomics and epigenomics profiles Open

Harpreet Kaur, Sherry Bhalla, Gajendra P. S. Raghava · 2019

Our study reveals stage prediction of LIHC samples with high accuracy based on the genomics and epigenomics profiling is a challenging task in comparison to the classification of cancerous and normal samples. Comprehensive analysis, differ…

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