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Book ; Online ; E-Book: Cell-derived Matrices / Part B /

Caballero, David / Kundu, Subhas C. / Reis, Rui L.

(Methods in cell biology ; Volume 157)

2020

Author's details	edited by David Caballero, Subhas C. Kundu, Rui L. Reis
Series title	Methods in cell biology ; Volume 157
Keywords	Extracellular matrix
Subject code	572.6
Language	English
Size	1 online resource (xv, 247 pages) :, illustrations (color, black and white)
Publisher	Academic Press
Publishing place	Cambridge, MA
Document type	Book ; Online ; E-Book
Remark	Zugriff für angemeldete ZB MED-Nutzerinnen und -Nutzer
ISBN	0-12-820174-6 ; 978-0-12-820174-9
Database	ZB MED Catalogue: Medicine, Health, Nutrition, Environment, Agriculture

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Article ; Online: Vitamin B

Mosca, Pauline / Robert, Aurélie / Alberto, Jean-Marc / Meyer, Marie / Kundu, Urbi / Hergalant, Sébastien / Umoret, Rémy / Coelho, David / Guéant, Jean-Louis / Leheup, Bruno / Dreumont, Natacha

Molecular nutrition & food research

2021 Volume 65, Issue 17, Page(s) e2100206

Abstract: Introduction: Vitamin B: Methods and results: This study observes two cellular models deficient ... in vitamin B: Conclusion: Our data show that m6A methylation in mRNA could be one of the contributing ... mechanisms that underlie the neurological manifestations produced by vitamin B ...

Abstract	Introduction: Vitamin B Methods and results: This study observes two cellular models deficient in vitamin B Conclusion: Our data show that m6A methylation in mRNA could be one of the contributing mechanisms that underlie the neurological manifestations produced by vitamin B
MeSH term(s)	Adenosine/analogs & derivatives ; Adenosine/genetics ; Animals ; Fibroblasts ; Gene Expression Regulation ; Methylation ; Mice, Knockout ; Protein Kinase C-alpha/genetics ; Protein Kinase C-alpha/metabolism ; RNA, Messenger/metabolism ; Receptors, Cell Surface/genetics ; Recombinant Fusion Proteins/genetics ; Recombinant Fusion Proteins/metabolism ; S-Adenosylmethionine/metabolism ; Transcobalamins/genetics ; Transcobalamins/metabolism ; Vitamin B 12 Deficiency/genetics ; Vitamin B 12 Deficiency/metabolism ; Vitamin B 12 Deficiency/physiopathology ; Mice
Chemical Substances	RNA, Messenger ; Receptors, Cell Surface ; Recombinant Fusion Proteins ; Transcobalamins ; transcobalamin receptor ; S-Adenosylmethionine (7LP2MPO46S) ; N-methyladenosine (CLE6G00625) ; Prkca protein, mouse (EC 2.7.11.13) ; Protein Kinase C-alpha (EC 2.7.11.13) ; Adenosine (K72T3FS567)
Language	English
Publishing date	2021-07-29
Publishing country	Germany
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2160372-8
ISSN	1613-4133 ; 1613-4125
ISSN (online)	1613-4133
ISSN	1613-4125
DOI	10.1002/mnfr.202100206
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Article ; Online: Lipoate protein ligase B primarily recognizes the C

Dhembla, Chetna / Yadav, Usha / Kundu, Suman / Sundd, Monica

The Journal of biological chemistry

2022 Volume 298, Issue 8, Page(s) 102203

Abstract: ... of lipoate protein ligase B (LipB) and lipoyl synthase (LipA). LipB takes up the octanoyl chain from C ...

Abstract	Lipoic acid is a sulfur-containing cofactor indispensable for the function of several metabolic enzymes. In microorganisms, lipoic acid can be salvaged from the surroundings by lipoate protein ligase A (LplA), an ATP-dependent enzyme. Alternatively, it can be synthesized by the sequential actions of lipoate protein ligase B (LipB) and lipoyl synthase (LipA). LipB takes up the octanoyl chain from C
MeSH term(s)	Acyl Carrier Protein/metabolism ; Acyltransferases/chemistry ; Acyltransferases/metabolism ; Coenzyme A/metabolism ; Escherichia coli/chemistry ; Escherichia coli/enzymology ; Escherichia coli Proteins/chemistry ; Escherichia coli Proteins/metabolism ; Ligases/metabolism ; Pantetheine/analogs & derivatives ; Thioctic Acid/metabolism
Chemical Substances	Acyl Carrier Protein ; Escherichia coli Proteins ; Pantetheine (496-65-1) ; Thioctic Acid (73Y7P0K73Y) ; Acyltransferases (EC 2.3.-) ; LipB protein, E coli (EC 2.3.1.-) ; Ligases (EC 6.-) ; 4'-phosphopantetheine (NM39WU8OFM) ; Coenzyme A (SAA04E81UX)
Language	English
Publishing date	2022-06-25
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2997-x
ISSN	1083-351X ; 0021-9258
ISSN (online)	1083-351X
ISSN	0021-9258
DOI	10.1016/j.jbc.2022.102203
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Article ; Online: Human Cyclophilin B Nuclease Activity Revealed via Nucleic Acid-Based Electrochemical Sensors.

Clark, Vincent / Waters, Kelly / Orsburn, Ben / Bumpus, Namandjé N / Kundu, Nandini / Sczepanski, Jonathan T / Ray, Partha / Arroyo-Currás, Netzahualcóyotl

Angewandte Chemie (International ed. in English)

2022 Volume 61, Issue 45, Page(s) e202211292

Abstract: Human cyclophilin B (CypB) is oversecreted by pancreatic cancer cells, making it a potential ...

Abstract	Human cyclophilin B (CypB) is oversecreted by pancreatic cancer cells, making it a potential biomarker for early-stage disease diagnosis. Our group is motivated to develop aptamer-based assays to measure CypB levels in biofluids. However, human cyclophilins have been postulated to have collateral nuclease activity, which could impede the use of aptamers for CypB detection. To establish if CypB can hydrolyze electrode-bound nucleic acids, we used ultrasensitive electrochemical sensors to measure CypB's hydrolytic activity. Our sensors use ssDNA and dsDNA in the biologically predominant d-DNA form, and in the nuclease resistant l-DNA form. Challenging such sensors with CypB and control proteins, we unequivocally demonstrate that CypB can cleave nucleic acids. To our knowledge, this is the first study to use electrochemical biosensors to reveal the hydrolytic activity of a protein that is not known to be a nuclease. Future development of CypB bioassays will require the use of nuclease-resistant aptamer sequences.
MeSH term(s)	Humans ; Cyclophilins/metabolism ; DNA ; Endonucleases ; Nucleic Acids ; Pancreatic Neoplasms ; Electrochemical Techniques
Chemical Substances	cyclophilin B (137497-17-7) ; Cyclophilins (EC 5.2.1.-) ; DNA (9007-49-2) ; Endonucleases (EC 3.1.-) ; Nucleic Acids
Language	English
Publishing date	2022-10-06
Publishing country	Germany
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, U.S. Gov't, Non-P.H.S. ; Research Support, N.I.H., Extramural
ZDB-ID	2011836-3
ISSN	1521-3773 ; 1433-7851
ISSN (online)	1521-3773
ISSN	1433-7851
DOI	10.1002/anie.202211292
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Article ; Online: High-Dose Chemotherapy and Autologous Stem Cell Transplantation for Relapsed or Refractory Primary Mediastinal Large B-Cell Lymphoma.

Transplantation and cellular therapy

2023 Volume 29, Issue 11, Page(s) 690–694

Abstract: Primary mediastinal large B-cell lymphoma (PMBCL) is an uncommon, aggressive type ...

Abstract	Primary mediastinal large B-cell lymphoma (PMBCL) is an uncommon, aggressive type of non-Hodgkin lymphoma. Rituximab-containing chemoimmunotherapy with or without radiation therapy (RT) is standard first-line treatment. Relapsed or refractory (R/R) disease has long been treated with salvage chemotherapy followed by high-dose chemotherapy (HDC), with autologous stem cell transplantation (ASCT) in appropriate patients. We retrospectively analyzed all patients with R/R PMBCL treated with HDC/ASCT at our center between January 2000 and August 2022. The 60 study patients received either rituximab-BEAM (n = 37) or rituximab-gemcitabine/busulfan/melphalan (R-GemBuMel) with or without vorinostat (n = 23), followed by ASCT. Forty-six patients received mediastinal RT, either as prior consolidation of frontline therapy or following ASCT. At median follow-up of 6 years (range, .3 to 21 years), the 5-year progression-free survival (PFS) and overall survival (OS) rates of the whole group were 58% and 77%, respectively, for the entire cohort, 51% and 65% for the R-BEAM recipients, and 69% and 82% for R-vorinostat/GemBuMel recipients. Multivariable analyses showed that a negative positron emission tomography scan at ASCT (hazard ratio [HR], .28) and involvement of only 1 organ (HR, .33) were independently associated with improved PFS. In addition, receipt of R-vorinostat/GemBuMel (HR, .23) was an independent favorable predictor of OS. Our data indicate that HDC/ASCT is effective in R/R PMBCL, with improved outcomes in patients receiving R-vorinostat/GemBuMel.
MeSH term(s)	Adult ; Humans ; Hematopoietic Stem Cell Transplantation/methods ; Rituximab/therapeutic use ; Vorinostat ; Retrospective Studies ; Antineoplastic Combined Chemotherapy Protocols/therapeutic use ; Antineoplastic Combined Chemotherapy Protocols/adverse effects ; Melphalan/therapeutic use ; Neoplasm Recurrence, Local/drug therapy ; Transplantation, Autologous ; Lymphoma, Large B-Cell, Diffuse/diagnostic imaging ; Lymphoma, Large B-Cell, Diffuse/drug therapy ; Thymus Neoplasms/drug therapy ; Thymus Neoplasms/etiology
Chemical Substances	Rituximab (4F4X42SYQ6) ; Vorinostat (58IFB293JI) ; Melphalan (Q41OR9510P)
Language	English
Publishing date	2023-08-20
Publishing country	United States
Document type	Journal Article
ZDB-ID	3062231-1
ISSN	2666-6367
ISSN (online)	2666-6367
DOI	10.1016/j.jtct.2023.08.019
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Article ; Online: Response to: Letter from P. Gillard and B. Benninghoff.

Rathi, Niraj / Desai, Sajjad / Kawade, Anand / Venkatramanan, Padmasani / Kundu, Ritabrata / Lalwani, Sanjay K / Dubey, A P / Venkateswara Rao, J / Narayanappa, D / Ghildiyal, Radha / Gogtay, Nithya J / Venugopal, P / Palkar, Sonali / Munshi, Renuka / Kang, Gagandeep / Babji, Sudhir / Bavdekar, Ashish / Juvekar, Sanjay / Ganguly, Nupur /

Niyogi, Prabal / Uttam, Kheya Ghosh / Rajani, H S / Kondekar, Alpana / Kumbhar, Dipti / Mohanlal, Smilu / Agarwal, Mukesh C / Shetty, Parvan / Antony, Kalpana / Gunale, Bhagwat / Dharmadhikari, Abhijeet / Tang, Yuxiao / Kulkarni, Prasad S / Flores, Jorge

Vaccine

2019 Volume 37, Issue 23, Page(s) 2991–2992

MeSH term(s)	Animals ; Asian Continental Ancestry Group ; Cattle ; Humans ; Infant ; Research Design ; Rotavirus ; Vaccination
Language	English
Publishing date	2019-05-09
Publishing country	Netherlands
Document type	Letter ; Comment
ZDB-ID	605674-x
ISSN	1873-2518 ; 0264-410X
ISSN (online)	1873-2518
ISSN	0264-410X
DOI	10.1016/j.vaccine.2019.04.002
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Article ; Online: Management strategies and survival in cutaneous B-cell lymphoma: A population based study.

Lauck, Kyle / Ahmad, Areebah S / Nguyen, Quoc-Bao D / Yang, Zixi / Kundu, Suprateek / Huen, Auris O

JAAD international

2023 Volume 13, Page(s) 28–29

Language	English
Publishing date	2023-07-12
Publishing country	United States
Document type	Journal Article
ISSN	2666-3287
ISSN (online)	2666-3287
DOI	10.1016/j.jdin.2023.06.015
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Article ; Online: Discovery of pharmacological agents for triple-negative breast cancer (TNBC): molecular docking and molecular dynamic simulation studies on 5-lipoxygenase (5-LOX) and nuclear factor kappa B (NF-κB).

Kundu, Sudipto / N, Swathi / T, Durai Ananda Kumar

Journal of biomolecular structure & dynamics

2023 , Page(s) 1–14

Abstract: ... factor kappa B (NF-κB) activation induces cell survival in breast cancer through stimulation ... of angiogenesis. Therefore, inhibiting NF-B signalling can stop the growth of tumours. In light of these facts ... A102, A240, A86 and A58 were identified. The higher NF-B inhibiting potential of A169 was discovered ...

Abstract	Global burden of breast cancer is expected to cross 26 million new cases by 2030. The term 'triple negative breast cancer' (TNBC) refers to lack of expression of hormone receptors (ER, PR and HER2). 5-Lipoxygenase (5-LOX) inhibition promotes breast cancer apoptosis, ferroptosis and inhibits metastases. Nuclear factor kappa B (NF-κB) activation induces cell survival in breast cancer through stimulation of angiogenesis. Therefore, inhibiting NF-B signalling can stop the growth of tumours. In light of these facts, an attempt is made to investigate binding characteristics of LOX inhibitors against 5-LOX (PDB-IDs 3V99 and 6N2W) and NF-κB (PDB-IDs 4KIK and 3DO7) through molecular docking, MM-GBSA calculation, molecular dynamic simulations (MDSs) and drug-likeness analysis. The eight lead molecules A169, A156, A162, A154, A102, A240, A86 and A58 were identified. The higher NF-B inhibiting potential of A169 was discovered through the sequential HTVS, SP docking and XP docking study. The hydrophobic interaction of Leu607, Phe610, Gln557 and Asn554 with 3V99 and Cys99, Glu97 and Arg20 of 4KIK is crucial for the inhibition. The LE, LLE and FQ values of A169 suggest their optimal binding with the target. This study strongly suggests the LOX and NF-κB inhibitory potential of A169, further lead optimisation and biological validation requires for the confirmations.Communicated by Ramaswamy H. Sarma.
Language	English
Publishing date	2023-09-15
Publishing country	England
Document type	Journal Article
ZDB-ID	49157-3
ISSN	1538-0254 ; 0739-1102
ISSN (online)	1538-0254
ISSN	0739-1102
DOI	10.1080/07391102.2023.2250449
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Article: Effectiveness of COVID-19 Vaccines against Delta Variant (B.1.617.2): A Meta-Analysis.

Mahumud, Rashidul Alam / Ali, Mohammad Afshar / Kundu, Satyajit / Rahman, Md Ashfikur / Kamara, Joseph Kihika / Renzaho, Andre M N

Vaccines

2022 Volume 10, Issue 2

Abstract: Objectives: ...

Abstract	Objectives:
Language	English
Publishing date	2022-02-11
Publishing country	Switzerland
Document type	Journal Article ; Review
ZDB-ID	2703319-3
ISSN	2076-393X
ISSN	2076-393X
DOI	10.3390/vaccines10020277
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Article ; Online: Exploration of Benzo[b]carbazole-6,11-diones as anticancer agents: Synthesis and studies of hTopoIIα inhibition and apoptotic effects.

Sisodiya, Shailendra / Paul, Subarno / Chaudhary, Hiteshkumar / Grewal, Preeti / Kumar, Gulshan / Daniel, Divine P / Das, Biswajit / Nayak, Deepika / Guchhait, Sankar K / Kundu, Chanakya N / Banerjee, Uttam C

Bioorganic & medicinal chemistry letters

2021 Volume 49, Page(s) 128274

Abstract: Two series of (hetero)arylamino-naphthoquinones and benzo-fused carbazolequinones were considered for study with the rationale that related structural motifs are present in numerous drugs, clinical trial agents, natural products and hTopoIIα inhibitors. ... ...

Abstract	Two series of (hetero)arylamino-naphthoquinones and benzo-fused carbazolequinones were considered for study with the rationale that related structural motifs are present in numerous drugs, clinical trial agents, natural products and hTopoIIα inhibitors. Total 42 compounds were synthesized by reactions including dehydrogenative CN and Pd-catalyzed CC bond forming transformations. These compounds were screened against numerous cancer cells including highly metastatic one (MCF-7, MDA-MB-231, H-357 and HEK293T), and normal cells (MCF 10A). Some of the active compounds were evaluated for clonogenic cell survival and apoptotic effects in cancer cells (DAPI nuclear staining, Comet assay, Annexin-V-FITC/PI dual staining, flow cytometry, and western blot analysis with relevant proteins). All compounds were tested for hTopoIIα inhibitory activity. The investigated series compounds showed important properties like significant apoptotic antiproliferation in cancer cells with cell cycle arrest at S-phase and downregulation of NF- κβ signaling cascade, relatively less cytotoxicity to normal cells, and hTopoIIα inhibition with more efficiency compared to an anticancer drug etoposide.
MeSH term(s)	Antineoplastic Agents/chemical synthesis ; Antineoplastic Agents/pharmacology ; Antineoplastic Agents/toxicity ; Apoptosis/drug effects ; Carbazoles/chemical synthesis ; Carbazoles/pharmacology ; Carbazoles/toxicity ; Cell Line, Tumor ; Cell Proliferation/drug effects ; DNA Topoisomerases, Type II/metabolism ; Drug Screening Assays, Antitumor ; HEK293 Cells ; Humans ; Naphthoquinones/chemical synthesis ; Naphthoquinones/pharmacology ; Naphthoquinones/toxicity ; Poly-ADP-Ribose Binding Proteins/metabolism ; S Phase Cell Cycle Checkpoints/drug effects ; Signal Transduction/drug effects ; Topoisomerase II Inhibitors/chemical synthesis ; Topoisomerase II Inhibitors/pharmacology ; Topoisomerase II Inhibitors/toxicity
Chemical Substances	Antineoplastic Agents ; Carbazoles ; Naphthoquinones ; Poly-ADP-Ribose Binding Proteins ; Topoisomerase II Inhibitors ; DNA Topoisomerases, Type II (EC 5.99.1.3) ; TOP2A protein, human (EC 5.99.1.3)
Language	English
Publishing date	2021-07-22
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	1063195-1
ISSN	1464-3405 ; 0960-894X
ISSN (online)	1464-3405
ISSN	0960-894X
DOI	10.1016/j.bmcl.2021.128274
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