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  1. Article ; Online: Acute and Chronic Effects of Cigarette Smoking on sRAGE.

    Biswas, Subrata K

    American journal of respiratory and critical care medicine

    2019  Volume 199, Issue 6, Page(s) 805

    MeSH term(s) Biomarkers ; Cigarette Smoking ; Humans ; Pulmonary Disease, Chronic Obstructive ; Smoking ; Tobacco Smoking
    Chemical Substances Biomarkers
    Language English
    Publishing date 2019-01-15
    Publishing country United States
    Document type Letter ; Comment
    ZDB-ID 1180953-x
    ISSN 1535-4970 ; 0003-0805 ; 1073-449X
    ISSN (online) 1535-4970
    ISSN 0003-0805 ; 1073-449X
    DOI 10.1164/rccm.201811-2169LE
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Mapinsights: deep exploration of quality issues and error profiles in high-throughput sequence data.

    Das, Subrata / Biswas, Nidhan K / Basu, Analabha

    Nucleic acids research

    2023  Volume 51, Issue 14, Page(s) e75

    Abstract: High-throughput sequencing (HTS) has revolutionized science by enabling super-fast detection of genomic variants at base-pair resolution. Consequently, it poses the challenging problem of identification of technical artifacts, i.e. hidden non-random ... ...

    Abstract High-throughput sequencing (HTS) has revolutionized science by enabling super-fast detection of genomic variants at base-pair resolution. Consequently, it poses the challenging problem of identification of technical artifacts, i.e. hidden non-random error patterns. Understanding the properties of sequencing artifacts holds the key in separating true variants from false positives. Here, we develop Mapinsights, a toolkit that performs quality control (QC) analysis of sequence alignment files, capable of detecting outliers based on sequencing artifacts of HTS data at a deeper resolution compared with existing methods. Mapinsights performs a cluster analysis based on novel and existing QC features derived from the sequence alignment for outlier detection. We applied Mapinsights on community standard open-source datasets and identified various quality issues including technical errors related to sequencing cycles, sequencing chemistry, sequencing libraries and across various orthogonal sequencing platforms. Mapinsights also enables identification of anomalies related to sequencing depth. A logistic regression-based model built on the features of Mapinsights shows high accuracy in detecting 'low-confidence' variant sites. Quantitative estimates and probabilistic arguments provided by Mapinsights can be utilized in identifying errors, bias and outlier samples, and also aid in improving the authenticity of variant calls.
    MeSH term(s) High-Throughput Nucleotide Sequencing/methods ; Sequence Analysis, DNA/methods ; Software
    Language English
    Publishing date 2023-08-14
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 186809-3
    ISSN 1362-4962 ; 1362-4954 ; 0301-5610 ; 0305-1048
    ISSN (online) 1362-4962 ; 1362-4954
    ISSN 0301-5610 ; 0305-1048
    DOI 10.1093/nar/gkad539
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    Zs.A 1067: Show issues Location:
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  3. Article ; Online: Genetic variation in SARS-CoV-2 may explain variable severity of COVID-19.

    Biswas, Subrata K / Mudi, Sonchita R

    Medical hypotheses

    2020  Volume 143, Page(s) 109877

    MeSH term(s) Betacoronavirus/genetics ; COVID-19 ; Coronavirus Infections/physiopathology ; Coronavirus Infections/virology ; Gene Deletion ; Genetic Variation ; Genome, Viral ; Humans ; Mutation ; Pandemics ; Pneumonia, Viral/physiopathology ; Pneumonia, Viral/virology ; SARS-CoV-2
    Keywords covid19
    Language English
    Publishing date 2020-05-24
    Publishing country United States
    Document type Letter
    ZDB-ID 193145-3
    ISSN 1532-2777 ; 0306-9877
    ISSN (online) 1532-2777
    ISSN 0306-9877
    DOI 10.1016/j.mehy.2020.109877
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    Zs.A 1132: Show issues Location:
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  4. Article ; Online: NecroX-7 may appear as a new molecule to stabilize atherosclerotic plaques.

    Biswas, Subrata K

    Atherosclerosis

    2016  Volume 252, Page(s) 190–191

    MeSH term(s) Apoptosis ; Atherosclerosis ; Humans ; Organic Chemicals ; Plaque, Atherosclerotic
    Chemical Substances Organic Chemicals ; necrox-7
    Language English
    Publishing date 2016
    Publishing country Ireland
    Document type Journal Article ; Comment
    ZDB-ID 80061-2
    ISSN 1879-1484 ; 0021-9150
    ISSN (online) 1879-1484
    ISSN 0021-9150
    DOI 10.1016/j.atherosclerosis.2016.07.917
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    Zs.A 226: Show issues Location:
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  5. Article: Spike protein D614G and RdRp P323L: the SARS-CoV-2 mutations associated with severity of COVID-19.

    Biswas, Subrata K / Mudi, Sonchita R

    Genomics & informatics

    2020  Volume 18, Issue 4, Page(s) e44

    Abstract: The severity of coronavirus disease 2019 (COVID-19), caused by the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), greatly varies from patient to patient. In the present study, we explored and compared mutation profiles of SARS-CoV-2 ... ...

    Abstract The severity of coronavirus disease 2019 (COVID-19), caused by the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), greatly varies from patient to patient. In the present study, we explored and compared mutation profiles of SARS-CoV-2 isolated from mildly affected and severely affected COVID-19 patients in order to explore any relationship between mutation profile and disease severity. Genomic sequences of SARS-CoV-2 were downloaded from Global Initiative on Sharing Avian Influenza Data (GISAID) database. With the help of Genome Detective Coronavirus Typing Tool, genomic sequences were aligned with the Wuhan seafood market pneumonia virus reference sequence and all the mutations were identified. Distribution of mutant variants was then compared between mildly and severely affected groups. Among the numerous mutations detected, 14,408C>T and 23,403A>G mutations resulting in RNA-dependent RNA polymerase (RdRp) P323L and spike protein D614G mutations, respectively, were found predominantly in severely affected group (>82%) compared with mildly affected group (<46%, p < 0.001). The 241C>T mutation in the non-coding region of the genome was also found predominantly in severely affected group (p < 0.001). The 3,037C>T, a silent mutation, also appeared in relatively high frequency in severely affected group compared with mildly affected group, but the difference was not statistically significant (p = 0.06). We concluded that spike protein D614G and RdRp P323L mutations in SARS-CoV-2 are associated with severity of COVID-19. Further studies will be required to explore whether these mutations have any impact on the severity of disease.
    Language English
    Publishing date 2020-12-07
    Publishing country Korea (South)
    Document type Journal Article
    ZDB-ID 2802682-2
    ISSN 2234-0742 ; 1598-866X
    ISSN (online) 2234-0742
    ISSN 1598-866X
    DOI 10.5808/GI.2020.18.4.e44
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article ; Online: Genetic variation in SARS-CoV-2 may explain variable severity of COVID-19

    Biswas, Subrata K / Mudi, Sonchita R

    Medical Hypotheses

    2020  Volume 143, Page(s) 109877

    Keywords General Medicine ; covid19
    Language English
    Publisher Elsevier BV
    Publishing country us
    Document type Article ; Online
    ZDB-ID 193145-3
    ISSN 1532-2777 ; 0306-9877
    ISSN (online) 1532-2777
    ISSN 0306-9877
    DOI 10.1016/j.mehy.2020.109877
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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    Zs.A 1132: Show issues Location:
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  8. Article ; Online: Organophosphorus-Catalyzed Borylative Ring-Opening of Vinylcyclopropanes: A Stereoselective Route to δ-Valerolactones.

    Biswas, Krishna / Khamrai, Aankhi / Malik, Subrata / Ganesh, Venkataraman

    Organic letters

    2023  Volume 25, Issue 11, Page(s) 1805–1810

    Abstract: We report an operationally simple route to δ-valerolactones through an organophosphorus-catalyzed borylative ring-opening/allylation of vinylcyclopropanes providing δ-hydroxy esters stereoselectively. The δ-hydroxy esters were lactonized to obtain ... ...

    Abstract We report an operationally simple route to δ-valerolactones through an organophosphorus-catalyzed borylative ring-opening/allylation of vinylcyclopropanes providing δ-hydroxy esters stereoselectively. The δ-hydroxy esters were lactonized to obtain densely substituted δ-valerolactones. The present methodology exhibited enhanced functional group tolerance compared to the existing metal-mediated methods. A plausible mechanism for borylative ring-opening reaction has been suggested.
    Language English
    Publishing date 2023-03-15
    Publishing country United States
    Document type Journal Article
    ISSN 1523-7052
    ISSN (online) 1523-7052
    DOI 10.1021/acs.orglett.2c04284
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  9. Article ; Online: Modeling and optimization of process variables for HCl gas removal by response surface methodology.

    Bal, Manisha / Biswas, Subrata / Behera, Sushanta K / Meikap, B C

    Journal of environmental science and health. Part A, Toxic/hazardous substances & environmental engineering

    2019  Volume 54, Issue 4, Page(s) 359–366

    Abstract: In the present article, optimization of process variables has been done to maximize the removal efficiency of toxic HCl gas in a submerged self-priming venturi scrubber. Response surface methodology with central composite design has been chosen to ... ...

    Abstract In the present article, optimization of process variables has been done to maximize the removal efficiency of toxic HCl gas in a submerged self-priming venturi scrubber. Response surface methodology with central composite design has been chosen to predict the effect of process variables on the removal efficiency. A quadratic equation was found from this study to predict the removal efficiency and from the ANOVA test, the significance of process variables was evaluated. Regression analysis confirmed the suitability of the developed model by the higher R
    MeSH term(s) Air Pollutants/analysis ; Analysis of Variance ; Environmental Restoration and Remediation/instrumentation ; Environmental Restoration and Remediation/methods ; Equipment Design ; Humans ; Hydrochloric Acid/analysis ; Models, Theoretical ; Regression Analysis ; Sodium Hydroxide/chemistry
    Chemical Substances Air Pollutants ; Sodium Hydroxide (55X04QC32I) ; Hydrochloric Acid (QTT17582CB)
    Language English
    Publishing date 2019-01-10
    Publishing country England
    Document type Journal Article
    ZDB-ID 196584-0
    ISSN 1532-4117 ; 0360-1226 ; 1077-1204 ; 1093-4529
    ISSN (online) 1532-4117
    ISSN 0360-1226 ; 1077-1204 ; 1093-4529
    DOI 10.1080/10934529.2018.1551650
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  10. Article ; Online: Unusual higher-order nonlinear optical properties in Au-coated triangular Ag-Au nanostructures.

    Mondal, Koushik / Biswas, Subrata / Singha, Tara / Pal, Sudip Kumar / Datta, Prasanta K / Ghosh, Sujit Kumar / Kumbhakar, Pathik

    Optics letters

    2021  Volume 46, Issue 19, Page(s) 4879–4882

    Abstract: Here, we report hitherto unobserved local field (LF)-assisted pump wavelength-dependent nonlinear optical (NLO) effects of three-photon (3PA)-induced four-photon absorption (4PA) at 532 nm and two-photon-induced 3PA at 730 nm in triangular-shaped core- ... ...

    Abstract Here, we report hitherto unobserved local field (LF)-assisted pump wavelength-dependent nonlinear optical (NLO) effects of three-photon (3PA)-induced four-photon absorption (4PA) at 532 nm and two-photon-induced 3PA at 730 nm in triangular-shaped core-shell Ag-Au nanoparticles (TrAg@Au) by femtosecond Z-scan. The shell thickness-dependent enhancement in the LF is observed by a COMSOL simulation. The intensity-dependent interplay between saturable and reverse-saturable absorptions along with switching of nonlinear (NL) phase is reported at 730 nm, showing the superiority of TrAg@Au in optical switching (OS). The optical limiting (OL) threshold (
    Language English
    Publishing date 2021-10-01
    Publishing country United States
    Document type Journal Article
    ISSN 1539-4794
    ISSN (online) 1539-4794
    DOI 10.1364/OL.439398
    Database MEDical Literature Analysis and Retrieval System OnLINE

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