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  1. Article ; Online: Efficient association mapping from k-mers-An application in finding sex-specific sequences.

    Mehrab, Zakaria / Mobin, Jaiaid / Tahmid, Ibrahim Asadullah / Rahman, Atif

    PloS one

    2021  Volume 16, Issue 1, Page(s) e0245058

    Abstract: ... free association mapping methods based on k-mers from sequencing reads. Here we present an improved implementation ...

    Abstract Genome wide association studies (GWAS) attempt to map genotypes to phenotypes in organisms. This is typically performed by genotyping individuals using microarray or by aligning whole genome sequencing reads to a reference genome. Both approaches require knowledge of a reference genome which hinders their application to organisms with no or incomplete reference genomes. This caveat can be removed by using alignment-free association mapping methods based on k-mers from sequencing reads. Here we present an improved implementation of an alignment free association mapping method. The new implementation is faster and includes additional features to make it more flexible than the original implementation. We have tested our implementation on an E. Coli ampicillin resistance dataset and observe improvement in execution time over the original implementation while maintaining accuracy in results. We also demonstrate that the method can be applied to find sex specific sequences.
    MeSH term(s) Algorithms ; Ampicillin Resistance/genetics ; Escherichia coli/genetics ; Female ; Genome, Bacterial ; Genome-Wide Association Study ; Humans ; Male ; Phenotype ; Sequence Analysis, DNA ; Whole Genome Sequencing
    Language English
    Publishing date 2021-01-07
    Publishing country United States
    Document type Journal Article
    ISSN 1932-6203
    ISSN (online) 1932-6203
    DOI 10.1371/journal.pone.0245058
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article: "Durch den Einsatz des gesamten Therapiespektrums bei Psoriasis gemeinsam mehr lernen". Interview mit K. Asadullah, Potsdam

    Asadullah, K.

    Ästhetische Dermatologie

    2019  Volume -, Issue 1, Page(s) 26

    Language German
    Document type Article
    ZDB-ID 2095469-4
    ISSN 1868-0496 ; 1615-5327
    Database Current Contents Medicine

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    In stock of ZB MED Cologne/Königswinter

    Zs.A 5582: Show issues Location:
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  3. Article ; Online: Reference-free Association Mapping from Sequencing Reads Using k-mers.

    Mehrab, Zakaria / Mobin, Jaiaid / Tahmid, Ibrahim Asadullah / Pachter, Lior / Rahman, Atif

    Bio-protocol

    2020  Volume 10, Issue 21, Page(s) e3815

    Abstract: ... studies which is based on counting k-mers in sequenced reads, testing for associations between k-mers and ... the phenotype of interest, and local assembly of the k-mers of statistical significance. The method can map ...

    Abstract Association mapping is the process of linking phenotypes with genotypes. In genome wide association studies (GWAS), individuals are first genotyped using microarrays or by aligning sequenced reads to reference genomes. However, both these approaches rely on reference genomes which limits their application to organisms with no or incomplete reference genomes. To address this, reference free association mapping methods have been developed. Here we present the protocol of an alignment free method for association studies which is based on counting k-mers in sequenced reads, testing for associations between k-mers and the phenotype of interest, and local assembly of the k-mers of statistical significance. The method can map associations of categorical phenotypes to sequence and structural variations without requiring prior sequencing of reference genomes.
    Language English
    Publishing date 2020-11-05
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2833269-6
    ISSN 2331-8325 ; 2331-8325
    ISSN (online) 2331-8325
    ISSN 2331-8325
    DOI 10.21769/BioProtoc.3815
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  4. Article ; Online: Efficient association mapping from k-mers-An application in finding sex-specific sequences.

    Zakaria Mehrab / Jaiaid Mobin / Ibrahim Asadullah Tahmid / Atif Rahman

    PLoS ONE, Vol 16, Iss 1, p e

    2021  Volume 0245058

    Abstract: ... free association mapping methods based on k-mers from sequencing reads. Here we present an improved implementation ...

    Abstract Genome wide association studies (GWAS) attempt to map genotypes to phenotypes in organisms. This is typically performed by genotyping individuals using microarray or by aligning whole genome sequencing reads to a reference genome. Both approaches require knowledge of a reference genome which hinders their application to organisms with no or incomplete reference genomes. This caveat can be removed by using alignment-free association mapping methods based on k-mers from sequencing reads. Here we present an improved implementation of an alignment free association mapping method. The new implementation is faster and includes additional features to make it more flexible than the original implementation. We have tested our implementation on an E. Coli ampicillin resistance dataset and observe improvement in execution time over the original implementation while maintaining accuracy in results. We also demonstrate that the method can be applied to find sex specific sequences.
    Keywords Medicine ; R ; Science ; Q
    Language English
    Publishing date 2021-01-01T00:00:00Z
    Publisher Public Library of Science (PLoS)
    Document type Article ; Online
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  5. Article ; Online: Solid-liquid phase equilibria of H2O-Mn(H2PO2)2-MnCl2-NaCl, H2O-Mn(H2PO2)2-MnCl2 and (H2O-NaCl- MnCl2 systems at 323.15 K

    Adiguzel Vedat / Liu Wei / Memon Asadullah / Zhou Hongtao / Akbar Imran / Zafar Atif / Ansari Ubedullah

    Journal of the Serbian Chemical Society, Vol 86, Iss 1, Pp 91-

    2021  Volume 102

    Abstract: ... system and H2O–NaCl–MnCl2 and H2O– –MnCl2–Mn(H2PO2)2 ternary systems were investigated at 323.15 K ...

    Abstract The solid–liquid phase equilibria (SLE) and densities of H2O–NaCl– –MnCl2–Mn(H2PO2)2 quaternary system and H2O–NaCl–MnCl2 and H2O– –MnCl2–Mn(H2PO2)2 ternary systems were investigated at 323.15 K by the isothermal solution saturation method. The analyses of the liquid and solid phases were used to determine the composition of the solid phase using the Schreinemakers graphic method. The ternary systems contain one invariant point, two invariant curves and two crystallization regions. In the quaternary system, there is one invariant point, three invariant curves and three crystallization areas corresponding to NaCl, MnCl2⋅4H2O and Mn(H2PO2)⋅2H2O. The crystallization area of Mn(H2PO2)2⋅H2O, being the largest in comparison with those of other salts, occupied 80.75 % of the total crystallization area.
    Keywords manganese hypophosphite ; manganese chloride ; ternary system ; schreinmakers method ; density ; Chemistry ; QD1-999
    Subject code 660
    Language English
    Publishing date 2021-01-01T00:00:00Z
    Publisher Serbian Chemical Society
    Document type Article ; Online
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  6. Book: Cytokine and anti-cytokine therapy in dermatology 2006

    Asadullah, K.

    2006  

    Author's details eds. K. Asadullah
    Language English
    Size 339 S. : Ill., graph. Darst.
    Publisher Transworld Research Network
    Publishing place Trivandrum
    Publishing country India
    Document type Book
    HBZ-ID HT014981482
    ISBN 81-7895-220-3 ; 978-81-7895-220-8
    Database Catalogue ZB MED Medicine, Health

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    Shelf markLoan statusLocation
    2007 A 1191 order for loan Magazin

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  7. Book ; Thesis: Zytokine bei "kutanen T-Zell-Lymphomen" und "Psoriasis", zwei T-Zell-vermittelten Dermatosen mit Modellcharakter

    Asadullah, Khusru

    pathophysiologische Bedeutung und Implikation für die therapeutische Intervention

    1999  

    Author's details von Khusru Asadullah
    Language German
    Size 194 S. in getr. Zählung, Ill., graph. Darst., 30 cm
    Edition [Mikrofiche-Ausg.]
    Publishing country Germany
    Document type Book ; Thesis
    Thesis / German Habilitation thesis Berlin, Humboldt-Univ., Habil.-Schr., 1999
    HBZ-ID HT013143951
    Database Catalogue ZB MED Medicine, Health

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    2001 MB 1708 order for loan Magazin

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  8. Book ; Thesis: Die Behandlung der Problematik 'Betreuung Sterbender' in der Hochschulausbildung Medizin in der DDR und der BRD

    Asadullah, Khusru

    1991  

    Author's details vorgelegt von Khusru Asadullah
    Size IV, 114 Bl.
    Document type Book ; Thesis
    Thesis / German Habilitation thesis Berlin, Humboldt Univ., Diss., 1991
    HBZ-ID HT003894879
    Database Catalogue ZB MED Medicine, Health

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    91 E 3481 order for loan Magazin

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  9. Article ; Online: Adsorption of hexavalent chromium onto alkali-modified biochar derived from Lepironia articulata: A kinetic, equilibrium, and thermodynamic study.

    Asadullah / Kaewsichan, Lupong / Tohdee, Kanogwan

    Water environment research : a research publication of the Water Environment Federation

    2019  Volume 91, Issue 11, Page(s) 1433–1446

    Abstract: Hydrochar obtained after hydrothermal carbonization (HTC) of Lepironia articulata (LA) was modified into biochar by reacting with a specific amount of KOH in a tubular reactor under slow pyrolysis. The physical and chemical properties of the hydrochar ... ...

    Abstract Hydrochar obtained after hydrothermal carbonization (HTC) of Lepironia articulata (LA) was modified into biochar by reacting with a specific amount of KOH in a tubular reactor under slow pyrolysis. The physical and chemical properties of the hydrochar and modified biochar were characterized. The performance of modified biochar (LABC) was investigated through batch sorption experiments. Removal (%) and the maximum adsorption capacity (q
    MeSH term(s) Adsorption ; Alkalies ; Charcoal ; Chromium ; Hydrogen-Ion Concentration ; Kinetics ; Thermodynamics ; Water Pollutants, Chemical
    Chemical Substances Alkalies ; Water Pollutants, Chemical ; biochar ; Chromium (0R0008Q3JB) ; Charcoal (16291-96-6) ; chromium hexavalent ion (18540-29-9)
    Language English
    Publishing date 2019-06-02
    Publishing country United States
    Document type Journal Article
    ZDB-ID 1098976-6
    ISSN 1554-7531 ; 1047-7624 ; 1061-4303
    ISSN (online) 1554-7531
    ISSN 1047-7624 ; 1061-4303
    DOI 10.1002/wer.1138
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  10. Article: Effectiveness of local drug delivery system using 1% metronidazole gel and mouthwash in treating periodontal diseases.

    Hasan, Faiza / Ikram, Rahila / Abbas, Afshan / Asadullah, Kamran

    Pakistan journal of pharmaceutical sciences

    2021  Volume 33, Issue 5, Page(s) 2053–2058

    Abstract: The gold standard therapy for treating the periodontal infections is the removal of bacterial plaque and deposits of calculus from tooth surfaces by scaling and root planning. In order to eliminate these bacterial reservoirs, beside conventional ... ...

    Abstract The gold standard therapy for treating the periodontal infections is the removal of bacterial plaque and deposits of calculus from tooth surfaces by scaling and root planning. In order to eliminate these bacterial reservoirs, beside conventional treatment, chemo therapeutic agents are commonly prescribed by periodontologists. To avoid the systemic side effects and development of antibiotics resistance, local drug delivery methods has gained the attention of dentists to treat periodontal infections, along with scaling and root planning. The aim of this study was to evaluate the effectiveness of local drug delivery system in combination with scaling and root planning, by using 1% metronidazole gel and mouthwash. The patients were divided into 3 groups. Group I: conventional treatment group. Group II: patients received treatment with gel. Group III: patients received treatment with mouthwash. All groups received treatment for 30 days. Clinical parameters and salivary concentration of TNF-α, PGE2 and nitric oxide were measured before and after treatment in both groups. All clinical parameters and inflammatory biomarkers significantly reduced in gel and mouthwash group patients (p≤0.001) as compared to patients received conventional treatment. The gel is found to be more efficacious than mouthwash especially in reducing clinical attachment loss (p< 0.05) and in reducing inflammatory biomarkers (p≤0.001). We strongly suggest the use of metronidazole via local drug delivery system combined with scaling and root planning to treat periodontal diseases.
    MeSH term(s) Administration, Oral ; Anti-Bacterial Agents/administration & dosage ; Anti-Bacterial Agents/chemistry ; Combined Modality Therapy ; Dental Scaling ; Dinoprostone/metabolism ; Drug Compounding ; Drug Delivery Systems ; Female ; Gels ; Humans ; Inflammation Mediators/metabolism ; Male ; Metronidazole/administration & dosage ; Metronidazole/chemistry ; Mouthwashes/administration & dosage ; Mouthwashes/chemistry ; Nitric Oxide/metabolism ; Pakistan ; Periodontal Diseases/diagnosis ; Periodontal Diseases/metabolism ; Periodontal Diseases/microbiology ; Periodontal Diseases/therapy ; Root Planing ; Saliva/metabolism ; Time Factors ; Treatment Outcome ; Tumor Necrosis Factor-alpha/metabolism
    Chemical Substances Anti-Bacterial Agents ; Gels ; Inflammation Mediators ; Mouthwashes ; TNF protein, human ; Tumor Necrosis Factor-alpha ; Metronidazole (140QMO216E) ; Nitric Oxide (31C4KY9ESH) ; Dinoprostone (K7Q1JQR04M)
    Language English
    Publishing date 2021-04-06
    Publishing country Pakistan
    Document type Comparative Study ; Journal Article ; Randomized Controlled Trial
    ZDB-ID 885131-1
    ISSN 1011-601X
    ISSN 1011-601X
    Database MEDical Literature Analysis and Retrieval System OnLINE

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