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Article ; Online: A glance at digital forensic academic research demographics.

Horsman, Graeme / Aney Biju Mammen, Miss

Science & justice : journal of the Forensic Science Society

2020 Volume 60, Issue 5, Page(s) 399–402

Abstract: Whilst the field of digital forensics is now well established, its research community can be considered relatively emerging in comparison to the associated areas of traditional forensic and computer sciences. As a result, this comment article takes a ... ...

Abstract	Whilst the field of digital forensics is now well established, its research community can be considered relatively emerging in comparison to the associated areas of traditional forensic and computer sciences. As a result, this comment article takes a quick look at the demographics of digital forensics research over the last 20 years, with metadata from 6589 articles being extracted and analysed from Scopus in order to provide a brief insight into this field's research activity.
MeSH term(s)	Computers ; Demography ; Forensic Medicine ; Forensic Sciences ; Humans
Language	English
Publishing date	2020-06-18
Publishing country	England
Document type	Journal Article
ZDB-ID	1230910-2
ISSN	1876-4452 ; 1355-0306
ISSN (online)	1876-4452
ISSN	1355-0306
DOI	10.1016/j.scijus.2020.06.003
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Zs.A 854: Show issues

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Article ; Online: A study to compare Hematopoietic Progenitor Cell count determined on a next-generation automated cell counter with flow cytometric CD34 count in peripheral blood and the harvested peripheral blood stem cell graft from autologous and allogenic donors.

Mishra, Shruti / Kulkarni, Uday / Mathews, Nitty / V, Ramya / Ch Nair, Sukesh / George, Biju / Mammen, Joy J

International journal of laboratory hematology

2020 Volume 43, Issue 1, Page(s) 76–83

Abstract: Introduction: A successful bone marrow transplant requires a minimum of 2-4 × 10: Methods: Autologous and allogenic donors were taken as per criteria. TLC (Total Leukocyte Count), MNC (Mononuclear cell count), HPC, and CD34 assay were done in both ... ...

Abstract	Introduction: A successful bone marrow transplant requires a minimum of 2-4 × 10 Methods: Autologous and allogenic donors were taken as per criteria. TLC (Total Leukocyte Count), MNC (Mononuclear cell count), HPC, and CD34 assay were done in both the peripheral blood prior to apheresis, and the harvest product postapheresis. Sysmex XN-9000 was used for TLC, MNC, and HPC tests, and a modified ISH-AGE protocol was used to enumerate CD34 by flow cytometry. Statistical analysis was done using SPSS 16.0. Results: Sixty-seven allogenic and 35 autologous donors were enrolled. 45% were females, and 55% were males. Correlation between HPC and CD34 was found to be 0.887 with P value < .01 in peripheral blood and 0.847 with P value < .01 in the harvested product. On the other hand, TLC had a correlation of 0.424 and 0.520 in peripheral blood and harvested, respectively. MNC had a weak association. The cutoff value for a target dose of 2 × 10 Conclusion: We conclude that HPC is comparable to CD34 in predicting harvest product's adequacy.
MeSH term(s)	Adolescent ; Adult ; Aged ; Allografts ; Autografts ; Child ; Child, Preschool ; Female ; Flow Cytometry ; Hematologic Diseases/blood ; Hematologic Diseases/therapy ; Hematopoietic Stem Cells/metabolism ; Humans ; Male ; Middle Aged ; Peripheral Blood Stem Cell Transplantation ; Tissue Donors
Language	English
Publishing date	2020-09-14
Publishing country	England
Document type	Clinical Trial ; Comparative Study ; Journal Article
ZDB-ID	2268590-X
ISSN	1751-553X ; 1751-5521 ; 0141-9854
ISSN (online)	1751-553X
ISSN	1751-5521 ; 0141-9854
DOI	10.1111/ijlh.13341
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Zs.A 1499: Show issues

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Article ; Online: Unbiased discovery of autoantibodies associated with severe COVID-19 via genome-scale self-assembled DNA-barcoded protein libraries.

Credle, Joel J / Gunn, Jonathan / Sangkhapreecha, Puwanat / Monaco, Daniel R / Zheng, Xuwen Alice / Tsai, Hung-Ji / Wilbon, Azaan / Morgenlander, William R / Rastegar, Andre / Dong, Yi / Jayaraman, Sahana / Tosi, Lorenzo / Parekkadan, Biju / Baer, Alan N / Roederer, Mario / Bloch, Evan M / Tobian, Aaron A R / Zyskind, Israel / Silverberg, Jonathan I /

Rosenberg, Avi Z / Cox, Andrea L / Lloyd, Tom / Mammen, Andrew L / Benjamin Larman, H

Nature biomedical engineering

2022 Volume 6, Issue 8, Page(s) 992–1003

Abstract: Pathogenic autoreactive antibodies that may be associated with life-threatening coronavirus disease 2019 (COVID-19) remain to be identified. Here, we show that self-assembled genome-scale libraries of full-length proteins covalently coupled to unique DNA ...

Abstract	Pathogenic autoreactive antibodies that may be associated with life-threatening coronavirus disease 2019 (COVID-19) remain to be identified. Here, we show that self-assembled genome-scale libraries of full-length proteins covalently coupled to unique DNA barcodes for analysis by sequencing can be used for the unbiased identification of autoreactive antibodies in plasma samples. By screening 11,076 DNA-barcoded proteins expressed from a sequence-verified human ORFeome library, the method, which we named MIPSA (for Molecular Indexing of Proteins by Self-Assembly), allowed us to detect circulating neutralizing type-I and type-III interferon (IFN) autoantibodies in five plasma samples from 55 patients with life-threatening COVID-19. In addition to identifying neutralizing type-I IFN-α and IFN-ω autoantibodies and other previously known autoreactive antibodies in patient plasma, MIPSA enabled the detection of as yet unidentified neutralizing type-III anti-IFN-λ3 autoantibodies that were not seen in healthy plasma samples or in convalescent plasma from ten non-hospitalized individuals with COVID-19. The low cost and simple workflow of MIPSA will facilitate unbiased high-throughput analyses of protein-antibody, protein-protein and protein-small-molecule interactions.
MeSH term(s)	Autoantibodies ; COVID-19/therapy ; Gene Library ; Humans ; Immunization, Passive ; Interferon-alpha ; COVID-19 Serotherapy
Chemical Substances	Autoantibodies ; Interferon-alpha
Language	English
Publishing date	2022-08-19
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, N.I.H., Extramural ; Research Support, N.I.H., Intramural
ISSN	2157-846X
ISSN (online)	2157-846X
DOI	10.1038/s41551-022-00925-y
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Article: Neutralizing IFNL3 Autoantibodies in Severe COVID-19 Identified Using Molecular Indexing of Proteins by Self-Assembly.

bioRxiv : the preprint server for biology

2021

Abstract: Unbiased antibody profiling can identify the targets of an immune reaction. A number of likely pathogenic autoreactive antibodies have been associated with life-threatening SARS-CoV-2 infection; yet, many additional autoantibodies likely remain unknown. ... ...

Abstract	Unbiased antibody profiling can identify the targets of an immune reaction. A number of likely pathogenic autoreactive antibodies have been associated with life-threatening SARS-CoV-2 infection; yet, many additional autoantibodies likely remain unknown. Here we present Molecular Indexing of Proteins by Self Assembly (MIPSA), a technique that produces ORFeome-scale libraries of proteins covalently coupled to uniquely identifying DNA barcodes for analysis by sequencing. We used MIPSA to profile circulating autoantibodies from 55 patients with severe COVID-19 against 11,076 DNA-barcoded proteins of the human ORFeome library. MIPSA identified previously known autoreactivities, and also detected undescribed neutralizing interferon lambda 3 (IFN-λ3) autoantibodies. At-risk individuals with anti- IFN-λ3 antibodies may benefit from interferon supplementation therapies, such as those currently undergoing clinical evaluation.
Language	English
Publishing date	2021-03-03
Publishing country	United States
Document type	Preprint
DOI	10.1101/2021.03.02.432977
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Article: A Low Incidence of Cytomegalo Virus Infection Following Allogeneic Hematopoietic Stem Cell Transplantation Despite a High Seroprevalence.

Devasia, Anup J / Mammen, Shoba / Korula, Anu / Abraham, Aby / Fouzia, N A / Lakshmi, Kavitha M / Abraham, Asha Mary / Srivastava, Alok / Mathews, Vikram / George, Biju

Indian journal of hematology & blood transfusion : an official journal of Indian Society of Hematology and Blood Transfusion

2018 Volume 34, Issue 4, Page(s) 636–642

Abstract: Cytomegalovirus (CMV) infection remains an important cause of morbidity and mortality following allogeneic stem cell transplantation (SCT). We wanted to study if the high sero-prevalence seen in our population translated into a high incidence of CMV ... ...

Abstract	Cytomegalovirus (CMV) infection remains an important cause of morbidity and mortality following allogeneic stem cell transplantation (SCT). We wanted to study if the high sero-prevalence seen in our population translated into a high incidence of CMV infection following SCT. This is a retrospective analysis of patients who underwent allogeneic SCT between January 2008 and December 2012 at our centre. 475 patients underwent allogeneic SCT for malignant (46.5%) and non-malignant (53.5%) haematological disorders. 463 (97.4%) SCT recipients and 403 (84.8%) SCT donors were IgG seropositive for CMV. CMV reactivation within 100 days post SCT was seen in 174 (36.6%) at a median of 41 days (range 10-100) post SCT. Ganciclovir was used in 166 patients (95.4%) for a mean duration of 16 days (range 5-32). 157 patients (90%) responded to therapy. Sixty-six patients (42.3%) had secondary reactivation of the virus. Use of a male donor (
Language	English
Publishing date	2018-04-16
Publishing country	India
Document type	Journal Article
ZDB-ID	2422370-0
ISSN	0974-0449 ; 0971-4502
ISSN (online)	0974-0449
ISSN	0971-4502
DOI	10.1007/s12288-018-0960-y
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Article ; Online: Performance of an in-house real-time PCR assay for detecting Cytomegalovirus infection among transplant patients from a tertiary care centre.

Duraisamy, Santhosh Kumar / Mammen, Shoba / Lakshminarayan, Sasi Kumar Reddy / Verghese, Susan / Moorthy, Mahesh / George, Biju / Kannangai, Rajesh / Varghese, Santosh / Srivastava, Alok / Abraham, Asha Mary

Indian journal of medical microbiology

2018 Volume 36, Issue 2, Page(s) 241–246

Abstract: Background: Quantitative Cytomegalovirus (CMV) polymerase chain reactions are increasingly being used for monitoring CMV DNAemia in haematopoietic stem cell transplants and solid organ transplants.: Objective: In this study, a commercial CMV viral ... ...

Abstract	Background: Quantitative Cytomegalovirus (CMV) polymerase chain reactions are increasingly being used for monitoring CMV DNAemia in haematopoietic stem cell transplants and solid organ transplants. Objective: In this study, a commercial CMV viral load assay was compared with an in-house viral load assay. Materials and methods: A total of 176 whole-blood samples were tested for CMV DNAemia using both assays. Results: Our evaluation showed a difference of 1 log Conclusion: The in-house viral load assay had a better correlation with clinical findings compared to the commercial assay. Quality assessment of these assays was done by the United Kingdom National External Quality Assessment Scheme (UKNEQAS), an external proficiency testing programme, and by the National Institute for Biological Standard and Control (NIBSC) standard. For UKNEQAS and NIBSC standards, the bias between the assays was 0.73 log
MeSH term(s)	Adolescent ; Adult ; Biological Assay/methods ; Bone Marrow Transplantation ; Child ; Child, Preschool ; Cytomegalovirus Infections/diagnosis ; Cytomegalovirus Infections/virology ; DNA, Viral/genetics ; Female ; Humans ; Infant ; Kidney Transplantation ; Male ; Middle Aged ; Real-Time Polymerase Chain Reaction/methods ; Sensitivity and Specificity ; Tertiary Care Centers/statistics & numerical data ; Viral Load/genetics ; Young Adult
Chemical Substances	DNA, Viral
Language	English
Publishing date	2018-08-07
Publishing country	India
Document type	Journal Article
ZDB-ID	1038798-5
ISSN	1998-3646 ; 0255-0857
ISSN (online)	1998-3646
ISSN	0255-0857
DOI	10.4103/ijmm.IJMM_18_126
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Zs.A 2639: Show issues

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Article ; Online: Surgical procedures in patients with Glanzmann's thrombasthenia: case series and literature review.

Ganapule, Abhijeet / Jain, Punit / Abubacker, Fouzia N / Korula, Anu / Abraham, Aby / Mammen, Joy / George, Biju / Mathews, Vikram / Srivastava, Alok / Viswabandya, Auro

Blood coagulation & fibrinolysis : an international journal in haemostasis and thrombosis

2017 Volume 28, Issue 2, Page(s) 171–175

Abstract: Glanzmann's thrombasthenia is a rare platelet function disorder with an autosomal recessive pattern of inheritance. Achieving haemostasis in such patients who undergo surgical procedures always poses a significant challenge. Herein we report six cases of ...

Abstract	Glanzmann's thrombasthenia is a rare platelet function disorder with an autosomal recessive pattern of inheritance. Achieving haemostasis in such patients who undergo surgical procedures always poses a significant challenge. Herein we report six cases of Glanzmann's thrombasthenia, who underwent nine surgeries under the cover of platelet-rich concentrates with or without recombinant activated factor VII . Of these, five were major surgeries such as thyroidectomy, laparotomy, Hartmann's procedure, reversal of Hartmann's procedure and a complete dental extraction. All five procedures were successfully done without any major bleeding. The major cost incurred in these procedures is due to the large number of blood products used and recombinant activated factor VII if used.
MeSH term(s)	Adolescent ; Adult ; Child ; Factor VIIa/administration & dosage ; Factor VIIa/therapeutic use ; Female ; Humans ; Male ; Recombinant Proteins/administration & dosage ; Recombinant Proteins/therapeutic use ; Thrombasthenia/drug therapy ; Thrombasthenia/surgery ; Young Adult
Chemical Substances	Recombinant Proteins ; recombinant FVIIa (AC71R787OV) ; Factor VIIa (EC 3.4.21.21)
Language	English
Publishing date	2017-03
Publishing country	England
Document type	Case Reports ; Journal Article ; Review
ZDB-ID	1033551-1
ISSN	1473-5733 ; 0957-5235
ISSN (online)	1473-5733
ISSN	0957-5235
DOI	10.1097/MBC.0000000000000524
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Zs.A 2920: Show issues

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Article: Principles of gene therapy.

Mammen, Biju / Ramakrishnan, T / Sudhakar, Uma

Indian journal of dental research : official publication of Indian Society for Dental Research

2007 Volume 18, Issue 4, Page(s) 196–200

Abstract: Genes are specific sequences of bases that encode instructions to make proteins. When genes are altered so that encoded proteins are unable to carry out their normal functions, genetic disorders can result. Gene therapy is designed to introduce genetic ... ...

Abstract	Genes are specific sequences of bases that encode instructions to make proteins. When genes are altered so that encoded proteins are unable to carry out their normal functions, genetic disorders can result. Gene therapy is designed to introduce genetic material into cells to compensate for abnormal genes or to make a beneficial protein. This article reviews the fundamentals in gene therapy and its various modes of administration with an insight into the role of gene therapy in Periodontics and future percepts and the technical and ethical issues of using gene therapy.
MeSH term(s)	Gene Transfer Techniques ; Genetic Diseases, Inborn/therapy ; Genetic Therapy/methods ; Genetic Vectors/therapeutic use ; Humans ; Periodontal Diseases/therapy
Language	English
Publishing date	2007-10-08
Publishing country	India
Document type	Journal Article ; Review
ZDB-ID	1354886-4
ISSN	1998-3603 ; 0970-9290
ISSN (online)	1998-3603
ISSN	0970-9290
DOI	10.4103/0970-9290.35832
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Zs.A 4581: Show issues

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Article ; Online: Principles of gene therapy

Mammen Biju / Ramakrishnan T / Sudhakar Uma / Vijayalakshmi

Indian Journal of Dental Research, Vol 18, Iss 4, Pp 196-

2007 Volume 200

Abstract	Genes are specific sequences of bases that encode instructions to make proteins. When genes are altered so that encoded proteins are unable to carry out their normal functions, genetic disorders can result. Gene therapy is designed to introduce genetic material into cells to compensate for abnormal genes or to make a beneficial protein. This article reviews the fundamentals in gene therapy and its various modes of administration with an insight into the role of gene therapy in Periodontics and future percepts and the technical and ethical issues of using gene therapy.
Keywords	Ethics ; gene therapy ; vehicles ; Dentistry ; RK1-715 ; Medicine ; R ; DOAJ:Dentistry ; DOAJ:Health Sciences
Language	English
Publishing date	2007-01-01T00:00:00Z
Publisher	Medknow Publications
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Neutralizing IFNL3 Autoantibodies in Severe COVID-19 Identified Using Molecular Indexing of Proteins by Self-Assembly

bioRxiv

Abstract	Unbiased antibody profiling can identify the targets of an immune reaction. A number of likely pathogenic autoreactive antibodies have been associated with life-threatening SARS-CoV-2 infection; yet, many additional autoantibodies likely remain unknown. Here we present Molecular Indexing of Proteins by Self Assembly (MIPSA), a technique that produces ORFeome-scale libraries of proteins covalently coupled to uniquely identifying DNA barcodes for analysis by sequencing. We used MIPSA to profile circulating autoantibodies from 55 patients with severe COVID-19 against 11,076 DNA-barcoded proteins of the human ORFeome library. MIPSA identified previously known autoreactivities, and also detected undescribed neutralizing interferon lambda 3 (IFNL3) autoantibodies. At-risk individuals with anti-IFNL3 antibodies may benefit from interferon supplementation therapies, such as those currently undergoing clinical evaluation.
Keywords	covid19
Language	English
Publishing date	2021-03-03
Publisher	Cold Spring Harbor Laboratory
Document type	Article ; Online
DOI	10.1101/2021.03.02.432977
Database	COVID19

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