A. Amara

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Molecular Systems Biology Peer Review Process File Single-cell Analysis of the Population Context Advances Rnai Screening at Multiple Levels Transaction Report

Varpu Marjomäki, Pauli Rämö, Lucas Pelkmans, 2022 .

Biology of Zika Virus Infection in Human Skin Cells

D. Missé, F. Thomas, P. Desprès, 2015, Journal of Virology.

CCL1-CCR8 interactions: an axis mediating the recruitment of T cells and Langerhans-type dendritic cells to cites of atopic skin inflammation

H. Zentgraf, W. Fridman, C. Caux, 2005, The Journal of Immunology.

CCL1-CCR8 Interactions: An Axis Mediating the Recruitment of T Cells and Langerhans-Type Dendritic Cells to Sites of Atopic Skin Inflammation1

H. Zentgraf, W. Fridman, C. Caux, 2005, The Journal of Immunology.

The CXC chemokine SDF-1 is the ligand for LESTR/fusin and prevents infection by T-cell-line-adapted HIV-1

M. Baggiolini, I. Clark-lewis, O. Schwartz, 1996, Nature.

Dendritic Cell-specific Intercellular Adhesion Molecule 3-grabbing Non-integrin (DC-SIGN)-mediated Enhancement of Dengue Virus Infection Is Independent of DC-SIGN Internalization Signals*

P. Desprès, F. Rey, P. Lozach, 2005, Journal of Biological Chemistry.

Supplementary Table 6

Varpu Marjomäki, Pauli Rämö, Lucas Pelkmans, 2012 .

Infection of Dendritic Cells (DCs), Not DC-SIGN-Mediated Internalization of Human Immunodeficiency Virus, Is Required for Long-Term Transfer of Virus to T Cells

P. Lozach, L. Burleigh, A. Amara, 2006, Journal of Virology.

DC-SIGN and L-SIGN Are High Affinity Binding Receptors for Hepatitis C Virus Glycoprotein E2*

O. Schwartz, R. Altmeyer, P. Lozach, 2003, Journal of Biological Chemistry.

Factor 1 in Autoantibody Production and Role of the Chemokine Stromal Cell-Derived

R. Coffman, A. Foussat, F. Baleux, 2017 .

Role of the Chemokine Stromal Cell-Derived Factor 1 in Autoantibody Production and Nephritis in Murine Lupus1

R. Coffman, A. Foussat, F. Baleux, 2003, The Journal of Immunology.

Interleukin-10 modulates the sensitivity of peritoneal B lymphocytes to chemokines with opposite effects on stromal cell-derived factor-1 and B-lymphocyte chemoattractant.

A. Foussat, F. Baleux, A. Amara, 2002, Blood.

Stromal cell-derived factor 1 (SDF-1) and antenatal human B cell lymphopoiesis: expression of SDF-1 by mesothelial cells and biliary ductal plate epithelial cells.

A. Foussat, C. Schiff, A. Amara, 1999, Proceedings of the National Academy of Sciences of the United States of America.

Constitutive expression of stromal derived factor-1 by mucosal epithelia and its role in HIV transmission and propagation

E. Ebert, A. Roberts, A. Amara, 2000, Current Biology.

Autoantibodies to malondialdehyde‐modified epitope in connective tissue diseases and vasculitides

M. Geffard, J. Pellegrin, A. Amara, 1995, Clinical and experimental immunology.

A multivalent inhibitor of the DC-SIGN dependent uptake of HIV-1 and Dengue virus.

M. Clerici, A. Bernardi, G. Vettoretti, 2014, Biomaterials.

G Protein-Dependent CCR5 Signaling Is Not Required for Efficient Infection of Primary T Lymphocytes and Macrophages by R5 Human Immunodeficiency Virus Type 1 Isolates

M. Parmentier, K. Mollier, C. Blanpain, 2003, Journal of Virology.

Shear-Induced Platelet Aggregation in atients Who Experience Subacute Stent Thrombosis

P. Steg, L. Feldman, A. Amara, 2016 .

Characterization and functional interrogation of the SARS-CoV-2 RNA interactome

P. Vidalain, V. Lotteau, V. Soumelis, 2022, Cell Reports.

Persistent Induction of the Chemokine Receptor CXCR4 by TGF-β1 on Synovial T Cells Contributes to Their Accumulation Within the Rheumatoid Synovium1

J. Lord, M. Salmon, C. Buckley, 2000, The Journal of Immunology.

Zika virus induces massive cytoplasmic vacuolization and paraptosis‐like death in infected cells

P. Roingeard, C. Demangel, O. Schwartz, 2017, The EMBO journal.

Molecular detection of methionine in rat brain using specific antibodies

M. Geffard, A. Amara, M. Coussemacq, 1995, Neuroscience Letters.

New Insights into Chikungunya Virus Infection and Pathogenesis.

A. Amara, L. Briant, Vasiliya Kril, 2021, Annual review of virology.

R 5-Tropic Strains of HIV-1 Macrophages and Lymphocytes with Primary Normal Human IgG Block Infection of Antibodies to C-C Chemokine Receptor 5 in Kaveri and

S. Kaveri, M. Kazatchkine, R. Longhi, 2001 .

Infectious Thoracic Aortitis: A Case Report

A. Amara, R. Said, H. Chemchik, 2014 .

Impact of Raltegravir or Efavirenz on Cell-Associated Human Immunodeficiency Virus-1 (HIV-1) Deoxyribonucleic Acid and Systemic Inflammation in HIV-1/Tuberculosis Coinfected Adults Initiating Antiretroviral Therapy

C. Delaugerre, A. Amara, J. Molina, 2020, Open forum infectious diseases.

Within the Rheumatoid Synovium Cells Contributes to Their Accumulation 1 on Synovial T b Receptor CXCR4 by TGF-Persistent Induction of the Chemokine

J. Lord, M. Salmon, C. Buckley, 2000 .

When integrated in a subepithelial mucosal layer equivalent, dendritic cells keep their immature stage and their ability to replicate type R5 HIV type 1 strains in the absence of T cell subsets.

D. Schmitt, A. Amara, J. Valladeau, 2004, AIDS research and human retroviruses.

Immature Dendritic Cells (DCs) Use Chemokines and Intercellular Adhesion Molecule (ICAM)-1, But Not DC-Specific ICAM-3-Grabbing Nonintegrin, to Stimulate CD4+ T Cells in the Absence of Exogenous Antigen1

A. Trautmann, G. Raposo, A. Amara, 2004, The Journal of Immunology.

Antigen T Cells in the Absence of Exogenous + CD 4 ICAM-3-Grabbing Nonintegrin , to Stimulate Molecule ( ICAM )-1 , But Not DC-Specific Chemokines and Intercellular Adhesion Immature Dendritic Cells ( DCs ) Use Donnadieu

A. Trautmann, G. Raposo, A. Amara, 2004 .

SARS-CoV-2 induces human plasmacytoid predendritic cell diversification via UNC93B and IRAK4

J. Casanova, C. Picard, C. Delaugerre, 2021, The Journal of experimental medicine.

Axl Mediates ZIKA Virus Entry in Human Glial Cells and Modulates Innate Immune Responses.

D. Missé, P. Gressens, O. Schwartz, 2017, Cell reports.

Spontaneous Mutations in the env Gene of the Human Immunodeficiency Virus Type 1 NDK Isolate Are Associated with a CD4-Independent Entry Phenotype

S. Nisole, P. Briand, A. Amara, 1998, Journal of Virology.

Expression of macrophage inflammatory protein-3alpha, stromal cell-derived factor-1, and B-cell-attracting chemokine-1 identifies the tonsil crypt as an attractive site for B cells.

C. Caux, A. Amara, M. Dieu-Nosjean, 2001, Blood.

Production of stromal cell‐derived factor 1 by mesothelial cells and effects of this chemokine on peritoneal B lymphocytes

A. Foussat, F. Baleux, A. Amara, 2001, European journal of immunology.

Antibodies to reduced glutathione

M. Geffard, A. Amara, M. Coussemacq, 1994, Brain Research.

Solution structure and basis for functional activity of stromal cell‐derived factor‐1; dissociation of CXCR4 activation from binding and inhibition of HIV‐1

B. Sykes, K. Rajarathnam, M. Baggiolini, 1997, The EMBO journal.

The Phosphatidylserine and Phosphatidylethanolamine Receptor CD300a Binds Dengue Virus and Enhances Infection

O. Schwartz, A. Amara, Ophélie Dejarnac, 2015, Journal of Virology.

DC-SIGN from African Green Monkeys Is Expressed in Lymph Nodes and Mediates Infection in trans of Simian Immunodeficiency Virus SIVagm

M. Soares, F. Barré-Sinoussi, O. Schwartz, 2004, Journal of Virology.

Atopic Skin Inflammation Langerhans-Type Dendritic Cells to Sites of the Recruitment of T Cells and CCL1-CCR8 Interactions: An Axis Mediating

H. Zentgraf, W. Fridman, C. Caux, 2005 .

The mechanisms underlying the immune control of Zika virus infection at the maternal-fetal interface

J. Izopet, P. Colin, A. Amara, 2022, Frontiers in Immunology.

Zika epidemic: a step towards understanding the infectious causes of microcephaly?

P. Gressens, A. Amara, P. Gérardin, 2018, The Lancet. Infectious diseases.

Human Immunodeficiency Virus Type 1 Activates Plasmacytoid Dendritic Cells and Concomitantly Induces the Bystander Maturation of Myeloid Dendritic Cells

J. Lifson, D. Littman, N. Bhardwaj, 2004, Journal of Virology.

Dendritic‐cell‐specific ICAM3‐grabbing non‐integrin is essential for the productive infection of human dendritic cells by mosquito‐cell‐derived dengue viruses

P. Desprès, O. Schwartz, F. Fieschi, 2003, EMBO reports.

The Cell Surface Receptor DC-SIGN Discriminates betweenMycobacterium Species through Selective Recognition of the Mannose Caps on Lipoarabinomannan*

B. Gicquel, O. Neyrolles, G. Puzo, 2003, The Journal of Biological Chemistry.

DC-SIGN Is the Major Mycobacterium tuberculosis Receptor on Human Dendritic Cells

O. Schwartz, L. Tailleux, B. Gicquel, 2003, The Journal of experimental medicine.

Human cytomegalovirus binding to DC-SIGN is required for dendritic cell infection and target cell trans-infection.

Hugues Lortat-Jacob, J. Moreau, F. Fieschi, 2002, Immunity.

C-type Lectins L-SIGN and DC-SIGN Capture and Transmit Infectious Hepatitis C Virus Pseudotype Particles*

B. Bartosch, F. Cosset, R. Altmeyer, 2004, Journal of Biological Chemistry.

The CXC chemokine SDF-1 is the ligand for LESTR/fusin and prevents infection by T-cell-line-adapted HIV-1

Bernhard Moser, M. Baggiolini, O. Schwartz, 1996, Nature.

Antibodies to C-C Chemokine Receptor 5 in Normal Human IgG Block Infection of Macrophages and Lymphocytes with Primary R5-Tropic Strains of HIV-11

S. Kaveri, M. Kazatchkine, R. Longhi, 2001, The Journal of Immunology.

TYMSTR, a putative chemokine receptor selectively expressed in activated T cells, exhibits HIV-1 coreceptor function

E. Meese, M. Baggiolini, P. Loetscher, 1997, Current Biology.

HIV Coreceptor Downregulation as Antiviral Principle: SDF-1α–dependent Internalization of the Chemokine Receptor CXCR4 Contributes to Inhibition of HIV Replication

Jean Salamero, J. Salamero, M. Baggiolini, 1997, The Journal of experimental medicine.

A controlled vaccination trial for Newcastle disease under village conditions

A. Amara, J. G. Bell, D. Belarbi, 1990 .

Optimal Inhibition of X4 HIV Isolates by the CXC Chemokine Stromal Cell-derived Factor 1α Requires Interaction with Cell Surface Heparan Sulfate Proteoglycans*

J. Galzi, F. Baleux, R. Altmeyer, 2001, The Journal of Biological Chemistry.

Severe outbreaks of infectious Bursal Disease in Morocco

A. Amara, J. G. Bell, M. Mouahid, 1992 .

Characterization and functional interrogation of the SARS-CoV-2 RNA interactome

P. Vidalain, V. Lotteau, V. Soumelis, 2021, bioRxiv.

SARS-CoV-2 induces activation and diversification of human plasmacytoid pre-dendritic cells

C. Delaugerre, V. Soumelis, A. Amara, 2020, bioRxiv.

Interactions among HIV gp120, CD4, and CXCR4: dependence on CD4 expression level, gp120 viral origin, conservation of the gp120 COOH- and NH2-termini and V1/V2 and V3 loops, and sensitivity to neutralizing antibodies.

J. Sodroski, Q. Sattentau, J. Hoxie, 1998, Virology.

Pathogenesis of flavivirus infections: using and abusing the host cell.

M. Fernandez-Garcia, Michela Mazzon, M. Jacobs, 2009, Cell host & microbe.

Inborn errors of type I IFN immunity in patients with life-threatening COVID-19

Jacques Fellay, Agatha Schlüter, Aurora Pujol, 2020, Science.

Essential Role of Dengue Virus Envelope Protein N Glycosylation at Asparagine-67 during Viral Propagation

A. Gamarnik, P. Lozach, A. Amara, 2007, Journal of Virology.

SARS-CoV-2 induces human plasmacytoid pre-dendritic cell diversification via UNC93B and IRAK4

J. Casanova, C. Picard, C. Delaugerre, 2020, bioRxiv : the preprint server for biology.

Stromal-cell derived factor is expressed by dendritic cells and endothelium in human skin.

A. Amara, F. Arenzana‐Seisdedos, T. Delaunay, 1999, The American journal of pathology.

Developmental pattern of expression of the alpha chemokine stromal cell‐derived factor 1 in the rat central nervous system

I. Franceschini, A. Amara, F. Lachapelle, 2001, The European journal of neuroscience.

A Global Interactome Map of the Dengue Virus NS1 Identifies Virus Restriction and Dependency Host Factors.

P. Vidalain, C. Delaugerre, P. Roingeard, 2017, Cell reports.

After Hrs with HIV

D. Littman, A. Amara, 2003, The Journal of cell biology.

FHL1 is a major host factor for chikungunya virus infection

P. Vidalain, C. Delaugerre, P. Roingeard, 2019, Nature.

Viral apoptotic mimicry

J. Mercer, A. Amara, 2015, Nature Reviews Microbiology.

Flavivirus Entry Receptors: An Update

A. Amara, Manuel Perera-Lecoin, Xavier Carnec, 2013, Viruses.

The TIM and TAM families of phosphatidylserine receptors mediate dengue virus entry.

O. Schwartz, G. Lemke, A. Amara, 2012, Cell host & microbe.

Characterization of HIV-1 diversity in various compartments at the time of primary infection by ultradeep sequencing

C. Delaugerre, A. Amara, J. Molina, 2020, Scientific Reports.

X-linked recessive TLR7 deficiency in ~1% of men under 60 years old with life-threatening COVID-19

R. Nussbaum, J. Casanova, M. Gut, 2021, Science immunology.

Decoding the Human Genetic and Immunological Basis of COVID-19 mRNA Vaccine-Induced Myocarditis

Mark S. Anderson, P. Gregersen, J. Casanova, 2022, Journal of Clinical Immunology.

HIV‐1 infection of primary effusion lymphoma cell line triggers Kaposi's sarcoma‐associated herpesvirus (KSHV) reactivation

C. Lebbé, P. Morel, H. de Thé, 2002, International journal of cancer.

Human genetic determinants of dengue virus susceptibility.

Philippe Després, Anavaj Sakuntabhai, Anne-Claire Brehin, 2009, Microbes and infection.

Dissociation of the signalling and antiviral properties of SDF-1-derived small peptides

A. Trautmann, J. Schneider-Mergener, N. Heveker, 1998, Current Biology.

Circulating autoantibodies directed against conjugated fatty acids in sera of HIV‐1‐infected patients

M. Geffard, J. Ragnaud, A. Amara, 1994, Clinical and experimental immunology.

Characteristics, risk factors and outcome of BKV nephropathy in kidney transplant recipients: a case–control study

C. Delaugerre, A. Amara, J. Molina, 2023, BMC Infectious Diseases.

TIM-1 Ubiquitination Mediates Dengue Virus Entry.

J. Tinevez, C. Delaugerre, P. Roingeard, 2018, Cell reports.

Atlastin Endoplasmic Reticulum-Shaping Proteins Facilitate Zika Virus Replication

C. Blackstone, P. Roingeard, O. Schwartz, 2019, Journal of Virology.

A field trial of the heat resistant V4 vaccine against Newcastle disease by eye-drop inoculation in village poultry in Cameroon

A. Amara, J. G. Bell, G. Agbédé, 1995 .

Ultraviolet radiation-induced injury, chemokines, and leukocyte recruitment: An amplification cycle triggering cutaneous lupus erythematosus.

A. Zlotnik, M. Gilliet, S. Meller, 2005, Arthritis and rheumatism.

Identification of a benzo[a]pyrene-like binding protein involved in circulating immune complexes of patients with mammary tumors.

M. Geffard, A. Amara, J. Chagnaud, 1995, Cancer letters.

Supplementary Table 8

Mario Schelhaas, P. Liberali, B. Snijder, 2014 .

Supplementary Table 5

Mario Schelhaas, P. Liberali, B. Snijder, 2012 .

The C Type Lectins DC-SIGN and L-SIGN

P. Lozach, L. Burleigh, A. Amara, 2007, Methods in molecular biology.

Vaccine and Wild-Type Strains of Yellow Fever Virus Engage Distinct Entry Mechanisms and Differentially Stimulate Antiviral Immune Responses

M. Fernandez-Garcia, P. Desprès, N. Sauvonnet, 2016, mBio.

Deep sequencing analysis of M184V/I mutation at the switch and at the time of virological failure of boosted protease inhibitor plus lamivudine or boosted protease inhibitor maintenance strategy (substudy of the ANRS-MOBIDIP trial).

C. Delaugerre, S. Eymard-Duvernay, A. Amara, 2021, The Journal of antimicrobial chemotherapy.

Low levels of co-receptor CCR5 are sufficient to permit HIV envelope-mediated fusion with resting CD4 T cells.

F. Baleux, R. Altmeyer, A. Amara, 2002, AIDS.

A Genome-Wide CRISPR-Cas9 Screen Identifies the Dolichol-Phosphate Mannose Synthase Complex as a Host Dependency Factor for Dengue Virus Infection

Etienne Simon-Loriere, Alessia Zamborlini, C. Delaugerre, 2020, Journal of Virology.

Appraising the Roles of CBLL1 and the Ubiquitin/Proteasome System for Flavivirus Entry and Replication

M. Fernandez-Garcia, P. Cossart, M. Bonazzi, 2010, Journal of Virology.

BK virus genotypes and humoral response in kidney transplant recipients with BKV associated nephropathy

C. Delaugerre, A. Amara, J. Molina, 2023, Transplant infectious disease : an official journal of the Transplantation Society.

Screening test for neutralizing antibodies against yellow fever virus, based on a flavivirus pseudotype

R. Césaire, A. Amara, J. Molina, 2017, PloS one.

Human Immunodeficiency Virus (HIV) Envelope Binds to CXCR4 Independently of CD4, and Binding Can Be Enhanced by Interaction with Soluble CD4 or by HIV Envelope Deglycosylation

Susan Zolla-Pazner, J. Hoxie, S. Zolla-Pazner, 1998, Journal of Virology.

A Global Interactome Map of the Dengue Virus NS1 Identifies Virus Restriction and Dependency Host Factors.

P. Vidalain, C. Delaugerre, P. Roingeard, 2018, Cell reports.

RACK1 Associates with RNA-Binding Proteins Vigilin and SERBP1 to Facilitate Dengue Virus Replication

S. Pfeffer, P. Vidalain, C. Delaugerre, 2022, Journal of virology.

Report of a patient with camptodactyly, arthropathy, and epiphyseal dysplasia.

A. Amara, A. Ferchiou, M. Hamza, 1988, Arthritis and rheumatism.

RACK1 associates with RNA-binding proteins Vigilin and SERBP1 to control dengue virus replication

S. Pfeffer, P. Vidalain, C. Delaugerre, 2021, bioRxiv.

Control of HIV Entry and Transcription, as a Possible Mechanism of the Antiviral Effects of T Lymphocytes in HIV Infection

E. Oberlin, A. Amara, D. Rousset, 1997 .

Single-cell analysis of population context advances RNAi screening at multiple levels

Mario Schelhaas, P. Liberali, B. Snijder, 2013 .

Comment After Hrs with HIV

D. Littman, A. Amara, 2003 .