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Items: 1 to 50 of 126

1.

A curated transcriptome dataset collection to investigate inborn errors of immunity.

Bougarn S, Boughorbel S, Chaussabel D, Marr N.

Version 2. F1000Res. 2019 Feb 15 [revised 2019 Jan 1];8:188. doi: 10.12688/f1000research.18048.2. eCollection 2019.

2.

Transketolase and vitamin B1 influence on ROS-dependent neutrophil extracellular traps (NETs) formation.

Riyapa D, Rinchai D, Muangsombut V, Wuttinontananchai C, Toufiq M, Chaussabel D, Ato M, Blackwell JM, Korbsrisate S.

PLoS One. 2019 Aug 15;14(8):e0221016. doi: 10.1371/journal.pone.0221016. eCollection 2019.

3.

A curated collection of transcriptome datasets to investigate the molecular mechanisms of immunoglobulin E-mediated atopic diseases.

Huang SSY, Al Ali F, Boughorbel S, Toufiq M, Chaussabel D, Garand M.

Database (Oxford). 2019 Jan 1;2019. pii: baz066. doi: 10.1093/database/baz066.

4.

Transcriptional profiling unveils type I and II interferon networks in blood and tissues across diseases.

Singhania A, Graham CM, Gabryšová L, Moreira-Teixeira L, Stavropoulos E, Pitt JM, Chakravarty P, Warnatsch A, Branchett WJ, Conejero L, Lin JW, Davidson S, Wilson MS, Bancroft G, Langhorne J, Frickel E, Sesay AK, Priestnall SL, Herbert E, Ioannou M, Wang Q, Humphreys IR, Dodd J, Openshaw PJM, Mayer-Barber KD, Jankovic D, Sher A, Lloyd CM, Baldwin N, Chaussabel D, Papayannopoulos V, Wack A, Banchereau JF, Pascual VM, O'Garra A.

Nat Commun. 2019 Jun 28;10(1):2887. doi: 10.1038/s41467-019-10601-6.

5.

A curated transcriptome dataset collection to investigate the blood transcriptional response to viral respiratory tract infection and vaccination.

Bougarn S, Boughorbel S, Chaussabel D, Marr N.

F1000Res. 2019 Mar 13;8:284. doi: 10.12688/f1000research.18533.1. eCollection 2019.

6.

A prospective cohort for the investigation of alteration in temporal transcriptional and microbiome trajectories preceding preterm birth: a study protocol.

Brummaier T, Syed Ahamed Kabeer B, Lindow S, Konje JC, Pukrittayaamee S, Utzinger J, Toufiq M, Antoniou A, Marr AK, Suriyakan S, Kino T, Al Khodor S, Terranegra A, Nosten F, Paris DH, McGready R, Chaussabel D.

BMJ Open. 2019 Jan 15;9(1):e023417. doi: 10.1136/bmjopen-2018-023417.

7.

Author Correction: Progression of whole-blood transcriptional signatures from interferon-induced to neutrophil-associated patterns in severe influenza.

Dunning J, Blankley S, Hoang LT, Cox M, Graham CM, James PL, Bloom CI, Chaussabel D, Banchereau J, Brett SJ; MOSAIC Investigators, Moffatt MF, O'Garra A, Openshaw PJM.

Nat Immunol. 2019 Mar;20(3):373. doi: 10.1038/s41590-019-0328-y.

8.

Life-threatening influenza pneumonitis in a child with inherited IRF9 deficiency.

Hernandez N, Melki I, Jing H, Habib T, Huang SSY, Danielson J, Kula T, Drutman S, Belkaya S, Rattina V, Lorenzo-Diaz L, Boulai A, Rose Y, Kitabayashi N, Rodero MP, Dumaine C, Blanche S, Lebras MN, Leung MC, Mathew LS, Boisson B, Zhang SY, Boisson-Dupuis S, Giliani S, Chaussabel D, Notarangelo LD, Elledge SJ, Ciancanelli MJ, Abel L, Zhang Q, Marr N, Crow YJ, Su HC, Casanova JL.

J Exp Med. 2018 Oct 1;215(10):2567-2585. doi: 10.1084/jem.20180628. Epub 2018 Aug 24.

9.

A recessive form of hyper-IgE syndrome by disruption of ZNF341-dependent STAT3 transcription and activity.

Béziat V, Li J, Lin JX, Ma CS, Li P, Bousfiha A, Pellier I, Zoghi S, Baris S, Keles S, Gray P, Du N, Wang Y, Zerbib Y, Lévy R, Leclercq T, About F, Lim AI, Rao G, Payne K, Pelham SJ, Avery DT, Deenick EK, Pillay B, Chou J, Guery R, Belkadi A, Guérin A, Migaud M, Rattina V, Ailal F, Benhsaien I, Bouaziz M, Habib T, Chaussabel D, Marr N, El-Benna J, Grimbacher B, Wargon O, Bustamante J, Boisson B, Müller-Fleckenstein I, Fleckenstein B, Chandesris MO, Titeux M, Fraitag S, Alyanakian MA, Leruez-Ville M, Picard C, Meyts I, Di Santo JP, Hovnanian A, Somer A, Ozen A, Rezaei N, Chatila TA, Abel L, Leonard WJ, Tangye SG, Puel A, Casanova JL.

Sci Immunol. 2018 Jun 15;3(24). pii: eaat4956. doi: 10.1126/sciimmunol.aat4956.

10.

Whole blood transcriptional profiles as a prognostic tool in complete and incomplete Kawasaki Disease.

Jaggi P, Mejias A, Xu Z, Yin H, Moore-Clingenpeel M, Smith B, Burns JC, Tremoulet AH, Jordan-Villegas A, Chaussabel D, Texter K, Pascual V, Ramilo O.

PLoS One. 2018 May 29;13(5):e0197858. doi: 10.1371/journal.pone.0197858. eCollection 2018.

11.

Progression of whole-blood transcriptional signatures from interferon-induced to neutrophil-associated patterns in severe influenza.

Dunning J, Blankley S, Hoang LT, Cox M, Graham CM, James PL, Bloom CI, Chaussabel D, Banchereau J, Brett SJ, Moffatt MF, O'Garra A, Openshaw PJM; MOSAIC Investigators.

Nat Immunol. 2018 Jun;19(6):625-635. doi: 10.1038/s41590-018-0111-5. Epub 2018 May 18. Erratum in: Nat Immunol. 2019 Mar;20(3):373.

12.

Using 'collective omics data' for biomedical research training.

Chaussabel D, Rinchai D.

Immunology. 2018 Sep;155(1):18-23. doi: 10.1111/imm.12944. Epub 2018 May 30. Review.

13.

IRF4 haploinsufficiency in a family with Whipple's disease.

Guérin A, Kerner G, Marr N, Markle JG, Fenollar F, Wong N, Boughorbel S, Avery DT, Ma CS, Bougarn S, Bouaziz M, Béziat V, Della Mina E, Oleaga-Quintas C, Lazarov T, Worley L, Nguyen T, Patin E, Deswarte C, Martinez-Barricarte R, Boucherit S, Ayral X, Edouard S, Boisson-Dupuis S, Rattina V, Bigio B, Vogt G, Geissmann F, Quintana-Murci L, Chaussabel D, Tangye SG, Raoult D, Abel L, Bustamante J, Casanova JL.

Elife. 2018 Mar 14;7. pii: e32340. doi: 10.7554/eLife.32340.

14.

A collection of annotated and harmonized human breast cancer transcriptome datasets, including immunologic classification.

Roelands J, Decock J, Boughorbel S, Rinchai D, Maccalli C, Ceccarelli M, Black M, Print C, Chou J, Presnell S, Quinn C, Jithesh P, Syed N, Al Bader SBJ, Bedri S, Wang E, Marincola FM, Chaussabel D, Kuppen P, Miller LD, Bedognetti D, Hendrickx W.

Version 2. F1000Res. 2017 Mar 20 [revised 2018 Jan 1];6:296. doi: 10.12688/f1000research.10960.2. eCollection 2017.

15.

Shared and organism-specific host responses to childhood diarrheal diseases revealed by whole blood transcript profiling.

DeBerg HA, Zaidi MB, Altman MC, Khaenam P, Gersuk VH, Campos FD, Perez-Martinez I, Meza-Segura M, Chaussabel D, Banchereau J, Estrada-Garcia T, Linsley PS.

PLoS One. 2018 Jan 29;13(1):e0192082. doi: 10.1371/journal.pone.0192082. eCollection 2018.

16.
17.

Finger stick blood collection for gene expression profiling and storage of tempus blood RNA tubes.

Rinchai D, Anguiano E, Nguyen P, Chaussabel D.

Version 2. F1000Res. 2016 Jun 15 [revised 2017 Jan 1];5:1385. doi: 10.12688/f1000research.8841.2. eCollection 2016.

18.

Human Adaptive Immunity Rescues an Inborn Error of Innate Immunity.

Israel L, Wang Y, Bulek K, Della Mina E, Zhang Z, Pedergnana V, Chrabieh M, Lemmens NA, Sancho-Shimizu V, Descatoire M, Lasseau T, Israelsson E, Lorenzo L, Yun L, Belkadi A, Moran A, Weisman LE, Vandenesch F, Batteux F, Weller S, Levin M, Herberg J, Abhyankar A, Prando C, Itan Y, van Wamel WJB, Picard C, Abel L, Chaussabel D, Li X, Beutler B, Arkwright PD, Casanova JL, Puel A.

Cell. 2017 Feb 23;168(5):789-800.e10. doi: 10.1016/j.cell.2017.01.039.

19.

Multicenter Systems Analysis of Human Blood Reveals Immature Neutrophils in Males and During Pregnancy.

Blazkova J, Gupta S, Liu Y, Gaudilliere B, Ganio EA, Bolen CR, Saar-Dover R, Fragiadakis GK, Angst MS, Hasni S, Aghaeepour N, Stevenson D, Baldwin N, Anguiano E, Chaussabel D, Altman MC, Kaplan MJ, Davis MM, Furman D.

J Immunol. 2017 Mar 15;198(6):2479-2488. doi: 10.4049/jimmunol.1601855. Epub 2017 Feb 8.

20.

Inherited human IRAK-1 deficiency selectively impairs TLR signaling in fibroblasts.

Della Mina E, Borghesi A, Zhou H, Bougarn S, Boughorbel S, Israel L, Meloni I, Chrabieh M, Ling Y, Itan Y, Renieri A, Mazzucchelli I, Basso S, Pavone P, Falsaperla R, Ciccone R, Cerbo RM, Stronati M, Picard C, Zuffardi O, Abel L, Chaussabel D, Marr N, Li X, Casanova JL, Puel A.

Proc Natl Acad Sci U S A. 2017 Jan 24;114(4):E514-E523. doi: 10.1073/pnas.1620139114. Epub 2017 Jan 9.

21.

Modular transcriptional repertoire analyses identify a blood neutrophil signature as a candidate biomarker for lupus nephritis.

Jourde-Chiche N, Whalen E, Gondouin B, Speake C, Gersuk V, Dussol B, Burtey S, Pascual V, Chaussabel D, Chiche L.

Rheumatology (Oxford). 2017 Mar 1;56(3):477-487. doi: 10.1093/rheumatology/kew439.

22.

Longitudinal monitoring of gene expression in ultra-low-volume blood samples self-collected at home.

Speake C, Whalen E, Gersuk VH, Chaussabel D, Odegard JM, Greenbaum CJ.

Clin Exp Immunol. 2017 May;188(2):226-233. doi: 10.1111/cei.12916. Epub 2017 Mar 2.

23.

Nasopharyngeal Microbiota, Host Transcriptome, and Disease Severity in Children with Respiratory Syncytial Virus Infection.

de Steenhuijsen Piters WA, Heinonen S, Hasrat R, Bunsow E, Smith B, Suarez-Arrabal MC, Chaussabel D, Cohen DM, Sanders EA, Ramilo O, Bogaert D, Mejias A.

Am J Respir Crit Care Med. 2016 Nov 1;194(9):1104-1115.

24.

The Transcriptional Signature of Active Tuberculosis Reflects Symptom Status in Extra-Pulmonary and Pulmonary Tuberculosis.

Blankley S, Graham CM, Turner J, Berry MP, Bloom CI, Xu Z, Pascual V, Banchereau J, Chaussabel D, Breen R, Santis G, Blankenship DM, Lipman M, O'Garra A.

PLoS One. 2016 Oct 5;11(10):e0162220. doi: 10.1371/journal.pone.0162220. eCollection 2016.

25.

Association of RNA Biosignatures With Bacterial Infections in Febrile Infants Aged 60 Days or Younger.

Mahajan P, Kuppermann N, Mejias A, Suarez N, Chaussabel D, Casper TC, Smith B, Alpern ER, Anders J, Atabaki SM, Bennett JE, Blumberg S, Bonsu B, Borgialli D, Brayer A, Browne L, Cohen DM, Crain EF, Cruz AT, Dayan PS, Gattu R, Greenberg R, Hoyle JD Jr, Jaffe DM, Levine DA, Lillis K, Linakis JG, Muenzer J, Nigrovic LE, Powell EC, Rogers AJ, Roosevelt G, Ruddy RM, Saunders M, Tunik MG, Tzimenatos L, Vitale M, Dean JM, Ramilo O; Pediatric Emergency Care Applied Research Network (PECARN).

JAMA. 2016 Aug 23-30;316(8):846-57. doi: 10.1001/jama.2016.9207. Erratum in: JAMA. 2016 Nov 8;316(18):1924.

26.

Blood-Borne RNA Correlates with Disease Activity and IFN-Stimulated Gene Expression in Systemic Lupus Erythematosus.

Doedens JR, Jones WD, Hill K, Mason MJ, Gersuk VH, Mease PJ, Dall'Era M, Aranow C, Martin RW, Cohen SB, Fleischmann RM, Kivitz AJ, Burge DJ, Chaussabel D, Elkon KB, Posada JA.

J Immunol. 2016 Oct 1;197(7):2854-63. doi: 10.4049/jimmunol.1601142. Epub 2016 Aug 17.

27.

Transcriptomic evidence for modulation of host inflammatory responses during febrile Plasmodium falciparum malaria.

Tran TM, Jones MB, Ongoiba A, Bijker EM, Schats R, Venepally P, Skinner J, Doumbo S, Quinten E, Visser LG, Whalen E, Presnell S, O'Connell EM, Kayentao K, Doumbo OK, Chaussabel D, Lorenzi H, Nutman TB, Ottenhoff TH, Haks MC, Traore B, Kirkness EF, Sauerwein RW, Crompton PD.

Sci Rep. 2016 Aug 10;6:31291. doi: 10.1038/srep31291.

28.

A curated transcriptome dataset collection to investigate the functional programming of human hematopoietic cells in early life.

Rahman M, Boughorbel S, Presnell S, Quinn C, Cugno C, Chaussabel D, Marr N.

F1000Res. 2016 Mar 30;5:414. doi: 10.12688/f1000research.8375.1. eCollection 2016.

29.

A curated transcriptome dataset collection to investigate the development and differentiation of the human placenta and its associated pathologies.

Marr AK, Boughorbel S, Presnell S, Quinn C, Chaussabel D, Kino T.

Version 2. F1000Res. 2016 Mar 9 [revised 2016 Jan 1];5:305. doi: 10.12688/f1000research.8210.2. eCollection 2016.

30.

CDX2 as a Prognostic Biomarker in Colon Cancer.

Chiche L, Rinchai D, Chaussabel D.

N Engl J Med. 2016 Jun 2;374(22):2183-4. doi: 10.1056/NEJMc1602584. No abstract available.

PMID:
27248630
31.

Introducing a New Dimension to Molecular Disease Classifications.

Jourde-Chiche N, Chiche L, Chaussabel D.

Trends Mol Med. 2016 Jun;22(6):451-453. doi: 10.1016/j.molmed.2016.04.005. Epub 2016 May 5.

PMID:
27161597
32.

A curated compendium of monocyte transcriptome datasets of relevance to human monocyte immunobiology research.

Rinchai D, Boughorbel S, Presnell S, Quinn C, Chaussabel D.

F1000Res. 2016 Apr 25;5:291. doi: 10.12688/f1000research.8182.2. eCollection 2016.

33.

A compendium of monocyte transcriptome datasets to foster biomedical knowledge discovery.

Rinchai D, Boughorbel S, Presnell S, Quinn C, Chaussabel D.

F1000Res. 2016 Mar 7;5:291. doi: 10.12688/f1000research.8182.1. eCollection 2016.

34.

A curated transcriptome dataset collection to investigate the immunobiology of HIV infection.

Blazkova J, Boughorbel S, Presnell S, Quinn C, Chaussabel D.

F1000Res. 2016 Mar 11;5:327. doi: 10.12688/f1000research.8204.1. eCollection 2016.

35.

A 380-gene meta-signature of active tuberculosis compared with healthy controls.

Blankley S, Graham CM, Levin J, Turner J, Berry MP, Bloom CI, Xu Z, Pascual V, Banchereau J, Chaussabel D, Breen R, Santis G, Blankenship DM, Lipman M, O'Garra A.

Eur Respir J. 2016 Jun;47(6):1873-6. doi: 10.1183/13993003.02121-2015. Epub 2016 Apr 13. No abstract available.

36.

Analysis of Transcriptional Signatures in Response to Listeria monocytogenes Infection Reveals Temporal Changes That Result from Type I Interferon Signaling.

Pitt JM, Blankley S, Potempa K, Graham CM, Moreira-Teixeira L, McNab FW, Howes A, Stavropoulos E, Pascual V, Banchereau J, Chaussabel D, O'Garra A.

PLoS One. 2016 Feb 26;11(2):e0150251. doi: 10.1371/journal.pone.0150251. eCollection 2016.

37.

Neuroinvasive West Nile Infection Elicits Elevated and Atypically Polarized T Cell Responses That Promote a Pathogenic Outcome.

James EA, Gates TJ, LaFond RE, Yamamoto S, Ni C, Mai D, Gersuk VH, O'Brien K, Nguyen QA, Zeitner B, Lanteri MC, Norris PJ, Chaussabel D, Malhotra U, Kwok WW.

PLoS Pathog. 2016 Jan 21;12(1):e1005375. doi: 10.1371/journal.ppat.1005375. eCollection 2016 Jan.

38.

Blood Interferon Signatures Putatively Link Lack of Protection Conferred by the RTS,S Recombinant Malaria Vaccine to an Antigen-specific IgE Response.

Rinchai D, Presnell S, Vidal M, Dutta S, Chauhan V, Cavanagh D, Moncunill G, Dobaño C, Chaussabel D.

Version 2. F1000Res. 2015 Sep 29 [revised 2017 Jan 1];4:919. doi: 10.12688/f1000research.7093.2. eCollection 2015.

39.

HIV-tuberculosis-associated immune reconstitution inflammatory syndrome is characterized by Toll-like receptor and inflammasome signalling.

Lai RPJ, Meintjes G, Wilkinson KA, Graham CM, Marais S, Van der Plas H, Deffur A, Schutz C, Bloom C, Munagala I, Anguiano E, Goliath R, Maartens G, Banchereau J, Chaussabel D, O'Garra A, Wilkinson RJ.

Nat Commun. 2015 Sep 24;6:8451. doi: 10.1038/ncomms9451.

40.

The Relationship of Immune Cell Signatures to Patient Survival Varies within and between Tumor Types.

Linsley PS, Chaussabel D, Speake C.

PLoS One. 2015 Sep 23;10(9):e0138726. doi: 10.1371/journal.pone.0138726. eCollection 2015.

41.

Adult-onset type 1 diabetes patients display decreased IGRP-specific Tr1 cells in blood.

Chujo D, Nguyen TS, Foucat E, Blankenship D, Banchereau J, Nepom GT, Chaussabel D, Ueno H.

Clin Immunol. 2015 Dec;161(2):270-7. doi: 10.1016/j.clim.2015.08.014. Epub 2015 Sep 2.

PMID:
26341315
42.

The Blood Transcriptome of Experimental Melioidosis Reflects Disease Severity and Shows Considerable Similarity with the Human Disease.

Conejero L, Potempa K, Graham CM, Spink N, Blankley S, Salguero FJ, Pankla-Sranujit R, Khaenam P, Banchereau JF, Pascual V, Chaussabel D, Lertmemongkolchai G, O'Garra A, Bancroft GJ.

J Immunol. 2015 Oct 1;195(7):3248-3261. doi: 10.4049/jimmunol.1500641. Epub 2015 Aug 26.

43.

Human TYK2 deficiency: Mycobacterial and viral infections without hyper-IgE syndrome.

Kreins AY, Ciancanelli MJ, Okada S, Kong XF, Ramírez-Alejo N, Kilic SS, El Baghdadi J, Nonoyama S, Mahdaviani SA, Ailal F, Bousfiha A, Mansouri D, Nievas E, Ma CS, Rao G, Bernasconi A, Sun Kuehn H, Niemela J, Stoddard J, Deveau P, Cobat A, El Azbaoui S, Sabri A, Lim CK, Sundin M, Avery DT, Halwani R, Grant AV, Boisson B, Bogunovic D, Itan Y, Moncada-Velez M, Martinez-Barricarte R, Migaud M, Deswarte C, Alsina L, Kotlarz D, Klein C, Muller-Fleckenstein I, Fleckenstein B, Cormier-Daire V, Rose-John S, Picard C, Hammarstrom L, Puel A, Al-Muhsen S, Abel L, Chaussabel D, Rosenzweig SD, Minegishi Y, Tangye SG, Bustamante J, Casanova JL, Boisson-Dupuis S.

J Exp Med. 2015 Sep 21;212(10):1641-62. doi: 10.1084/jem.20140280. Epub 2015 Aug 24.

44.

An interactive web application for the dissemination of human systems immunology data.

Speake C, Presnell S, Domico K, Zeitner B, Bjork A, Anderson D, Mason MJ, Whalen E, Vargas O, Popov D, Rinchai D, Jourde-Chiche N, Chiche L, Quinn C, Chaussabel D.

J Transl Med. 2015 Jun 19;13:196. doi: 10.1186/s12967-015-0541-x.

45.

A vision and a prescription for big data-enabled medicine.

Chaussabel D, Pulendran B.

Nat Immunol. 2015 May;16(5):435-9. doi: 10.1038/ni.3151. No abstract available.

PMID:
25898187
46.

Increased abundance of ADAM9 transcripts in the blood is associated with tissue damage.

Rinchai D, Kewcharoenwong C, Kessler B, Lertmemongkolchai G, Chaussabel D.

Version 2. F1000Res. 2015 Apr 9 [revised 2016 Jan 1];4:89. doi: 10.12688/f1000research.6241.2. eCollection 2015.

47.

Assessment of immune status using blood transcriptomics and potential implications for global health.

Chaussabel D.

Semin Immunol. 2015 Feb;27(1):58-66. doi: 10.1016/j.smim.2015.03.002. Epub 2015 Mar 29. Review.

48.

Erratum to: Mutations of HNRNPA0 and WIF1 predispose members of a large family to multiple cancers.

Wei C, Peng B, Han Y, Chen WV, Rother J, Tomlinson GE, Richard Boland C, Chaussabel D, Frazier ML, Amos CI.

Fam Cancer. 2015 Jun;14(2):307. doi: 10.1007/s10689-015-9801-4. No abstract available.

49.

Infectious disease. Life-threatening influenza and impaired interferon amplification in human IRF7 deficiency.

Ciancanelli MJ, Huang SX, Luthra P, Garner H, Itan Y, Volpi S, Lafaille FG, Trouillet C, Schmolke M, Albrecht RA, Israelsson E, Lim HK, Casadio M, Hermesh T, Lorenzo L, Leung LW, Pedergnana V, Boisson B, Okada S, Picard C, Ringuier B, Troussier F, Chaussabel D, Abel L, Pellier I, Notarangelo LD, García-Sastre A, Basler CF, Geissmann F, Zhang SY, Snoeck HW, Casanova JL.

Science. 2015 Apr 24;348(6233):448-53. doi: 10.1126/science.aaa1578. Epub 2015 Mar 26.

50.

Diarrheagenic Escherichia coli carrying supplementary virulence genes are an important cause of moderate to severe diarrhoeal disease in Mexico.

Patzi-Vargas S, Zaidi MB, Perez-Martinez I, León-Cen M, Michel-Ayala A, Chaussabel D, Estrada-Garcia T.

PLoS Negl Trop Dis. 2015 Mar 4;9(3):e0003510. doi: 10.1371/journal.pntd.0003510. eCollection 2015 Mar.

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