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Items: 1 to 50 of 117

1.

Investigation of soluble anti-Müllerian hormone receptor type 2 as a biomarker for diagnosis of female fertility disorders.

Olivier LS, Evliyaoglu O, Weiskirchen R, van Helden J.

Reprod Biomed Online. 2019 Aug 27. pii: S1472-6483(19)30707-2. doi: 10.1016/j.rbmo.2019.08.007. [Epub ahead of print]

PMID:
31727499
2.

Determining a Line Strength in the ν3 Band of the Silyl Radical Using Quantum Cascade Laser Absorption Spectroscopy.

Nave AS, Pipa AV, Davies PB, Röpcke J, van Helden JH.

J Phys Chem A. 2019 Nov 12. doi: 10.1021/acs.jpca.9b06351. [Epub ahead of print]

PMID:
31661957
3.

Reference change values of M-protein, free light chain and immunoglobulins in monoclonal gammopathy.

Evliyaoglu O, van Helden J, Jaruschewski S, Imöhl M, Weiskirchen R.

Clin Biochem. 2019 Sep 14. pii: S0009-9120(19)30545-4. doi: 10.1016/j.clinbiochem.2019.09.004. [Epub ahead of print]

PMID:
31526775
4.

The bio.tools registry of software tools and data resources for the life sciences.

Ison J, Ienasescu H, Chmura P, Rydza E, Ménager H, Kalaš M, Schwämmle V, Grüning B, Beard N, Lopez R, Duvaud S, Stockinger H, Persson B, Vařeková RS, Raček T, Vondrášek J, Peterson H, Salumets A, Jonassen I, Hooft R, Nyrönen T, Valencia A, Capella S, Gelpí J, Zambelli F, Savakis B, Leskošek B, Rapacki K, Blanchet C, Jimenez R, Oliveira A, Vriend G, Collin O, van Helden J, Løngreen P, Brunak S.

Genome Biol. 2019 Aug 12;20(1):164. doi: 10.1186/s13059-019-1772-6.

5.

Liver Fibrosis and Metabolic Alterations in Adults With alpha-1-antitrypsin Deficiency Caused by the Pi*ZZ Mutation.

Hamesch K, Mandorfer M, Pereira VM, Moeller LS, Pons M, Dolman GE, Reichert MC, Schneider CV, Woditsch V, Voss J, Lindhauer C, Fromme M, Spivak I, Guldiken N, Zhou B, Arslanow A, Schaefer B, Zoller H, Aigner E, Reiberger T, Wetzel M, Siegmund B, Simões C, Gaspar R, Maia L, Costa D, Bento-Miranda M, van Helden J, Yagmur E, Bzdok D, Stolk J, Gleiber W, Knipel V, Windisch W, Mahadeva R, Bals R, Koczulla R, Barrecheguren M, Miravitlles M, Janciauskiene S, Stickel F, Lammert F, Liberal R, Genesca J, Griffiths WJ, Trauner M, Krag A, Trautwein C, Strnad P; European Alpha1-Liver Study Group.

Gastroenterology. 2019 Sep;157(3):705-719.e18. doi: 10.1053/j.gastro.2019.05.013. Epub 2019 May 20.

PMID:
31121167
6.

Has GnRH a direct role in AMH regulation?

van Helden J, Evliyaoglu O, Weiskirchen R.

Clin Endocrinol (Oxf). 2019 Jun;90(6):827-833. doi: 10.1111/cen.13967. Epub 2019 Apr 16.

PMID:
30868616
7.

Sub-microscopic Plasmodium falciparum infections in matched peripheral, placental and umbilical cord blood samples from asymptomatic Congolese women at delivery.

Mbouamboua Y, Koukouikila-Koussounda F, Ntoumi F, Adukpo S, Kombo M, Vouvoungui C, van Helden J, Kobawila SC.

Acta Trop. 2019 May;193:142-147. doi: 10.1016/j.actatropica.2019.03.001. Epub 2019 Mar 2.

PMID:
30836060
8.

Integrating Bacterial ChIP-seq and RNA-seq Data With SnakeChunks.

Rioualen C, Charbonnier-Khamvongsa L, Collado-Vides J, van Helden J.

Curr Protoc Bioinformatics. 2019 Jun;66(1):e72. doi: 10.1002/cpbi.72. Epub 2019 Feb 20.

PMID:
30786165
9.

Vitamin B1 interpretation: Erroneous higher levels in non-anemic populations.

Evliyaoglu O, van Helden J, Imöhl M, Weiskirchen R.

Nutrition. 2019 Apr;60:25-29. doi: 10.1016/j.nut.2018.09.002. Epub 2018 Sep 5.

PMID:
30529183
10.

Technical and diagnostic performance of a new fully automated immunoassay for the determination of intact fibroblast growth factor 23 (FGF23).

van Helden J, Weiskirchen R.

Scand J Clin Lab Invest. 2018 Nov - Dec;78(7-8):584-590. doi: 10.1080/00365513.2018.1526411. Epub 2018 Oct 31.

PMID:
30380963
11.

Cross-method comparison of serum androstenedione measurement with respect to the validation of a new fully automated chemiluminescence immunoassay.

van Helden J, Weiskirchen R.

Clin Biochem. 2018 Dec;62:32-38. doi: 10.1016/j.clinbiochem.2018.09.009. Epub 2018 Sep 24.

PMID:
30261182
12.

Mining the Age-Dependent Reference Intervals of B Vitamins from Routine Laboratory Test Results.

Evliyaoglu O, van Helden J, Imöhl M, Weiskirchen R.

Lab Med. 2019 Jan 1;50(1):54-63. doi: 10.1093/labmed/lmy045.

PMID:
30085194
13.

RES-Q-Trace: A Mobile CEAS-Based Demonstrator for Multi-Component Trace Gas Detection in the MIR.

Lang N, Macherius U, Zimmermann H, Glitsch S, Wiese M, Röpcke J, van Helden JH.

Sensors (Basel). 2018 Jun 27;18(7). pii: E2058. doi: 10.3390/s18072058.

14.

RSAT 2018: regulatory sequence analysis tools 20th anniversary.

Nguyen NTT, Contreras-Moreira B, Castro-Mondragon JA, Santana-Garcia W, Ossio R, Robles-Espinoza CD, Bahin M, Collombet S, Vincens P, Thieffry D, van Helden J, Medina-Rivera A, Thomas-Chollier M.

Nucleic Acids Res. 2018 Jul 2;46(W1):W209-W214. doi: 10.1093/nar/gky317.

15.

Sequanix: a dynamic graphical interface for Snakemake workflows.

Desvillechabrol D, Legendre R, Rioualen C, Bouchier C, van Helden J, Kennedy S, Cokelaer T.

Bioinformatics. 2018 Jun 1;34(11):1934-1936. doi: 10.1093/bioinformatics/bty034.

16.

Lipocalin-2 in Fructose-Induced Fatty Liver Disease.

Lambertz J, Berger T, Mak TW, van Helden J, Weiskirchen R.

Front Physiol. 2017 Nov 28;8:964. doi: 10.3389/fphys.2017.00964. eCollection 2017.

17.

Coordinated response of the Desulfovibrio desulfuricans 27774 transcriptome to nitrate, nitrite and nitric oxide.

Cadby IT, Faulkner M, Cheneby J, Long J, van Helden J, Dolla A, Cole JA.

Sci Rep. 2017 Nov 24;7(1):16228. doi: 10.1038/s41598-017-16403-4.

18.

Non-equivalence of anti-Müllerian hormone automated assays-clinical implications for use as a companion diagnostic for individualised gonadotrophin dosing.

Iliodromiti S, Salje B, Dewailly D, Fairburn C, Fanchin R, Fleming R, Li HWR, Lukaszuk K, Ng EHY, Pigny P, Tadros T, van Helden J, Weiskirchen R, Nelson SM.

Hum Reprod. 2017 Aug 1;32(8):1710-1715. doi: 10.1093/humrep/dex219.

19.

Transcriptional Profiling of Midguts Prepared from Trypanosoma/T. congolense-Positive Glossina palpalis palpalis Collected from Two Distinct Cameroonian Foci: Coordinated Signatures of the Midguts' Remodeling As T. congolense-Supportive Niches.

Tsagmo Ngoune JM, Njiokou F, Loriod B, Kame-Ngasse G, Fernandez-Nunez N, Rioualen C, van Helden J, Geiger A.

Front Immunol. 2017 Jul 28;8:876. doi: 10.3389/fimmu.2017.00876. eCollection 2017.

20.

RSAT matrix-clustering: dynamic exploration and redundancy reduction of transcription factor binding motif collections.

Castro-Mondragon JA, Jaeger S, Thieffry D, Thomas-Chollier M, van Helden J.

Nucleic Acids Res. 2017 Jul 27;45(13):e119. doi: 10.1093/nar/gkx314.

21.

Genome-wide characterization of mammalian promoters with distal enhancer functions.

Dao LTM, Galindo-Albarrán AO, Castro-Mondragon JA, Andrieu-Soler C, Medina-Rivera A, Souaid C, Charbonnier G, Griffon A, Vanhille L, Stephen T, Alomairi J, Martin D, Torres M, Fernandez N, Soler E, van Helden J, Puthier D, Spicuglia S.

Nat Genet. 2017 Jul;49(7):1073-1081. doi: 10.1038/ng.3884. Epub 2017 Jun 5.

PMID:
28581502
22.

RSAT::Plants: Motif Discovery in ChIP-Seq Peaks of Plant Genomes.

Castro-Mondragon JA, Rioualen C, Contreras-Moreira B, van Helden J.

Methods Mol Biol. 2016;1482:297-322. doi: 10.1007/978-1-4939-6396-6_19.

PMID:
27557775
23.

RSAT::Plants: Motif Discovery Within Clusters of Upstream Sequences in Plant Genomes.

Contreras-Moreira B, Castro-Mondragon JA, Rioualen C, Cantalapiedra CP, van Helden J.

Methods Mol Biol. 2016;1482:279-95. doi: 10.1007/978-1-4939-6396-6_18.

PMID:
27557774
24.

Confidence intervals are no salvation from the alleged fickleness of the P value.

van Helden J.

Nat Methods. 2016 Jul 28;13(8):605-6. doi: 10.1038/nmeth.3932. No abstract available.

PMID:
27467719
25.

Deciphering the adaptation strategies of Desulfovibrio piezophilus to hydrostatic pressure through metabolic and transcriptional analyses.

Amrani A, van Helden J, Bergon A, Aouane A, Ben Hania W, Tamburini C, Loriod B, Imbert J, Ollivier B, Pradel N, Dolla A.

Environ Microbiol Rep. 2016 Aug;8(4):520-6. doi: 10.1111/1758-2229.12427.

PMID:
27264199
26.

Sensitive CH<sub>4</sub> detection applying quantum cascade laser based optical feedback cavity-enhanced absorption spectroscopy.

Lang N, Macherius U, Wiese M, Zimmermann H, Röpcke J, van Helden JH.

Opt Express. 2016 Mar 21;24(6):A536-43. doi: 10.1364/OE.24.00A536.

PMID:
27136874
27.

[Diagnostic value of the quantitative HBsAg determination in hepatitis B infections].

van Helden J, Weiskirchen R.

Z Gastroenterol. 2016 Apr;54(4):319-26. doi: 10.1055/s-0042-100286. Epub 2016 Apr 7. Review. German.

PMID:
27056461
28.

The chromatin environment shapes DNA replication origin organization and defines origin classes.

Cayrou C, Ballester B, Peiffer I, Fenouil R, Coulombe P, Andrau JC, van Helden J, Méchali M.

Genome Res. 2015 Dec;25(12):1873-85. doi: 10.1101/gr.192799.115. Epub 2015 Nov 11.

29.

Analytical evaluation of the novel soluble fms-like tyrosine kinase 1 and placental growth factor assays for the diagnosis of preeclampsia.

van Helden J, Weiskirchen R.

Clin Biochem. 2015 Nov;48(16-17):1113-9. doi: 10.1016/j.clinbiochem.2015.06.020. Epub 2015 Jun 27.

PMID:
26129879
30.

Performance of the two new fully automated anti-Müllerian hormone immunoassays compared with the clinical standard assay.

van Helden J, Weiskirchen R.

Hum Reprod. 2015 Aug;30(8):1918-26. doi: 10.1093/humrep/dev127. Epub 2015 Jun 20.

PMID:
26093541
31.

RSAT 2015: Regulatory Sequence Analysis Tools.

Medina-Rivera A, Defrance M, Sand O, Herrmann C, Castro-Mondragon JA, Delerce J, Jaeger S, Blanchet C, Vincens P, Caron C, Staines DM, Contreras-Moreira B, Artufel M, Charbonnier-Khamvongsa L, Hernandez C, Thieffry D, Thomas-Chollier M, van Helden J.

Nucleic Acids Res. 2015 Jul 1;43(W1):W50-6. doi: 10.1093/nar/gkv362. Epub 2015 Apr 22.

32.

Performance evaluation of a fully automated immunoassay for the detection of human growth hormone on the Elecsys immunoassay system.

Van Helden J, Hermsen D, Von Ahsen N, Bidlingmaier M.

Clin Lab. 2014;60(10):1641-51.

PMID:
25651709
33.

Integrative analysis of public ChIP-seq experiments reveals a complex multi-cell regulatory landscape.

Griffon A, Barbier Q, Dalino J, van Helden J, Spicuglia S, Ballester B.

Nucleic Acids Res. 2015 Feb 27;43(4):e27. doi: 10.1093/nar/gku1280. Epub 2014 Dec 3.

34.

[Hepatitis C diagnostics: clinical evaluation of the HCV-core antigen determination].

van Helden J, Weiskirchen R.

Z Gastroenterol. 2014 Oct;52(10):1164-70. doi: 10.1055/s-0034-1366618. Epub 2014 Oct 14. German.

PMID:
25313628
35.

Experience with the first fully automated chemiluminescence immunoassay for the quantification of 1α, 25-dihydroxy-vitamin D.

van Helden J, Weiskirchen R.

Clin Chem Lab Med. 2015 Apr;53(5):761-70. doi: 10.1515/cclm-2014-0698.

PMID:
25274943
36.

Evaluation of fully automated assays for the detection of Rubella IgM and IgG antibodies by the Elecsys(®) immunoassay system.

van Helden J, Grangeot-Keros L, Vauloup-Fellous C, Vleminckx R, Masset F, Revello MG.

J Virol Methods. 2014 Apr;199:108-15. doi: 10.1016/j.jviromet.2014.01.009. Epub 2014 Jan 30.

PMID:
24487099
37.

Multicenter evaluation of the Elecsys® anti-HCV II assay for the diagnosis of hepatitis C virus infection.

Esteban JI, van Helden J, Alborino F, Bürgisser P, Cellerai C, Pantaleo G, Eiras A, Rodriguez MI, Ghisetti V, Gleich M, Imdahl R, Kaiser C, Möller P, Wetlitzky O, Segovia M, Schennach H, Mühlbacher A.

J Med Virol. 2013 Aug;85(8):1362-8. doi: 10.1002/jmv.23536.

PMID:
23765774
38.

Transcriptional and epigenetic signatures of zygotic genome activation during early Drosophila embryogenesis.

Darbo E, Herrmann C, Lecuit T, Thieffry D, van Helden J.

BMC Genomics. 2013 Apr 5;14:226. doi: 10.1186/1471-2164-14-226.

39.

Demonstration of a mid-infrared cavity enhanced absorption spectrometer for breath acetone detection.

Ciaffoni L, Hancock G, Harrison JJ, van Helden JP, Langley CE, Peverall R, Ritchie GA, Wood S.

Anal Chem. 2013 Jan 15;85(2):846-50. doi: 10.1021/ac3031465. Epub 2012 Dec 20.

PMID:
23231744
40.

Clinical evaluation of new automated cytomegalovirus IgM and IgG assays for the Elecsys(®) analyser platform.

Revello MG, Vauloup-Fellous C, Grangeot-Keros L, van Helden J, Dickstein Y, Lipkin I, Mühlbacher A, Lazzarotto T.

Eur J Clin Microbiol Infect Dis. 2012 Dec;31(12):3331-9. doi: 10.1007/s10096-012-1700-0. Epub 2012 Aug 1.

PMID:
22850741
41.

A complete workflow for the analysis of full-size ChIP-seq (and similar) data sets using peak-motifs.

Thomas-Chollier M, Darbo E, Herrmann C, Defrance M, Thieffry D, van Helden J.

Nat Protoc. 2012 Jul 26;7(8):1551-68. doi: 10.1038/nprot.2012.088.

PMID:
22836136
42.

Performance evaluation of a new fourth-generation HIV combination antigen-antibody assay.

Mühlbacher A, Schennach H, van Helden J, Hebell T, Pantaleo G, Bürgisser P, Cellerai C, Permpikul P, Rodriguez MI, Eiras A, Alborino F, Cunningham P, Axelsson M, Andersson S, Wetlitzky O, Kaiser C, Möller P, de Sousa G.

Med Microbiol Immunol. 2013 Feb;202(1):77-86. doi: 10.1007/s00430-012-0250-5. Epub 2012 Jun 17.

43.

Noise-immune cavity-enhanced optical heterodyne detection of HO2 in the near-infrared range.

Bell CL, van Helden JP, Blaikie TP, Hancock G, van Leeuwen NJ, Peverall R, Ritchie GA.

J Phys Chem A. 2012 May 31;116(21):5090-9. doi: 10.1021/jp301038r. Epub 2012 May 16.

PMID:
22591249
44.

Rapid passage signals from a vibrationally excited target molecule: a pump and probe experiment with continuous wave quantum cascade lasers.

Walker RJ, van Helden JH, Kirkbride J, McCormack EA, Bell MT, Weidmann D, Ritchie GA.

Opt Lett. 2011 Dec 15;36(24):4725-7. doi: 10.1364/OL.36.004725.

PMID:
22179863
45.

RSAT peak-motifs: motif analysis in full-size ChIP-seq datasets.

Thomas-Chollier M, Herrmann C, Defrance M, Sand O, Thieffry D, van Helden J.

Nucleic Acids Res. 2012 Feb;40(4):e31. doi: 10.1093/nar/gkr1104. Epub 2011 Dec 8.

46.

Predicting metabolic pathways by sub-network extraction.

Faust K, van Helden J.

Methods Mol Biol. 2012;804:107-30. doi: 10.1007/978-1-61779-361-5_7.

PMID:
22144151
47.

Bacterial molecular networks: bridging the gap between functional genomics and dynamical modelling.

van Helden J, Toussaint A, Thieffry D.

Methods Mol Biol. 2012;804:1-11. doi: 10.1007/978-1-61779-361-5_1. Review.

PMID:
22144145
48.

Clusters of conserved beta cell marker genes for assessment of beta cell phenotype.

Martens GA, Jiang L, Hellemans KH, Stangé G, Heimberg H, Nielsen FC, Sand O, Van Helden J, Van Lommel L, Schuit F, Gorus FK, Pipeleers DG.

PLoS One. 2011;6(9):e24134. doi: 10.1371/journal.pone.0024134. Epub 2011 Sep 2. Erratum in: PLoS One. 2012;7(1). doi: 10.1371/annotation/a91571a6-acbb-456f-bcc5-f4a431e28516. PLoS One. 2012;7(1). doi:10.1371/annotation/13c6d084-a8fd-4019-a3cf-12a0d8abe309.. Van Lommel, Leentje [added], Schuit, Frans [added]. PLoS One. 2012;7(1). doi:10.1371/annotation/4aae21a9-e176-4feb-9f15-103b265d3335. PLoS One. 2012;7(1). doi:10.1371/annotation/7aa0ff33-5660-4b56-889a-4b86a273d522.

49.

RSAT 2011: regulatory sequence analysis tools.

Thomas-Chollier M, Defrance M, Medina-Rivera A, Sand O, Herrmann C, Thieffry D, van Helden J.

Nucleic Acids Res. 2011 Jul;39(Web Server issue):W86-91. doi: 10.1093/nar/gkr377.

50.

Prediction of metabolic pathways from genome-scale metabolic networks.

Faust K, Croes D, van Helden J.

Biosystems. 2011 Aug;105(2):109-21. doi: 10.1016/j.biosystems.2011.05.004. Epub 2011 May 27. Review.

PMID:
21645586

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