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Assessing quality standards for ChIP-seq and related massive parallel sequencing-generated datasets: When rating goes beyond avoiding the crisis.

Genomics data

Mendoza-Parra MA, Gronemeyer H.
PMID: 26484107
Genom Data. 2014 Aug 14;2:268-73. doi: 10.1016/j.gdata.2014.08.002. eCollection 2014 Dec.

Massive parallel DNA sequencing combined with chromatin immunoprecipitation and a large variety of DNA/RNA-enrichment methodologies is at the origin of data resources of major importance. Indeed these resources, available for multiple genomes, represent the most comprehensive catalogue of (i)...

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Mendoza-Parra MA, Gronemeyer H. Assessing quality standards for ChIP-seq and related massive parallel sequencing-generated datasets: When rating goes beyond avoiding the crisis. Genom Data. 2014;2:268-73doi: 10.1016/j.gdata.2014.08.002.
Mendoza-Parra, M. A., & Gronemeyer, H. (2014). Assessing quality standards for ChIP-seq and related massive parallel sequencing-generated datasets: When rating goes beyond avoiding the crisis. Genomics data, 2268-73. https://doi.org/10.1016/j.gdata.2014.08.002
Mendoza-Parra, Marco Antonio, and Gronemeyer, Hinrich. "Assessing quality standards for ChIP-seq and related massive parallel sequencing-generated datasets: When rating goes beyond avoiding the crisis." Genomics data vol. 2 (2014): 268-73. doi: https://doi.org/10.1016/j.gdata.2014.08.002
Mendoza-Parra MA, Gronemeyer H. Assessing quality standards for ChIP-seq and related massive parallel sequencing-generated datasets: When rating goes beyond avoiding the crisis. Genom Data. 2014 Aug 14;2:268-73. doi: 10.1016/j.gdata.2014.08.002. eCollection 2014 Dec. PMID: 26484107; PMCID: PMC4536145.
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High-resolution mass spectrometry of large molecules in a linear time-of-flight mass spectrometer.

Journal of the American Society for Mass Spectrometry

Kinsel GR, Grundwuermer JM, Grotemeyer J.
PMID: 24234738
J Am Soc Mass Spectrom. 1993 Jan;4(1):2-10. doi: 10.1016/1044-0305(93)85036-W.

This report describes a new high-resolution linear time-of-flight mass spectrometer that has been constructed at this institute. The instrument is used for investigations of both direct and matrix-assisted laser desorption/ionization of large molecules. A unique feature of this new...

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Kinsel GR, Grundwuermer JM, Grotemeyer J. High-resolution mass spectrometry of large molecules in a linear time-of-flight mass spectrometer. J Am Soc Mass Spectrom. 1993;4(1):2-10doi: 10.1016/1044-0305(93)85036-W.
Kinsel, G. R., Grundwuermer, J. M., & Grotemeyer, J. (1993). High-resolution mass spectrometry of large molecules in a linear time-of-flight mass spectrometer. Journal of the American Society for Mass Spectrometry, 4(1), 2-10. https://doi.org/10.1016/1044-0305(93)85036-W
Kinsel, G R, et al. "High-resolution mass spectrometry of large molecules in a linear time-of-flight mass spectrometer." Journal of the American Society for Mass Spectrometry vol. 4,1 (1993): 2-10. doi: https://doi.org/10.1016/1044-0305(93)85036-W
Kinsel GR, Grundwuermer JM, Grotemeyer J. High-resolution mass spectrometry of large molecules in a linear time-of-flight mass spectrometer. J Am Soc Mass Spectrom. 1993 Jan;4(1):2-10. doi: 10.1016/1044-0305(93)85036-W. PMID: 24234738.
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Discovery of novel transcriptional and epigenetic targets in APL by global ChIP analyses: Emerging opportunity and challenge.

Cancer cell

Mikesch JH, Gronemeyer H, So CW.
PMID: 20159604
Cancer Cell. 2010 Feb 17;17(2):112-4. doi: 10.1016/j.ccr.2010.01.012.

Identifying transcriptional program(s) deregulated by oncoproteins is key to understanding the molecular basis of the disease. In this issue of Cancer Cell, two studies by Martens et al. and Wang et al. provide global blueprints for transcriptional targets and...

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Mikesch JH, Gronemeyer H, So CW. Discovery of novel transcriptional and epigenetic targets in APL by global ChIP analyses: Emerging opportunity and challenge. Cancer Cell. 2010;17(2):112-4doi: 10.1016/j.ccr.2010.01.012.
Mikesch, J. H., Gronemeyer, H., & So, C. W. (2010). Discovery of novel transcriptional and epigenetic targets in APL by global ChIP analyses: Emerging opportunity and challenge. Cancer cell, 17(2), 112-4. https://doi.org/10.1016/j.ccr.2010.01.012
Mikesch, Jan-Henrik, et al. "Discovery of novel transcriptional and epigenetic targets in APL by global ChIP analyses: Emerging opportunity and challenge." Cancer cell vol. 17,2 (2010): 112-4. doi: https://doi.org/10.1016/j.ccr.2010.01.012
Mikesch JH, Gronemeyer H, So CW. Discovery of novel transcriptional and epigenetic targets in APL by global ChIP analyses: Emerging opportunity and challenge. Cancer Cell. 2010 Feb 17;17(2):112-4. doi: 10.1016/j.ccr.2010.01.012. PMID: 20159604.
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International Mass Spectrometry Conference. Foreword.

European journal of mass spectrometry (Chichester, England)

Grotemeyer J.
PMID: 20530820
Eur J Mass Spectrom (Chichester). 2010;16(3):vii. doi: 10.1255/ejms.1089.

No abstract available.

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Grotemeyer J. International Mass Spectrometry Conference. Foreword. Eur J Mass Spectrom (Chichester). 2010;16(3):viidoi: 10.1255/ejms.1089.
Grotemeyer, J. (2010). International Mass Spectrometry Conference. Foreword. European journal of mass spectrometry (Chichester, England), 16(3), vii. https://doi.org/10.1255/ejms.1089
Grotemeyer, Jürgen. "International Mass Spectrometry Conference. Foreword." European journal of mass spectrometry (Chichester, England) vol. 16,3 (2010): vii. doi: https://doi.org/10.1255/ejms.1089
Grotemeyer J. International Mass Spectrometry Conference. Foreword. Eur J Mass Spectrom (Chichester). 2010;16(3):vii. doi: 10.1255/ejms.1089. PMID: 20530820.
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The coral reef aorta - a single centre experience in 70 patients.

The International journal of angiology : official publication of the International College of Angiology, Inc

Grotemeyer D, Pourhassan S, Rehbein H, Voiculescu A, Reinecke P, Sandmann W.
PMID: 22477301
Int J Angiol. 2007;16(3):98-105. doi: 10.1055/s-0031-1278258.

Coral reef aorta (CRA) is described as rock-hard calcifications in the visceral part of the aorta. These heavily calcified plaques grow into the lumen and can cause significant stenoses, which may lead to malperfusion of the lower limbs, visceral...

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Grotemeyer D, Pourhassan S, Rehbein H, et al. The coral reef aorta - a single centre experience in 70 patients. Int J Angiol. 2007;16(3):98-105doi: 10.1055/s-0031-1278258.
Grotemeyer, D., Pourhassan, S., Rehbein, H., Voiculescu, A., Reinecke, P., & Sandmann, W. (2007). The coral reef aorta - a single centre experience in 70 patients. The International journal of angiology : official publication of the International College of Angiology, Inc, 16(3), 98-105. https://doi.org/10.1055/s-0031-1278258
Grotemeyer, Dirk, et al. "The coral reef aorta - a single centre experience in 70 patients." The International journal of angiology : official publication of the International College of Angiology, Inc vol. 16,3 (2007): 98-105. doi: https://doi.org/10.1055/s-0031-1278258
Grotemeyer D, Pourhassan S, Rehbein H, Voiculescu A, Reinecke P, Sandmann W. The coral reef aorta - a single centre experience in 70 patients. Int J Angiol. 2007;16(3):98-105. doi: 10.1055/s-0031-1278258. PMID: 22477301; PMCID: PMC2733021.
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Multiphoton ionization of molecules: A comparison between femtosecond and nanosecond laser pulse ionization efficiency.

Journal of the American Society for Mass Spectrometry

Aicher KP, Wilhelm U, Grotemeyer J.
PMID: 24214052
J Am Soc Mass Spectrom. 1995 Nov;6(11):1059-68. doi: 10.1016/1044-0305(95)00551-X.

Multiphoton ionization mass spectra of nonvolatile molecules laser desorbed into a supersonic beam are recorded. It is shown by indirect measurements that the laser desorption of neutrals is not mass limited, but lead to the formation of neutrals with...

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Aicher KP, Wilhelm U, Grotemeyer J. Multiphoton ionization of molecules: A comparison between femtosecond and nanosecond laser pulse ionization efficiency. J Am Soc Mass Spectrom. 1995;6(11):1059-68doi: 10.1016/1044-0305(95)00551-X.
Aicher, K. P., Wilhelm, U., & Grotemeyer, J. (1995). Multiphoton ionization of molecules: A comparison between femtosecond and nanosecond laser pulse ionization efficiency. Journal of the American Society for Mass Spectrometry, 6(11), 1059-68. https://doi.org/10.1016/1044-0305(95)00551-X
Aicher, K P, et al. "Multiphoton ionization of molecules: A comparison between femtosecond and nanosecond laser pulse ionization efficiency." Journal of the American Society for Mass Spectrometry vol. 6,11 (1995): 1059-68. doi: https://doi.org/10.1016/1044-0305(95)00551-X
Aicher KP, Wilhelm U, Grotemeyer J. Multiphoton ionization of molecules: A comparison between femtosecond and nanosecond laser pulse ionization efficiency. J Am Soc Mass Spectrom. 1995 Nov;6(11):1059-68. doi: 10.1016/1044-0305(95)00551-X. PMID: 24214052.
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Photoionization and photofragmentation in mass spectrometry with visible and UV lasers.

Mass spectrometry reviews

Gunzer F, Krüger S, Grotemeyer J.
PMID: 30300954
Mass Spectrom Rev. 2019 Mar;38(2):202-217. doi: 10.1002/mas.21579. Epub 2018 Oct 09.

Ever since the introduction of laser technology to the field of mass spectrometry, several disciplines evolved providing solutions to challenging scientific and analytical tasks in research and industry. Among these are techniques involving multiphoton ionization such as Resonance-Enhanced Multiphoton...

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Gunzer F, Krüger S, Grotemeyer J. Photoionization and photofragmentation in mass spectrometry with visible and UV lasers. Mass Spectrom Rev. 2018;38(2):202-217doi: 10.1002/mas.21579.
Gunzer, F., Krüger, S., & Grotemeyer, J. (2019). Photoionization and photofragmentation in mass spectrometry with visible and UV lasers. Mass spectrometry reviews, 38(2), 202-217. https://doi.org/10.1002/mas.21579
Gunzer, Frank, et al. "Photoionization and photofragmentation in mass spectrometry with visible and UV lasers." Mass spectrometry reviews vol. 38,2 (2019): 202-217. doi: https://doi.org/10.1002/mas.21579
Gunzer F, Krüger S, Grotemeyer J. Photoionization and photofragmentation in mass spectrometry with visible and UV lasers. Mass Spectrom Rev. 2019 Mar;38(2):202-217. doi: 10.1002/mas.21579. Epub 2018 Oct 09. PMID: 30300954.
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Modeling gene-regulatory networks to describe cell fate transitions and predict master regulators.

NPJ systems biology and applications

Cholley PE, Moehlin J, Rohmer A, Zilliox V, Nicaise S, Gronemeyer H, Mendoza-Parra MA.
PMID: 30083390
NPJ Syst Biol Appl. 2018 Aug 02;4:29. doi: 10.1038/s41540-018-0066-z. eCollection 2018.

Complex organisms originate from and are maintained by the information encoded in the genome. A major challenge of systems biology is to develop algorithms that describe the dynamic regulation of genome functions from large omics datasets. Here, we describe...

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Cholley PE, Moehlin J, Rohmer A, et al. Modeling gene-regulatory networks to describe cell fate transitions and predict master regulators. NPJ Syst Biol Appl. 2018;4:29doi: 10.1038/s41540-018-0066-z.
Cholley, P. E., Moehlin, J., Rohmer, A., Zilliox, V., Nicaise, S., Gronemeyer, H., & Mendoza-Parra, M. A. (2018). Modeling gene-regulatory networks to describe cell fate transitions and predict master regulators. NPJ systems biology and applications, 429. https://doi.org/10.1038/s41540-018-0066-z
Cholley, Pierre-Etienne, et al. "Modeling gene-regulatory networks to describe cell fate transitions and predict master regulators." NPJ systems biology and applications vol. 4 (2018): 29. doi: https://doi.org/10.1038/s41540-018-0066-z
Cholley PE, Moehlin J, Rohmer A, Zilliox V, Nicaise S, Gronemeyer H, Mendoza-Parra MA. Modeling gene-regulatory networks to describe cell fate transitions and predict master regulators. NPJ Syst Biol Appl. 2018 Aug 02;4:29. doi: 10.1038/s41540-018-0066-z. eCollection 2018. PMID: 30083390; PMCID: PMC6070484.
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Surgical resection and graft replacement for primary inferior vena cava leiomyosarcoma: a multicenter experience.

Journal of vascular surgery. Venous and lymphatic disorders

Nooromid M, De Martino R, Squizzato F, Benedetto F, De Caridi G, Chou EL, Conrad MF, Pantoja J, Abularrage C, Sorber R, Garcia-Ortega DY, Luna-Ortiz K, Eichler C, Zarkowsky D, Chia M, Kalluri A, Cohnert T, Szeberin Z, Grotemeyer D, Shalhub S, Fagg D, Jackson MJ, Charlton-Ouw K, Gombert A, Jacobs M, Boyd A, Motaganahalli R, Uceda D, Woo K, Eskandari MK.
PMID: 34271247
J Vasc Surg Venous Lymphat Disord. 2021 Jul 14; doi: 10.1016/j.jvsv.2021.06.021. Epub 2021 Jul 14.

OBJECTIVE: Primary leiomyosarcoma of the inferior vena cava (IVC) is best managed with surgical resection when technically feasible. However, consensus is lacking regarding the best choice of conduit and reconstruction technique. The aim of the present multicenter study was...

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Nooromid M, De Martino R, Squizzato F, et al. Surgical resection and graft replacement for primary inferior vena cava leiomyosarcoma: a multicenter experience. J Vasc Surg Venous Lymphat Disord. 2021;doi: 10.1016/j.jvsv.2021.06.021.
Nooromid, M., De Martino, R., Squizzato, F., Benedetto, F., De Caridi, G., Chou, E. L., Conrad, M. F., Pantoja, J., Abularrage, C., Sorber, R., Garcia-Ortega, D. Y., Luna-Ortiz, K., Eichler, C., Zarkowsky, D., Chia, M., Kalluri, A., Cohnert, T., Szeberin, Z., Grotemeyer, D., Shalhub, S., Fagg, D., Jackson, M. J., Charlton-Ouw, K., Gombert, A., Jacobs, M., Boyd, A., Motaganahalli, R., Uceda, D., Woo, K., Eskandari, M. K. (2021). Surgical resection and graft replacement for primary inferior vena cava leiomyosarcoma: a multicenter experience. Journal of vascular surgery. Venous and lymphatic disorders, . https://doi.org/10.1016/j.jvsv.2021.06.021
Nooromid, Michael, et al. "Surgical resection and graft replacement for primary inferior vena cava leiomyosarcoma: a multicenter experience." Journal of vascular surgery. Venous and lymphatic disorders vol. (2021). doi: https://doi.org/10.1016/j.jvsv.2021.06.021
Nooromid M, De Martino R, Squizzato F, Benedetto F, De Caridi G, Chou EL, Conrad MF, Pantoja J, Abularrage C, Sorber R, Garcia-Ortega DY, Luna-Ortiz K, Eichler C, Zarkowsky D, Chia M, Kalluri A, Cohnert T, Szeberin Z, Grotemeyer D, Shalhub S, Fagg D, Jackson MJ, Charlton-Ouw K, Gombert A, Jacobs M, Boyd A, Motaganahalli R, Uceda D, Woo K, Eskandari MK. Surgical resection and graft replacement for primary inferior vena cava leiomyosarcoma: a multicenter experience. J Vasc Surg Venous Lymphat Disord. 2021 Jul 14; doi: 10.1016/j.jvsv.2021.06.021. Epub 2021 Jul 14. PMID: 34271247.
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Elucidating the Fragmentation Mechanism of Protonated Lewis A Trisaccharide using MS.

European journal of mass spectrometry (Chichester, England)

Iwan V, Grotemeyer J.
PMID: 34951325
Eur J Mass Spectrom (Chichester). 2021 Dec 24;14690667211069033. doi: 10.1177/14690667211069033. Epub 2021 Dec 24.

Lewis blood group antigens are a prominent example of isomeric oligosaccharides with biological activity. Understanding the fragmentation mechanism in the gas phase is essential for their identification and assignment by mass spectrometric methods such as ESI-MS. In this work,...

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Iwan V, Grotemeyer J. Elucidating the Fragmentation Mechanism of Protonated Lewis A Trisaccharide using MS. Eur J Mass Spectrom (Chichester). 2021;14690667211069033doi: 10.1177/14690667211069033.
Iwan, V., & Grotemeyer, J. (2021). Elucidating the Fragmentation Mechanism of Protonated Lewis A Trisaccharide using MS. European journal of mass spectrometry (Chichester, England), 14690667211069033. https://doi.org/10.1177/14690667211069033
Iwan, Volker, and Grotemeyer, Jürgen. "Elucidating the Fragmentation Mechanism of Protonated Lewis A Trisaccharide using MS." European journal of mass spectrometry (Chichester, England) vol. (2021): 14690667211069033. doi: https://doi.org/10.1177/14690667211069033
Iwan V, Grotemeyer J. Elucidating the Fragmentation Mechanism of Protonated Lewis A Trisaccharide using MS. Eur J Mass Spectrom (Chichester). 2021 Dec 24;14690667211069033. doi: 10.1177/14690667211069033. Epub 2021 Dec 24. PMID: 34951325.
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Selective class II HDAC inhibitors impair myogenesis by modulating the stability and activity of HDAC-MEF2 complexes.

EMBO reports

Nebbioso A, Manzo F, Miceli M, Conte M, Manente L, Baldi A, De Luca A, Rotili D, Valente S, Mai A, Usiello A, Gronemeyer H, Altucci L.
PMID: 33438796
EMBO Rep. 2020 Dec 03;21(12):e51028. doi: 10.15252/embr.202051028. Epub 2020 Nov 26.

No abstract available.

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Nebbioso A, Manzo F, Miceli M, et al. Selective class II HDAC inhibitors impair myogenesis by modulating the stability and activity of HDAC-MEF2 complexes. EMBO Rep. 2020;21(12):e51028doi: 10.15252/embr.202051028.
Nebbioso, A., Manzo, F., Miceli, M., Conte, M., Manente, L., Baldi, A., De Luca, A., Rotili, D., Valente, S., Mai, A., Usiello, A., Gronemeyer, H., & Altucci, L. (2020). Selective class II HDAC inhibitors impair myogenesis by modulating the stability and activity of HDAC-MEF2 complexes. EMBO reports, 21(12), e51028. https://doi.org/10.15252/embr.202051028
Nebbioso, Angela, et al. "Selective class II HDAC inhibitors impair myogenesis by modulating the stability and activity of HDAC-MEF2 complexes." EMBO reports vol. 21,12 (2020): e51028. doi: https://doi.org/10.15252/embr.202051028
Nebbioso A, Manzo F, Miceli M, Conte M, Manente L, Baldi A, De Luca A, Rotili D, Valente S, Mai A, Usiello A, Gronemeyer H, Altucci L. Selective class II HDAC inhibitors impair myogenesis by modulating the stability and activity of HDAC-MEF2 complexes. EMBO Rep. 2020 Dec 03;21(12):e51028. doi: 10.15252/embr.202051028. Epub 2020 Nov 26. PMID: 33438796; PMCID: PMC7726812.
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Numerical analysis of trajectories in a Cassinian ion trap of second order with trap door ion inlet.

European journal of mass spectrometry (Chichester, England)

Raupers B, Medhat H, Grotemeyer J, Gunzer F.
PMID: 33858222
Eur J Mass Spectrom (Chichester). 2021 Feb;27(1):3-12. doi: 10.1177/1469066720984380.

Ion traps like the Orbitrap are well known mass analyzers with very high resolving power. This resolving power is achieved with help of ions orbiting around an inner electrode for long time, in general up to a few seconds,...

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Raupers B, Medhat H, Grotemeyer J, et al. Numerical analysis of trajectories in a Cassinian ion trap of second order with trap door ion inlet. Eur J Mass Spectrom (Chichester). 2021;27(1):3-12doi: 10.1177/1469066720984380.
Raupers, B., Medhat, H., Grotemeyer, J., & Gunzer, F. (2021). Numerical analysis of trajectories in a Cassinian ion trap of second order with trap door ion inlet. European journal of mass spectrometry (Chichester, England), 27(1), 3-12. https://doi.org/10.1177/1469066720984380
Raupers, Bjoern, et al. "Numerical analysis of trajectories in a Cassinian ion trap of second order with trap door ion inlet." European journal of mass spectrometry (Chichester, England) vol. 27,1 (2021): 3-12. doi: https://doi.org/10.1177/1469066720984380
Raupers B, Medhat H, Grotemeyer J, Gunzer F. Numerical analysis of trajectories in a Cassinian ion trap of second order with trap door ion inlet. Eur J Mass Spectrom (Chichester). 2021 Feb;27(1):3-12. doi: 10.1177/1469066720984380. PMID: 33858222.
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Showing 1 to 12 of 65 entries