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List of works by Chongle Pan

(15)N- and (2)H proteomic stable isotope probing links nitrogen flow to archaeal heterotrophic activity.

scientific article published on 20 May 2014

A graph-theoretic approach for the separation of b and y ions in tandem mass spectra

scientific article published on 28 September 2004

A high-throughput de novo sequencing approach for shotgun proteomics using high-resolution tandem mass spectrometry.

scientific article

Characterization of anaerobic catabolism of p-coumarate in Rhodopseudomonas palustris by integrating transcriptomics and quantitative proteomics

scientific article published on 20 December 2007

Community proteogenomics reveals the systemic impact of phosphorus availability on microbial functions in tropical soil

scientific article published on 22 January 2018

Complete genome sequence of the aerobic, heterotroph Marinithermus hydrothermalis type strain (T1(T)) from a deep-sea hydrothermal vent chimney

scientific article

Complete genome sequence of the facultatively anaerobic, appendaged bacterium Muricauda ruestringensis type strain (B1(T)).

scientific article

Complete genome sequence of the haloalkaliphilic, obligately chemolithoautotrophic thiosulfate and sulfide-oxidizing γ-proteobacterium Thioalkalimicrobium cyclicum type strain ALM 1 (DSM 14477(T)).

scientific article published on 03 June 2016

Complete genome sequence of the moderately thermophilic mineral-sulfide-oxidizing firmicute Sulfobacillus acidophilus type strain (NAL(T)).

scientific article published on 20 July 2012

Complete genome sequence of the thermophilic sulfur-reducer Desulfurobacterium thermolithotrophum type strain (BSA(T)) from a deep-sea hydrothermal vent

scientific article

Cultivation and quantitative proteomic analyses of acidophilic microbial communities

scientific article

Deep neural network improves the estimation of polygenic risk scores for breast cancer

scientific article published on 02 October 2020

Diverse and divergent protein post-translational modifications in two growth stages of a natural microbial community

scientific article

Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome

scientific article

Efficient and specific trypsin digestion of microgram to nanogram quantities of proteins in organic-aqueous solvent systems

scientific article published in January 2006

Elevated temperature alters proteomic responses of individual organisms within a biofilm community.

scientific article

Elucidation of Zymomonas mobilis physiology and stress responses by quantitative proteomics and transcriptomics

scientific article (publication date: 2014)

Exhaustive database searching for amino acid mutations in proteomes.

scientific article

Functional phylogenomics analysis of bacteria and archaea using consistent genome annotation with UniFam

scientific article

Fungi Contribute Critical but Spatially Varying Roles in Nitrogen and Carbon Cycling in Acid Mine Drainage

scientific article published on 3 March 2016

Genome Sequences of 42 Bacteria Isolated from Sorghum bicolor Roots

scientific article published on 10 September 2020

Genome sequence of the free-living aerobic spirochete Turneriella parva type strain (H(T)), and emendation of the species Turneriella parva

scientific article published on 25 May 2013

Geochemical, metagenomic and metaproteomic insights into trace metal utilization by methane-oxidizing microbial consortia in sulphidic marine sediments.

scientific article

Heterotrophic archaea contribute to carbon cycling in low-pH, suboxic biofilm communities

scientific article

Impact of pretreated Switchgrass and biomass carbohydrates on Clostridium thermocellum ATCC 27405 cellulosome composition: a quantitative proteomic analysis

scientific article published on 22 April 2009

Improved genome annotation for Zymomonas mobilis

article published in 2009

Integrated metagenomics/metaproteomics reveals human host-microbiota signatures of Crohn's disease

scientific article

Integrated proteomics and metabolomics suggests symbiotic metabolism and multimodal regulation in a fungal-endobacterial system

scientific article published on 21 November 2016

Islet autoantibody seroconversion in type-1 diabetes is associated with metagenome-assembled genomes in infant gut microbiomes

scientific article published in 2022

Isolation and chemical analysis of nanoparticles from English ivy (Hedera helix L.).

scientific article published on 24 July 2013

MIDAS: a database-searching algorithm for metabolite identification in metabolomics.

scientific article published on 11 September 2014

Mass spectrometric approaches for characterizing bacterial proteomes.

scientific article

Measuring Dissociation Rate Constants of Protein Complexes through Subunit Exchange: Experimental Design and Theoretical Modeling ⬇️

scientific article published on December 14, 2011

Metagenome sequencing of a coastal marine microbial community from monterey bay, california.

scientific article published on 30 April 2015

Metaproteomics reveals functional shifts in microbial and human proteins during a preterm infant gut colonization case

scientific article published on 16 June 2015

Metaproteomics: harnessing the power of high performance mass spectrometry to identify the suite of proteins that control metabolic activities in microbial communities

scientific article published on 21 March 2013

Microbial Community Structure–Function Relationships in Yaquina Bay Estuary Reveal Spatially Distinct Carbon and Nitrogen Cycling Capacities.

scientific article

Microbial metaproteomics for characterizing the range of metabolic functions and activities of human gut microbiota

scientific article

Multipole-storage-assisted dissociation for the characterization of large proteins and simple protein mixtures by ESI-FTICR-MS

scientific article published on 01 May 2005

Omega: an overlap-graph de novo assembler for metagenomics.

scientific article published on 19 June 2014

Phage-induced expression of CRISPR-associated proteins is revealed by shotgun proteomics in Streptococcus thermophilus

scientific article (publication date: 2012)

Phenotype fingerprinting suggests the involvement of single-genotype consortia in degradation of aromatic compounds by Rhodopseudomonas palustris

scientific article (publication date: 2009)

Phylogenetically conserved resource partitioning in the coastal microbial loop.

scientific article published on 11 August 2017

Phytoplankton exudates and lysates support distinct microbial consortia with specialized metabolic and ecophysiological traits

scientific article published in 2021

ProRata: A quantitative proteomics program for accurate protein abundance ratio estimation with confidence interval evaluation.

scientific article published in October 2006

Proteogenomic analyses indicate bacterial methylotrophy and archaeal heterotrophy are prevalent below the grass root zone

scientific article

Proteome changes in the initial bacterial colonist during ecological succession in an acid mine drainage biofilm community

scientific article published on 25 April 2011

Proteomic Stable Isotope Probing Reveals Biosynthesis Dynamics of Slow Growing Methane Based Microbial Communities

scientific article published on 29 April 2016

Proteomic Stable Isotope Probing Reveals Taxonomically Distinct Patterns in Amino Acid Assimilation by Coastal Marine Bacterioplankton

scientific article published on March 2016

Proteomic and Mutant Analysis of the CO2 Concentrating Mechanism of Hydrothermal Vent Chemolithoautotroph Thiomicrospira crunogena.

scientific article published on 23 January 2017

Quantitative metaproteomics: functional insights into microbial communities.

scientific article published in January 2014

Quantitative proteomic analyses of the response of acidophilic microbial communities to different pH conditions

scientific article

Quantitative tracking of isotope flows in proteomes of microbial communities

scientific article

Rhodopseudomonas palustris CGA010 Proteome Implicates Extracytoplasmic Function Sigma Factor in Stress Response.

scientific article published on 8 April 2015

Robust estimation of peptide abundance ratios and rigorous scoring of their variability and bias in quantitative shotgun proteomics.

scientific article published in October 2006

Sample handling and mass spectrometry for microbial metaproteomic analyses.

scientific article

Sigma: strain-level inference of genomes from metagenomic analysis for biosurveillance

scientific article

Sipros Ensemble Improves Database Searching and Filtering for Complex Metaproteomics

scientific article published on 22 September 2017

Sipros/ProRata: a versatile informatics system for quantitative community proteomics.

scientific article published on 21 June 2013

Stable-isotope probing reveals that hydrogen isotope fractionation in proteins and lipids in a microbial community are different and species-specific.

scientific article published on 5 June 2013

Strategies for metagenomic-guided whole-community proteomics of complex microbial environments

scientific article

Strigolactone-regulated proteins revealed by iTRAQ-based quantitative proteomics in Arabidopsis

scientific article published on 24 February 2014

Structural rationalization of a large difference in RNA affinity despite a small difference in chemistry between two 2'-O-modified nucleic acid analogues.

scientific article published in November 2004

Systematic comparison of label-free, metabolic labeling, and isobaric chemical labeling for quantitative proteomics on LTQ Orbitrap Velos

scientific article published on 16 February 2012

Systems biology analysis of Zymomonas mobilis ZM4 ethanol stress responses.

scientific article

Towards AI-Driven Healthcare: Systematic Optimization, Linguistic Analysis, and Clinicians’ Evaluation of Large Language Models for Smoking Cessation Interventions

scientific article published on 11 May 2024

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