Cover Image

Statistical and machine learning techniques in human microbiome studies: contemporary challenges and solutions

Human microbiome has emerged as a central research topic in human biology and biomedicine. Current microbiome studies generate high-throughput omics data across different body sites, populations, and lifetime. Whereas many of the challenges in microbiome research are similar to other high-throughput...

Full description

Saved in:
Bibliographic Details
Main Authors: Moreno-Indias, Isabel (Author) , Lahti, Leo (Author) , Nedyalkova, Miroslava (Author) , Elbere, Ilze (Author) , Roshchupkin, Gennady (Author) , Adilovic, Muhamed (Author) , Aydemir, Onder (Author) , Bakir-Gungor, Burcu (Author) , Santa Pau, Enrique Carrillo-de (Author) , D’Elia, Domenica (Author) , Desai, Mahesh S. (Author) , Falquet, Laurent (Author) , Gundogdu, Aycan (Author) , Hron, Karel (Author) , Klammsteiner, Thomas (Author) , Lopes, Marta B. (Author) , Marcos-Zambrano, Laura Judith (Author) , Marques, Cláudia (Author) , Mason, Michael (Author) , May, Patrick (Author) , Pašić, Lejla (Author) , Pio, Gianvito (Author) , Pongor, Sándor (Author) , Promponas, Vasilis J. (Author) , Przymus, Piotr (Author) , Sáez Rodríguez, Julio (Author) , Sampri, Alexia (Author) , Shigdel, Rajesh (Author) , Stres, Blaz (Author) , Suharoschi, Ramona (Author) , Truu, Jaak (Author) , Truică, Ciprian-Octavian (Author) , Vilne, Baiba (Author) , Vlachakis, Dimitrios (Author) , Yilmaz, Ercument (Author) , Zeller, Georg F. (Author) , Zomer, Aldert L. (Author) , Gómez-Cabrero, David (Author) , Claesson, Marcus J. (Author)
Format: Article (Journal)
Language:English
Published: 22 February 2021
In: Frontiers in microbiology
Year: 2021, Volume: 12, Pages: 1-9
ISSN:1664-302X
DOI:10.3389/fmicb.2021.635781
Online Access:Verlag, lizenzpflichtig, Volltext: https://doi.org/10.3389/fmicb.2021.635781
Verlag, lizenzpflichtig, Volltext: https://www.frontiersin.org/articles/10.3389/fmicb.2021.635781/full
Get full text
Author Notes:Isabel Moreno-Indias, Leo Lahti, Miroslava Nedyalkova, Ilze Elbere, Gennady Roshchupkin, Muhamed Adilovic, Onder Aydemir, Burcu Bakir-Gungor, Enrique Carrillo-de Santa Pau, Domenica D’Elia, Mahesh S. Desai, Laurent Falquet, Aycan Gundogdu, Karel Hron, Thomas Klammsteiner, Marta B. Lopes, Laura Judith Marcos-Zambrano, Cláudia Marques, Michael Mason, Patrick May, Lejla Pašić, Gianvito Pio, Sándor Pongor, Vasilis J. Promponas, Piotr Przymus, Julio Saez-Rodriguez, Alexia Sampri, Rajesh Shigdel, Blaz Stres, Ramona Suharoschi, Jaak Truu, Ciprian-Octavian Truică, Baiba Vilne, Dimitrios Vlachakis, Ercument Yilmaz, Georg Zeller, Aldert L. Zomer, David Gómez-Cabrero and Marcus J. Claesson on behalf of ML4Microbiom

MARC

LEADER 00000caa a2200000 c 4500
001 1756910421
003 DE-627
005 20220819192109.0
007 cr uuu---uuuuu
008 210503s2021 xx |||||o 00| ||eng c
024 7 |a 10.3389/fmicb.2021.635781  |2 doi 
035 |a (DE-627)1756910421 
035 |a (DE-599)KXP1756910421 
035 |a (OCoLC)1341407417 
040 |a DE-627  |b ger  |c DE-627  |e rda 
041 |a eng 
084 |a 33  |2 sdnb 
100 1 |a Moreno-Indias, Isabel  |e VerfasserIn  |0 (DE-588)1232760358  |0 (DE-627)1757078711  |4 aut 
245 1 0 |a Statistical and machine learning techniques in human microbiome studies  |b contemporary challenges and solutions  |c Isabel Moreno-Indias, Leo Lahti, Miroslava Nedyalkova, Ilze Elbere, Gennady Roshchupkin, Muhamed Adilovic, Onder Aydemir, Burcu Bakir-Gungor, Enrique Carrillo-de Santa Pau, Domenica D’Elia, Mahesh S. Desai, Laurent Falquet, Aycan Gundogdu, Karel Hron, Thomas Klammsteiner, Marta B. Lopes, Laura Judith Marcos-Zambrano, Cláudia Marques, Michael Mason, Patrick May, Lejla Pašić, Gianvito Pio, Sándor Pongor, Vasilis J. Promponas, Piotr Przymus, Julio Saez-Rodriguez, Alexia Sampri, Rajesh Shigdel, Blaz Stres, Ramona Suharoschi, Jaak Truu, Ciprian-Octavian Truică, Baiba Vilne, Dimitrios Vlachakis, Ercument Yilmaz, Georg Zeller, Aldert L. Zomer, David Gómez-Cabrero and Marcus J. Claesson on behalf of ML4Microbiom 
264 1 |c 22 February 2021 
300 |a 9 
336 |a Text  |b txt  |2 rdacontent 
337 |a Computermedien  |b c  |2 rdamedia 
338 |a Online-Ressource  |b cr  |2 rdacarrier 
500 |a Gesehen am 04.05.2021 
520 |a Human microbiome has emerged as a central research topic in human biology and biomedicine. Current microbiome studies generate high-throughput omics data across different body sites, populations, and lifetime. Whereas many of the challenges in microbiome research are similar to other high-throughput studies, the quantitative analyses need to address the heterogeneity of data, specific statistical properties, and the remarkable variation in microbiome composition across individuals and body sites. This has led to a broad spectrum of statistical and machine learning challenges that range from study design, data processing, and standardization to analysis, modeling, cross-study comparison, prediction, data science ecosystems, and reproducible reporting. Nevertheless, although many statistics and machine learning approaches and tools have been developed, new techniques are needed to deal with emerging applications and the vast heterogeneity of microbiome data. We review and discuss emerging applications of statistical and machine learning techniques in human microbiome studies and introduce the COST Action CA18131 "ML4Microbiome" that brings together microbiome researchers and machine learning experts to address current challenges such as standardisation of analysis pipelines for reproducibility of data analysis results, benchmarking, improvement, or development of existing and new tools and ontologies. 
650 4 |a biomarker identification 
650 4 |a machine learning 
650 4 |a microbiome 
650 4 |a ML4microbiome 
650 4 |a personalized medicine 
700 1 |a Lahti, Leo  |e VerfasserIn  |4 aut 
700 1 |a Nedyalkova, Miroslava  |e VerfasserIn  |4 aut 
700 1 |a Elbere, Ilze  |e VerfasserIn  |4 aut 
700 1 |a Roshchupkin, Gennady  |e VerfasserIn  |4 aut 
700 1 |a Adilovic, Muhamed  |e VerfasserIn  |4 aut 
700 1 |a Aydemir, Onder  |e VerfasserIn  |4 aut 
700 1 |a Bakir-Gungor, Burcu  |e VerfasserIn  |4 aut 
700 1 |a Santa Pau, Enrique Carrillo-de  |e VerfasserIn  |4 aut 
700 1 |a D’Elia, Domenica  |e VerfasserIn  |4 aut 
700 1 |a Desai, Mahesh S.  |e VerfasserIn  |4 aut 
700 1 |a Falquet, Laurent  |e VerfasserIn  |4 aut 
700 1 |a Gundogdu, Aycan  |e VerfasserIn  |4 aut 
700 1 |a Hron, Karel  |e VerfasserIn  |4 aut 
700 1 |a Klammsteiner, Thomas  |e VerfasserIn  |4 aut 
700 1 |a Lopes, Marta B.  |e VerfasserIn  |4 aut 
700 1 |a Marcos-Zambrano, Laura Judith  |e VerfasserIn  |4 aut 
700 1 |a Marques, Cláudia  |e VerfasserIn  |4 aut 
700 1 |a Mason, Michael  |e VerfasserIn  |4 aut 
700 1 |a May, Patrick  |e VerfasserIn  |4 aut 
700 1 |a Pašić, Lejla  |e VerfasserIn  |4 aut 
700 1 |a Pio, Gianvito  |e VerfasserIn  |4 aut 
700 1 |a Pongor, Sándor  |e VerfasserIn  |4 aut 
700 1 |a Promponas, Vasilis J.  |e VerfasserIn  |4 aut 
700 1 |a Przymus, Piotr  |e VerfasserIn  |4 aut 
700 1 |a Sáez Rodríguez, Julio  |d 1978-  |e VerfasserIn  |0 (DE-588)133764362  |0 (DE-627)555766632  |0 (DE-576)300083114  |4 aut 
700 1 |a Sampri, Alexia  |e VerfasserIn  |4 aut 
700 1 |a Shigdel, Rajesh  |e VerfasserIn  |4 aut 
700 1 |a Stres, Blaz  |e VerfasserIn  |4 aut 
700 1 |a Suharoschi, Ramona  |e VerfasserIn  |4 aut 
700 1 |a Truu, Jaak  |e VerfasserIn  |4 aut 
700 1 |a Truică, Ciprian-Octavian  |e VerfasserIn  |4 aut 
700 1 |a Vilne, Baiba  |e VerfasserIn  |4 aut 
700 1 |a Vlachakis, Dimitrios  |e VerfasserIn  |4 aut 
700 1 |a Yilmaz, Ercument  |e VerfasserIn  |4 aut 
700 1 |a Zeller, Georg F.  |e VerfasserIn  |0 (DE-588)141271019  |0 (DE-627)626530156  |0 (DE-576)323081797  |4 aut 
700 1 |a Zomer, Aldert L.  |e VerfasserIn  |4 aut 
700 1 |a Gómez-Cabrero, David  |e VerfasserIn  |4 aut 
700 1 |a Claesson, Marcus J.  |e VerfasserIn  |4 aut 
773 0 8 |i Enthalten in  |t Frontiers in microbiology  |d Lausanne : Frontiers Media, 2010  |g 12(2021), Artikel-ID 635781, Seite 1-9  |h Online-Ressource  |w (DE-627)642889384  |w (DE-600)2587354-4  |w (DE-576)335527094  |x 1664-302X  |7 nnas  |a Statistical and machine learning techniques in human microbiome studies contemporary challenges and solutions 
773 1 8 |g volume:12  |g year:2021  |g elocationid:635781  |g pages:1-9  |g extent:9  |a Statistical and machine learning techniques in human microbiome studies contemporary challenges and solutions 
856 4 0 |u https://doi.org/10.3389/fmicb.2021.635781  |x Verlag  |x Resolving-System  |z lizenzpflichtig  |3 Volltext 
856 4 0 |u https://www.frontiersin.org/articles/10.3389/fmicb.2021.635781/full  |x Verlag  |z lizenzpflichtig  |3 Volltext 
951 |a AR 
992 |a 20210503 
993 |a Article 
994 |a 2021 
998 |g 141271019  |a Zeller, Georg F.  |m 141271019:Zeller, Georg F.  |p 36 
998 |g 133764362  |a Sáez Rodríguez, Julio  |m 133764362:Sáez Rodríguez, Julio  |d 910000  |d 912900  |e 910000PS133764362  |e 912900PS133764362  |k 0/910000/  |k 1/910000/912900/  |p 26 
999 |a KXP-PPN1756910421  |e 3921343933 
BIB |a Y 
SER |a journal 
JSO |a {"origin":[{"dateIssuedDisp":"22 February 2021","dateIssuedKey":"2021"}],"relHost":[{"type":{"media":"Online-Ressource","bibl":"periodical"},"language":["eng"],"disp":"Statistical and machine learning techniques in human microbiome studies contemporary challenges and solutionsFrontiers in microbiology","part":{"extent":"9","volume":"12","pages":"1-9","text":"12(2021), Artikel-ID 635781, Seite 1-9","year":"2021"},"origin":[{"publisherPlace":"Lausanne","dateIssuedKey":"2010","dateIssuedDisp":"2010-","publisher":"Frontiers Media"}],"title":[{"title":"Frontiers in microbiology","title_sort":"Frontiers in microbiology"}],"pubHistory":["1.2010 -"],"note":["Gesehen am 23.12.10"],"physDesc":[{"extent":"Online-Ressource"}],"recId":"642889384","id":{"issn":["1664-302X"],"zdb":["2587354-4"],"eki":["642889384"]}}],"title":[{"title":"Statistical and machine learning techniques in human microbiome studies","title_sort":"Statistical and machine learning techniques in human microbiome studies","subtitle":"contemporary challenges and solutions"}],"language":["eng"],"type":{"media":"Online-Ressource","bibl":"article-journal"},"recId":"1756910421","id":{"eki":["1756910421"],"doi":["10.3389/fmicb.2021.635781"]},"note":["Gesehen am 04.05.2021"],"physDesc":[{"extent":"9 S."}],"name":{"displayForm":["Isabel Moreno-Indias, Leo Lahti, Miroslava Nedyalkova, Ilze Elbere, Gennady Roshchupkin, Muhamed Adilovic, Onder Aydemir, Burcu Bakir-Gungor, Enrique Carrillo-de Santa Pau, Domenica D’Elia, Mahesh S. Desai, Laurent Falquet, Aycan Gundogdu, Karel Hron, Thomas Klammsteiner, Marta B. Lopes, Laura Judith Marcos-Zambrano, Cláudia Marques, Michael Mason, Patrick May, Lejla Pašić, Gianvito Pio, Sándor Pongor, Vasilis J. Promponas, Piotr Przymus, Julio Saez-Rodriguez, Alexia Sampri, Rajesh Shigdel, Blaz Stres, Ramona Suharoschi, Jaak Truu, Ciprian-Octavian Truică, Baiba Vilne, Dimitrios Vlachakis, Ercument Yilmaz, Georg Zeller, Aldert L. Zomer, David Gómez-Cabrero and Marcus J. Claesson on behalf of ML4Microbiom"]},"person":[{"roleDisplay":"VerfasserIn","display":"Moreno-Indias, Isabel","role":"aut","family":"Moreno-Indias","given":"Isabel"},{"display":"Lahti, Leo","role":"aut","roleDisplay":"VerfasserIn","given":"Leo","family":"Lahti"},{"family":"Nedyalkova","given":"Miroslava","role":"aut","display":"Nedyalkova, Miroslava","roleDisplay":"VerfasserIn"},{"given":"Ilze","family":"Elbere","display":"Elbere, Ilze","role":"aut","roleDisplay":"VerfasserIn"},{"roleDisplay":"VerfasserIn","display":"Roshchupkin, Gennady","role":"aut","family":"Roshchupkin","given":"Gennady"},{"given":"Muhamed","family":"Adilovic","roleDisplay":"VerfasserIn","role":"aut","display":"Adilovic, Muhamed"},{"display":"Aydemir, Onder","role":"aut","roleDisplay":"VerfasserIn","family":"Aydemir","given":"Onder"},{"role":"aut","display":"Bakir-Gungor, Burcu","roleDisplay":"VerfasserIn","family":"Bakir-Gungor","given":"Burcu"},{"role":"aut","display":"Santa Pau, Enrique Carrillo-de","roleDisplay":"VerfasserIn","family":"Santa Pau","given":"Enrique Carrillo-de"},{"given":"Domenica","family":"D’Elia","roleDisplay":"VerfasserIn","role":"aut","display":"D’Elia, Domenica"},{"role":"aut","display":"Desai, Mahesh S.","roleDisplay":"VerfasserIn","family":"Desai","given":"Mahesh S."},{"given":"Laurent","family":"Falquet","role":"aut","display":"Falquet, Laurent","roleDisplay":"VerfasserIn"},{"given":"Aycan","family":"Gundogdu","display":"Gundogdu, Aycan","role":"aut","roleDisplay":"VerfasserIn"},{"given":"Karel","family":"Hron","role":"aut","display":"Hron, Karel","roleDisplay":"VerfasserIn"},{"family":"Klammsteiner","given":"Thomas","roleDisplay":"VerfasserIn","display":"Klammsteiner, Thomas","role":"aut"},{"roleDisplay":"VerfasserIn","display":"Lopes, Marta B.","role":"aut","family":"Lopes","given":"Marta B."},{"roleDisplay":"VerfasserIn","display":"Marcos-Zambrano, Laura Judith","role":"aut","given":"Laura Judith","family":"Marcos-Zambrano"},{"family":"Marques","given":"Cláudia","role":"aut","display":"Marques, Cláudia","roleDisplay":"VerfasserIn"},{"given":"Michael","family":"Mason","roleDisplay":"VerfasserIn","role":"aut","display":"Mason, Michael"},{"given":"Patrick","family":"May","role":"aut","display":"May, Patrick","roleDisplay":"VerfasserIn"},{"family":"Pašić","given":"Lejla","display":"Pašić, Lejla","role":"aut","roleDisplay":"VerfasserIn"},{"family":"Pio","given":"Gianvito","roleDisplay":"VerfasserIn","display":"Pio, Gianvito","role":"aut"},{"role":"aut","display":"Pongor, Sándor","roleDisplay":"VerfasserIn","family":"Pongor","given":"Sándor"},{"given":"Vasilis J.","family":"Promponas","roleDisplay":"VerfasserIn","display":"Promponas, Vasilis J.","role":"aut"},{"family":"Przymus","given":"Piotr","roleDisplay":"VerfasserIn","role":"aut","display":"Przymus, Piotr"},{"display":"Sáez Rodríguez, Julio","role":"aut","roleDisplay":"VerfasserIn","given":"Julio","family":"Sáez Rodríguez"},{"given":"Alexia","family":"Sampri","roleDisplay":"VerfasserIn","role":"aut","display":"Sampri, Alexia"},{"given":"Rajesh","family":"Shigdel","role":"aut","display":"Shigdel, Rajesh","roleDisplay":"VerfasserIn"},{"given":"Blaz","family":"Stres","roleDisplay":"VerfasserIn","role":"aut","display":"Stres, Blaz"},{"family":"Suharoschi","given":"Ramona","roleDisplay":"VerfasserIn","role":"aut","display":"Suharoschi, Ramona"},{"given":"Jaak","family":"Truu","roleDisplay":"VerfasserIn","display":"Truu, Jaak","role":"aut"},{"given":"Ciprian-Octavian","family":"Truică","roleDisplay":"VerfasserIn","display":"Truică, Ciprian-Octavian","role":"aut"},{"roleDisplay":"VerfasserIn","role":"aut","display":"Vilne, Baiba","given":"Baiba","family":"Vilne"},{"display":"Vlachakis, Dimitrios","role":"aut","roleDisplay":"VerfasserIn","given":"Dimitrios","family":"Vlachakis"},{"display":"Yilmaz, Ercument","role":"aut","roleDisplay":"VerfasserIn","given":"Ercument","family":"Yilmaz"},{"display":"Zeller, Georg F.","role":"aut","roleDisplay":"VerfasserIn","family":"Zeller","given":"Georg F."},{"given":"Aldert L.","family":"Zomer","role":"aut","display":"Zomer, Aldert L.","roleDisplay":"VerfasserIn"},{"family":"Gómez-Cabrero","given":"David","roleDisplay":"VerfasserIn","role":"aut","display":"Gómez-Cabrero, David"},{"roleDisplay":"VerfasserIn","display":"Claesson, Marcus J.","role":"aut","family":"Claesson","given":"Marcus J."}]} 
SRT |a MORENOINDISTATISTICA2220 

Similar Items