{"text_format":"3","workbook":"xlsx","n_sheets":6,"sheets":["STable 1","STable 2","STable 3","STable 4","STable 5","STable 6"],"not_rendered":{"defined_names":3},"read":"whole","date_system":"1900"}

{"sheet":"STable 1","index":0,"n_rows":308,"n_cols":3,"rows_kept":308}
[null,"Supplementary  Table 1. Pathogens  list of 306 panel."]
[null,"Pathogen"]
[null,"Middle East respiratory syndrome coronavirus","RNA-Virus"]
[null,"Severe acute respiratory syndrome-related coronavirus","RNA-Virus"]
[null,"SARS-CoV-2","RNA-Virus"]
[null,"Absidia corymbifera","Fungi"]
[null,"Rhizomucor pusillus","Fungi"]
[null,"Rhizomucor miehei","Fungi"]
[null,"Trichosporon asahii","Fungi"]
[null,"Elizabethkingia anophelis","Bacteria"]
[null,"Paracoccidioides brasiliensis","Fungi"]
[null,"Nocardia brasiliensis","Bacteria"]
[null,"Corynebacterium diphtheriae","Bacteria"]
[null,"Candida albicans","Fungi"]
[null,"Bordetella pertussis","Bacteria"]
[null,"Enterobacter sakazakii","Bacteria"]
[null,"Mycobacterium intracellulare","Bacteria"]
[null,"Acinetobacter baumannii","Bacteria"]
[null,"Nocardia beijingensis","Bacteria"]
[null,"Coxiella burnetii","Bacteria"]
[null,"Rhinovirus A","RNA-Virus"]
[null,"Rhinovirus B","RNA-Virus"]
[null,"Rhinovirus C","RNA-Virus"]
[null,"Pseudomonas mallei","Bacteria"]
[null,"Klebsiella variicola","Bacteria"]
[null,"Aspergillus versicolor","Fungi"]
[null,"Corynebacterium propinquum","Bacteria"]
[null,"Influenza C virus","RNA-Virus"]
[null,"Coccidioides posadasii","Fungi"]
[null,"Mycobacterium xenopi","Bacteria"]
[null,"Streptococcus pyogenes","Bacteria"]
[null,"Enterobacter aerogenes","Bacteria"]
[null,"Klebsiella oxytoca","Bacteria"]
[null,"Enterovirus A71","RNA-Virus"]
[null,"Enterovirus D68 (EV-D68)","RNA-Virus"]
[null,"Yersinia pseudotuberculosis","Bacteria"]
[null,"Yersinia enterocolitica","Bacteria"]
[null,"Treponema denticola","Bacteria"]
[null,"Coccidioides immitis","Fungi"]
[null,"Bacteroides thetaiotaomicron","Bacteria"]
[null,"Phocaeicola vulgatus","Bacteria"]
[null,"Bacteroides fragilis","Bacteria"]
[null,"Escherichia coli","Bacteria"]
[null,"Human alphaherpes virus 1","DNA-Virus"]
[null,"Human alphaherpes virus 2","DNA-Virus"]
[null,"Listeria monocytogenes","Bacteria"]
[null,"Gordonia bronchialis","Bacteria"]
[null,"Pasteurella dagmatis","Bacteria"]
[null,"Pasteurella pneumotropica","Bacteria"]
[null,"Pasteurella multocida","Bacteria"]
[null,"Lomentospora prolificans","Fungi"]
[null,"Candida parapsilosis","Fungi"]
[null,"[Candida] glabrata","Fungi"]
[null,"Candida tropicalis","Fungi"]
[null,"Candida auris","Fungi"]
[null,"Aggregatibacter actinomycetemcomitans","Bacteria"]
[null,"Klebsiella pneumoniae","Bacteria"]
[null,"Streptococcus pneumoniae","Bacteria"]
[null,"Chlamydia pneumoniae","Bacteria"]
[null,"Mycoplasma pneumoniae","Bacteria"]
[null,"Tsukamurella pulmonis","Bacteria"]
[null,"Enterococcus faecalis","Bacteria"]
[null,"Rubella virus","RNA-Virus"]
[null,"Shigella","Bacteria"]
[null," Plesiomonas shigelloides","Bacteria"]
[null,"Citrobacter braakii","Bacteria"]
[null,"Citrobacter amalonaticus","Bacteria"]
[null,"Citrobacter freundii","Bacteria"]
[null,"Shewanella alga","Bacteria"]
[null,"Shewanella putrefaciens","Bacteria"]
[null,"Fusarium solani","Fungi"]
[null,"Bordetella parapertussis","Bacteria"]
[null,"Haemophilus parainfluenzae","Bacteria"]
[null,"Mycobacterium leprae","Bacteria"]
[null,"Mycobacterium parascrofulaceum","Bacteria"]
[null,"Haemophilus parahaemolyticus","Bacteria"]
[null,"Mycobacterium simiae","Bacteria"]
[null,"Mycobacterium gordonae","Bacteria"]
[null,"Cryptococcus laurentii","Fungi"]
[null,"Cryptococcus albidus","Fungi"]
[null,"Cryptococcusgattii","Fungi"]
[null,"Aspergillus oryzae","Fungi"]
[null,"Aspergillus nidulans","Fungi"]
[null,"Nocardia arthritidis","Bacteria"]
[null,"Mycobacteroides chelonae","Bacteria"]
[null,"Dialister pneumosintes","Bacteria"]
[null,"Bartonella henselae","Bacteria"]
[null,"Human Respiratory syncytial virus A","RNA-Virus"]
[null,"Human Respiratory syncytial virus B","RNA-Virus"]
[null,"Clostridium perfringens","Bacteria"]
[null,"Clostridium tetani","Bacteria"]
[null,"Streptococcus porcinus","Bacteria"]
[null,"Streptococcus mitis","Bacteria"]
[null,"Aspergillus flavus","Fungi"]
[null,"Cunninghamella bertholletiae","Fungi"]
[null,"Tropheryma whipplei","Bacteria"]
[null,"helicobacter pylori","Bacteria"]
[null,"Bordetella holmesii","Bacteria"]
[null,"Histoplasma capsulatum","Fungi"]
[null,"Influenza A virus(H1N1)","RNA-Virus"]
[null,"Influenza A virus(H3N2)","RNA-Virus"]
[null,"Influenza A virus(H5N1)","RNA-Virus"]
[null,"Influenza A virus(H7N9)","RNA-Virus"]
[null,"Influenza A virus(H9N2)","RNA-Virus"]
[null,"Corynebacterium pseudodiphtheriticum","Bacteria"]
[null,"Corynebacterium pseudotuberculosis","Bacteria"]
[null,"Fusarium oxysporum","Fungi"]
[null,"Scedosporium apiospermum","Fungi"]
[null,"Corynebacterium jeikeium","Bacteria"]
[null,"Mycobacterium tuberculosis complex","Bacteria"]
[null,"Metamycoplasma hominis","Bacteria"]
[null,"Ureaplasma urealyticum","Bacteria"]
[null,"Staphylococcus aureus","Bacteria"]
[null,"Kingella kingae","Bacteria"]
[null,"Human betaherpes virus 5","DNA-Virus"]
[null,"Mucor circinelloides","Fungi"]
[null,"Moraxella catarrhalis","Bacteria"]
[null,"Mycobacterium kansasii","Bacteria"]
[null,"Coxsackievirus A2","RNA-Virus"]
[null,"Coxsackievirus A4","RNA-Virus"]
[null,"Coxsackievirus A5","RNA-Virus"]
[null,"Coxsackievirus A6","RNA-Virus"]
[null,"Coxsackievirus A7","RNA-Virus"]
[null,"Coxsackievirus A8","RNA-Virus"]
[null,"Coxsackievirus A9","RNA-Virus"]
[null,"Coxsackievirus A10","RNA-Virus"]
[null,"Coxsackievirus A16","RNA-Virus"]
[null,"Coxsackievirus B1","RNA-Virus"]
[null,"Coxsackievirus B2","RNA-Virus"]
[null,"Coxsackievirus B3","RNA-Virus"]
[null,"Coxsackievirus B4","RNA-Virus"]
[null,"coxsackievirus B5","RNA-Virus"]
[null,"Citrobacter koseri","Bacteria"]
[null,"Corynebacterium ulcerans","Bacteria"]
[null,"Bacillus cereus","Bacteria"]
[null,"Nocardia veterana","Bacteria"]
[null,"Burkholderia pseudomallei","Bacteria"]
[null,"Klebsiella quasipneumoniae","Bacteria"]
[null,"Rickettsia rickettsii","Bacteria"]
[null,"Schizophyllum commune","Fungi"]
[null,"Brucella abortus","Bacteria"]
[null,"Haemophilus influenzae","Bacteria"]
[null,"Mycobacterium scrofulaceum","Bacteria"]
[null,"Acinetobacter calcoaceticus","Bacteria"]
[null,"Acinetobacter lwoffii","Bacteria"]
[null,"Measles virus","RNA-Virus"]
[null,"Talaromyces marneffei","Fungi"]
[null,"Brucella melitensis","Bacteria"]
[null,"Legionella maceachernii","Bacteria"]
[null,"Mycobacterium malmoense","Bacteria"]
[null,"Tatlockia micdadei","Bacteria"]
[null,"Rhizopus oryzae","Fungi"]
[null,"Morganella morganii","Bacteria"]
[null,"Achromobacter xylosoxidans","Bacteria"]
[null,"Nocardia cyriacigeorgica","Bacteria"]
[null,"Nocardia transvalensis","Bacteria"]
[null,"Neisseria meningitidis","Bacteria"]
[null,"Mycobacterium avium complex (MAC)","Bacteria"]
[null,"Mycobacterium colombiense","Bacteria"]
[null,"Mycobacterium avium","Bacteria"]
[null,"Mycobacterium abscessus","Bacteria"]
[null,"Nocardia abscessus","Bacteria"]
[null,"Mycolicibacterium fortuitum","Bacteria"]
[null,"Human herpesvirus 4","DNA-Virus"]
[null,"Proteus penneri","Bacteria"]
[null,"Nocardia farcinica","Bacteria"]
[null,"Chryseobacterium indologenes","Bacteria"]
[null,"Acinetobacter pittii","Bacteria"]
[null,"Exophiala dermatitidis","Fungi"]
[null,"Blastomyces dermatitidis","Fungi"]
[null,"Proteus vulgaris","Bacteria"]
[null,"Proteus mirabilis","Bacteria"]
[null,"Eikenella corrodens","Bacteria"]
[null,"Brucella canis","Bacteria"]
[null,"Human bocavirus 1","DNA-Virus"]
[null,"Alcaligenes faecalis","Bacteria"]
[null,"Ochrobactrum anthropi","Bacteria"]
[null,"Human parainfluenza virus 1","RNA-Virus"]
[null,"Human parainfluenza virus 2","RNA-Virus"]
[null,"Human parainfluenza virus 3","RNA-Virus"]
[null,"Human parainfluenza virus 4","RNA-Virus"]
[null,"Human coronavirus 229E","RNA-Virus"]
[null,"Human coronavirus HKU1","RNA-Virus"]
[null,"Human coronavirus NL63","RNA-Virus"]
[null,"Human coronavirus OC43","RNA-Virus"]
[null,"Human betaherpesvirus 6","DNA-Virus"]
[null,"Human metapneumovirus","RNA-Virus"]
[null,"Human parechovirus","RNA-Virus"]
[null,"Human parechovirus 1","RNA-Virus"]
[null,"Human parechovirus 3","RNA-Virus"]
[null,"Cardiobacterium hominis","Bacteria"]
[null,"Haemophilus haemolyticus","Bacteria"]
[null,"Arcanobacterium haemolyticum","Bacteria"]
[null,"Mumps virus","RNA-Virus"]
[null,"Salmonella enterica subsp. enterica serovar Paratyphi A","Bacteria"]
[null,"Salmonella enterica subsp. enterica serovar Paratyphi B","Bacteria"]
[null,"Salmonella enterica subsp. enterica serovar Paratyphi C","Bacteria"]
[null,"Salmonella enterica subsp. enterica serovar Typhimurium","Bacteria"]
[null,"Salmonella enterica subsp. enterica serovar Enteritidis","Bacteria"]
[null,"Salmonella enterica","Bacteria"]
[null,"Chlamydia trachomatis","Bacteria"]
[null,"Sphingomonas paucimobilis","Bacteria"]
[null,"Sporothrix schenckii","Fungi"]
[null,"Borrelia burgdorferi","Bacteria"]
[null,"Borrelia duttoni","Bacteria"]
[null,"Borrelia recurrentis","Bacteria"]
[null,"Leptospira interrogans","Bacteria"]
[null,"Leptospira","Bacteria"]
[null,"Pseudomonas stutzeri","Bacteria"]
[null,"Enterococcus faecium","Bacteria"]
[null,"Legionella bozemanii","Bacteria"]
[null,"Legionella dumoffii","Bacteria"]
[null,"Legionella pneumophila","Bacteria"]
[null,"Stenotrophomonas maltophilia","Bacteria"]
[null,"Aggregatibacter aphrophilus","Bacteria"]
[null,"Aeromonas hydrophila","Bacteria"]
[null,"Yersinia pestis","Bacteria"]
[null,"Human alphaherpesvirus 3","DNA-Virus"]
[null,"Providencia rettgeri","Bacteria"]
[null,"Providencia alcalifaciens","Bacteria"]
[null,"Providencia stuartii","Bacteria"]
[null,"Bacillus anthracis","Bacteria"]
[null,"Pseudomonas gladioli","Bacteria"]
[null,"Streptococcus dysgalactiae subsp. equisimilis","Bacteria"]
[null,"Pseudomonas aeruginosa","Bacteria"]
[null,"Francisella tularensis","Bacteria"]
[null,"Aspergillus terreus","Fungi"]
[null,"Nocardia otitidiscaviarum","Bacteria"]
[null,"Aeromonas caviae","Bacteria"]
[null,"Ureaplasma parvum","Bacteria"]
[null,"Aeromonas veronii bv. sobria","Bacteria"]
[null,"Corynebacterium striatum","Bacteria"]
[null,"Legionella waltersii","Bacteria"]
[null,"Streptococcus agalactiae","Bacteria"]
[null,"Bartonella vinsonii","Bacteria"]
[null,"Bartonella bacilliformis","Bacteria"]
[null,"Bartonella quintana","Bacteria"]
[null,"Human parvovirus B19","DNA-Virus"]
[null,"Rhizopus microsporus","Fungi"]
[null,"Bordetella hinzii","Bacteria"]
[null,"Nocardia nova","Bacteria"]
[null,"Cryptococcusneoformans","Fungi"]
[null,"Curvularia lunata","Fungi"]
[null,"Streptococcus constellatus","Bacteria"]
[null,"Apophysomyces elegans","Fungi"]
[null,"Aspergillusfumigatus","Fungi"]
[null,"Streptococcus anginosus","Bacteria"]
[null,"Burkholderia cepacia complex","Bacteria"]
[null,"Burkholderia cepacia","Bacteria"]
[null,"Burkholderia cenocepacia","Bacteria"]
[null,"Burkholderia multivorans","Bacteria"]
[null,"Rickettsia tsutsugamushi","Bacteria"]
[null,"Pneumocystisjirovecii","Fungi"]
[null,"Actinomyces israelii","Bacteria"]
[null,"Acinetobacter nosocomialis","Bacteria"]
[null,"Acinetobacter haemolyticus","Bacteria"]
[null,"Acinetobacter junii","Bacteria"]
[null,"Influenza B virus","RNA-Virus"]
[null,"Enterobacter cloacae","Bacteria"]
[null,"Enterobacter cloacae complex","Bacteria"]
[null,"Mucor indicus","Fungi"]
[null,"Chlamydia abortus","Bacteria"]
[null,"Chlamydia psittaci","Bacteria"]
[null,"Pseudomonas putida","Bacteria"]
[null,"Pseudomonas fluorescens","Bacteria"]
[null,"Serratia marcescens","Bacteria"]
[null,"Legionella longbeachae","Bacteria"]
[null,"Bordetella bronchiseptica","Bacteria"]
[null,"Raoultella planticola","Bacteria"]
[null,"Streptococcus intermedius","Bacteria"]
[null,"Brucella suis","Bacteria"]
[null,"Chromobacterium violaceum","Bacteria"]
[null,"Syncephalastrum racemosum","Fungi"]
[null,"Mucor racemosus","Fungi"]
[null,"Mycobacterium marinum","Bacteria"]
[null,"Mycobacterium ulcerans","Bacteria"]
[null,"Mycobacterium haemophilum","Bacteria"]
[null,"Nocardia asteroides","Bacteria"]
[null,"Nocardia puris","Bacteria"]
[null,"Nocardia wallacei","Bacteria"]
[null,"Nocardia asiatica","Bacteria"]
[null,"Rhodococcus equi","Bacteria"]
[null,"Elizabethkingia meningoseptica","Bacteria"]
[null,"Rickettsia typhi","Bacteria"]
[null,"Rickettsia prowazekii","Bacteria"]
[null,"Echovirus E3","RNA-Virus"]
[null,"Echovirus E6","RNA-Virus"]
[null,"Echovirus E9","RNA-Virus"]
[null,"Echovirus E16","RNA-Virus"]
[null,"Echovirus E17","RNA-Virus"]
[null,"Echovirus E25","RNA-Virus"]
[null,"Echovirus E30","RNA-Virus"]
[null,"Human adenovirus 1","DNA-Virus"]
[null,"Human adenovirus 2","DNA-Virus"]
[null,"Human adenovirus B3","DNA-Virus"]
[null,"Human adenovirus E4","DNA-Virus"]
[null,"Human adenovirus 5","DNA-Virus"]
[null,"Human adenovirus 7","DNA-Virus"]
[null,"Human adenovirus 14","DNA-Virus"]
[null,"Human adenovirus 55","DNA-Virus"]
[null,"Human adenovirus 11","DNA-Virus"]
[null,"Human adenovirus 21","DNA-Virus"]
[null,"Human adenovirus 31","DNA-Virus"]
[null,"Human adenovirus 34","DNA-Virus"]
[null,"Human adenovirus 35","DNA-Virus"]
[null,"Orthohantavirus","RNA-Virus"]
[null,"Hantaan orthohantavirus","RNA-Virus"]
[null,"Seoul orthohantavirus","RNA-Virus"]

{"sheet":"STable 2","index":1,"n_rows":25,"n_cols":5,"rows_kept":25}
["Supplementary Table 2. Compositions of 23 microorganisms of reference panel"]
[null,"Current scientific name","taxid","GC percent（Reference genome）（%）","GC percent（Probe  design）（%）"]
[null,"Klebsiella pneumoniae",573,57,61]
[null,"Acinetobacter baumannii",470,38.5,40]
[null,"Staphylococcus aureus",1280,32.5,34]
[null,"Haemophilus influenzae",727,38,39]
[null,"Escherichia coli",562,50.5,53]
[null,"Legionella pneumophila",446,38,39]
[null,"Stenotrophomonas maltophilia",40324,66.5,66]
[null,"Streptococcus pyogenes",1314,38.5,39]
[null,"Pseudomonas aeruginosa",287,66.5,68]
[null,"Listeria monocytogenes",1639,37.5,39.5]
[null,"Enterobacter cloacae",550,54.5,56]
[null,"Cryptococcus neoformans",5207,48.5,50.5]
[null,"Candida albicans",5476,33,40]
[null,"Human betaherpes virus 5",10359,57,56]
[null,"SARS-CoV-2",2697049,38,38]
[null,"Human adenovirus 7",10519,51,57]
[null,"Human Respiratory syncytial virus A",208893,33,33]
[null,"Influenza A virus(H1N1)",641809,43.5,43.5]
[null,"Streptococcus pneumoniae",1313,39.5,40]
[null,"Mycoplasma pneumoniae",2104,39.5,40]
[null,"Aspergillus fumigatus",746128,49.5,51.5]
[null,"Mycobacterium tuberculosis",1773,65.5,65]
[null,"Pneumocystis jirovecii",42068,28.5,42]

{"sheet":"STable 3","index":2,"n_rows":28,"n_cols":3,"rows_kept":28}
[]
[null,"Supplementary Table 3. Clinical characteristics of the cohort."]
[]
[null,"Clinical characteristic (n=281)","Number (%)"]
[null,"Age, Median (IQR)","62 (48,72)"]
[null,"Gender"]
[null,"Male","155(55.16%)"]
[null,"Female","126(4.84%)"]
[null,"Laboratory findings"]
[null,"WBC (109/L), median (IQR)","10.82(8.57, 16.05)"]
[null,"CRP(mg/L),median (IQR)","10.32(5.31, 15.13)"]
[null,"PCT(ng/mL),median (IQR)","0.32(0.05,0.58)"]
[null,"In hospital, n (%)","140(49.82%)"]
[null,"In intensive care unit, n (%)","141(50.18%)"]
[null,"Final pulmonary diagnosis, n (%)"]
[null,"Respiratory infection","216(76.86%)"]
[null,"Tumor","35(12.46%)"]
[null,"Pulmonary abscess","4(1.42%)"]
[null,"Underlying diseases"]
[null,"Respiratory diseases","142(50.53%)"]
[null," Hematologic tumors","43(15.30%)"]
[null," Blood system diseases","15(5.34%)"]
[null," Solid tumors","22(7.83%)"]
[null," Autoimmune diseases","35(12.46%)"]
[null," Metabolic diseases","11(3.91%)"]
[null," Circulatory system diseases","7(2.49%)"]
[null,"Urinary system diseases","6(2.14%)"]
[null,"Abbreviations: IQR, interquartile range;  WBC, White blood cell;PCT,procaicitonin; CRP, C-reactive protein."]

{"sheet":"STable 4","index":3,"n_rows":9,"n_cols":6,"rows_kept":9}
[]
[null,"Supplementary Table 4.False  negative samples in tNGS."]
[]
[null,"Patients ID","Composite reference standard","tNGS","mNGS","Discussion"]
[null,"Pt207","Pseudomonas aeruginosa","Stenotrophomonas maltophilia; Acinetobacter baumannii","Pseudomonas aeruginosa; CMV","false negative:  detected DNA but not up to threshold"]
[null,"Pt226","streptococcus pneumoniae","ND","ND","false negative"]
[null,"Pt267","Mycobacterium avium complex group","Acinetobacter baumannii;Mycobacterium tuberculosis","Acinetobacter baumannii","false negative:  detected DNA but not up to threshold"]
[null,"Pt52","Aspergillus flavus","Staphylococcus aureus；CMV；Acinetobacter baumannii","Staphylococcus aureus；CMV","false negative"]
[null,"Pt278","Klebsiella pneumoniae","Candida albicans；streptococcus pneumoniae","Candida albicans；Human gammaherpesvirus 4","false negative"]

{"sheet":"STable 5","index":4,"n_rows":17,"n_cols":6,"rows_kept":17}
[null,"Supplementary table 5.  False positive samples in tNGS"]
[null,"Patients ID","Composite reference standard","tNGS","Results","Other molecular"]
[null,"Pt120","noninfection","Acinetobacter baumannii","false positive","qPCR: Acinetobacter baumannii"]
[null,"Pt96","noninfection","Candida albicans","false positive","mNGS: aspergillus fumigatus"]
[null,"Pt175","noninfection","klebsiella pneumoniae","false positive","qPCR: klebsiella pneumoniae"]
[null,"Pt84","noninfection","Epstein-barr virus","false positive","qPCR：signals near the threshold"]
[null,"Pt15","noninfection","Staphylococcus aureus","false positive","qPCR:Staphylococcus aureus"]
[null,"Pt268","noninfection","Pseudomonas aeruginosa;Stenotrophomonas maltophilia","false positive","mNGS:Pseudomonas aeruginosa;Stenotrophomonas maltophilia"]
[null,"Pt139","noninfection","streptococcus pneumoniae；Stenotrophomonas maltophilia","false positive","mNGS:streptococcus pneumoniae；Stenotrophomonas maltophilia"]
[null,"Pt166","noninfection","streptococcus pneumoniae","false positive","qPCR:streptococcus pneumoniae"]
[null,"Pt145","noninfection","streptococcus pneumoniae；Pseudomonas aeruginosa","false positive","mNGS: streptococcus pneumoniae；Pseudomonas aeruginosa"]
[null,"Pt151","noninfection","Epstein-barr virus","false positive","qPCR:Epstein-barr virus"]
[null,"Pt64","noninfection","streptococcus pneumoniae","false positive","qPCR:streptococcus pneumoniae"]
[null,"Pt237","noninfection","Acinetobacter baumannii","false positive","qPCR: Acinetobacter baumannii"]
[null,"Pt222","noninfection","Streptococcus pneumoniae; Pseudomonas aeruginosa","false positive","mNGS: Streptococcus pneumoniae; Pseudomonas aeruginosa"]
[null,"Pt265","noninfection","Streptococcus pneumoniae; Corynebacterium striatum","false positive","mNGS: Streptococcus pneumoniae; Corynebacterium striatum"]
[null,"Pt233","noninfection","streptococcus pneumoniae","false positive","mNGS:streptococcus pneumoniae"]

{"sheet":"STable 6","index":5,"n_rows":41,"n_cols":6,"rows_kept":41}
[null,"Supplementary table 6 . Association between AMR and AST."]
[]
[null,"Patients ID","Pathogen","Associated AMR marker(s)a","Susceptibility profile","Agreement"]
[null,"Pt86","S. aureus","mecA","Methicillin-resistant","Agree"]
[null,"Pt161","A. baumannii","blaOXA-48","Carbapenem-resistant ","Agree"]
[null,"Pt135","S. aureus","ND","Methicillin-resistant","Disagree"]
[null,"Pt238","A. baumannii","blaOXA-23","Carbapenem-resistant ","Agree"]
[null,"Pt259","S. aureus","mecA","Methicillin-resistant","Agree"]
[null,"Pt61","A. baumannii","ND","extensively drug-resistant","Disagree"]
[null,"Pt215","A. baumannii","blaOXA-23","Carbapenem-resistant ","Agree"]
[null,"Pt141","K. pneumoniae","blaKPC","Carbapenem-resistant ","Agree"]
[null,"Pt212","S. aureus","ND","Methicillin-resistant","Disagree"]
[null,"Pt54","K. pneumoniae","blaKPC","Carbapenem-resistant ","Agree"]
[null,"Pt204","S. aureus","mecA","Methicillin-resistant","Agree"]
[null,"Pt236","A. baumannii","blaOXA-23","Carbapenem-resistant ","Agree"]
[null,"Pt173","A. baumannii","ND","Carbapenem-resistant;  Methicillin-resistant","Disagree"]
[null,"Pt164","S. aureus","mecA","Methicillin-resistant","Agree"]
[null,"Pt174","A. baumannii","blaAmpC, blaOXA-23","Carbapenem-resistant ","Agree"]
[null,"Pt132","E. coli","blaKPC,  blaAmpC","Carbapenem-resistant ","Agree"]
[null,"Pt57","S. aureus","mecA","Methicillin-resistant","Agree"]
[null,"Pt280","A. baumannii","blaOXA-48","Carbapenem-resistant ","Agree"]
[null,"Pt103","E. coli","blaCTX-M","Carbapenem-resistant ;ESBLs","Agree"]
[null,"Pt219","E. coli","ND","ESBLs, cephalosporins-resistance and aminoglycosides-sensitive","Disagree"]
[null,"Pt21","S. aureus","ND","Pansusceptible","Agree"]
[null,"Pt251","E. coli","ND","cephalosporins and penicillins resistance","Disagree"]
[null,"Pt189","K. pneumoniae","ND","cephalosporins resistance","Disagree"]
[null,"Pt263","A. baumannii","blaOXA-48","Carbapenem-resistant","Agree"]
[null,"Pt81","A. baumannii","blaOXA-23","Carbapenem-resistant ","Agree"]
[null,"Pt134","A. baumannii","blaOXA-23","Carbapenem-resistant ","Agree"]
[null,"Pt214","M. tuberculosis complex","ropB p.Ser450Leu","Rifampicin-resistant","Agree"]
[null,"Pt281","M. tuberculosis complex","ropB p.Ser450Leu","Rifampicin-resistant","Agree"]
[null,"Pt241","M. tuberculosis complex","katG p.Ser315Thr","isoniazid-resistant","Agree"]
[null,"Pt171","M. tuberculosis complex","katG p.Ser315Thr","isoniazid-resistant","Agree"]
[null,"Pt264","M. tuberculosis complex","ND","Pansusceptible","Agree"]
[null,"Pt7","M. tuberculosis complex","ND","Pansusceptible","Agree"]
[null,"Pt262","M. tuberculosis complex","ND","Pansusceptible","Agree"]
[null,"Pt261","M. tuberculosis complex","ND","Pansusceptible","Agree"]
[null,"Pt190","M. tuberculosis complex","ND","Pansusceptible","Agree"]
[null,"Pt231","M. tuberculosis complex","ND","Pansusceptible","Agree"]
[null,"a Associations are listed as reported by study orexpert consensus , which follow traditional gene-based reporting. "]
[null,"ND: not detected"]