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failure to read ris file #30

Open zh-zhang1984 opened 2 years ago

zh-zhang1984 commented 2 years ago

Dear authors thanks for the useful package and I have the following error reporting: 

> Embase <- ris_reader(
+   "/Users/zhangzhongheng/Downloads/records.ris"
+ )
Error: 'x' is not likely RIS format

this records.ris is exported from Embase; and I have tried several times by different number of citations, it reports the same error.

bwiernik commented 2 years ago

Embase has had malformed ris files in the past. Can you copy a couple of entries from one and paste them here?

zh-zhang1984 commented 2 years ago 
TY  - JOUR
M3  - Article
Y1  - 2022
VL  - 22
IS  - 1
SN  - 1471-2431
JF  - BMC Pediatrics
JO  - BMC Pediatr.
UR  - https://www.embase.com/search/results?subaction=viewrecord&id=L2014633894&from=export
U2  - L2014633894
C5  - 34980043
DB  - Embase
DB  - Medline
U3  - 2022-01-10
L2  - http://dx.doi.org/10.1186/s12887-021-03049-5
DO  - 10.1186/s12887-021-03049-5
A1  - Bekele, T.
A1  - Merga, H.
A1  - Tesfaye, T.
A1  - Asefa, H.
M1  - (Bekele T., btadele97@gmail.com) Durame General Hospital, Durame, SNNPR, Ethiopia
M1  - (Merga H., hailu.merga2014@gmail.com; Asefa H., menothen@gmail.com) Department of Epidemiology, Institute of Health, Jimma University, Jimma, Ethiopia
M1  - (Tesfaye T., tamirutesfaye00@gmail.com) Department of nursing, Ambo University, Woliso Campus, Ambo, Ethiopia
AD  - T. Tesfaye, Department of nursing, Ambo University, Woliso Campus, Ambo, Ethiopia
T1  - Predictors of mortality among neonates hospitalized with neonatal sepsis: a case control study from southern Ethiopia
LA  - English
KW  - article
KW  - attention
KW  - case control study
KW  - checklist
KW  - controlled study
KW  - convulsion
KW  - data analysis software
KW  - Ethiopia
KW  - feeding
KW  - female
KW  - general hospital
KW  - gestational age
KW  - human
KW  - infant
KW  - major clinical study
KW  - male
KW  - neonatal intensive care unit
KW  - newborn
KW  - newborn mortality
KW  - newborn sepsis
KW  - prematurity
KW  - prevention
KW  - respiratory distress
KW  - statistical significance
N2  - Background: Neonatal sepsis, which resulted from bacterial, viral, and fungal invasions of the bloodstream, is the major cause of neonatal mortality and neurodevelopmental impairment among neonates. It is responsible for more than one-third of neonatal deaths in Ethiopia. Frequently neonates referred to health facilities are at high risk of death. Hence, assessing and preventing the predictors of mortality in neonatal sepsis helps to reduce the burden of neonatal mortality. Objectives: To determine predictors of mortality among neonates admitted with sepsis at Durame general hospital, southern Ethiopia, 2020. Methods: Institution-based unmatched case-control study was carried out from March 8 to 30, 2020, among 219 neonates in Durame general hospital in southern Ethiopia. Neonates admitted with sepsis and died were considered as cases and neonates admitted with sepsis and survived (discharged alive) as controls. Cases were selected by taking the deaths of neonates consecutively among those neonates admitted with the diagnosis of neonatal sepsis. The next immediate three corresponding controls were selected by lottery method from the Neonatal Intensive Care Unit (NICU) case registration book. Data was collected by using structured pretested checklists from neonates’ records and then entered into Epi data version 3.1 and exported to SPSS version 20. Logistic regression was used to identify the predictors of mortality. Statistical significance was declared at P < 0.05. Results: A total of 55 cases and 164 controls were included in this study. More than three quarters (81.8%) of cases had early onset sepsis. The multivariable logistic regression analysis showed that predictors of mortality in this study were; poor feeding [AOR = 4.15; 95% CI (1.64, 10.49)], respiratory distress [AOR = 2.72; 95% CI (1.31, 5.61)], estimated gestational age less than 37 weeks [AOR = 4.64; 95% CI (2.17, 9.91)], and convulsion [AOR = 3.13; 95% CI (1.12, 8.76)]. Conclusion: This study showed that prematurity, convulsion, poor feeding, and respiratory distress were the predictors of sepsis-related neonatal mortality. It is important to pay attention to septicemic babies with any of the identified predictors to reduce sepsis-related mortality.
ER  - 

TY  - JOUR
M3  - Article
Y1  - 2022
VL  - 36
IS  - 4
SN  - 1098-2825
SN  - 0887-8013
JF  - Journal of Clinical Laboratory Analysis
JO  - J. Clin. Lab. Anal.
UR  - https://www.embase.com/search/results?subaction=viewrecord&id=L2015205580&from=export
U2  - L2015205580
C5  - 35243686
DB  - Embase
DB  - Medline
DB  - 
U3  - 2022-03-08
L2  - http://dx.doi.org/10.1002/jcla.24330
DO  - 10.1002/jcla.24330
A1  - Huang, Q.
A1  - Wang, Y.
A1  - He, F.
M1  - (Huang Q., huang_qinghe@126.com; Wang Y.; He F.) Department of Central Intensive Care Unit, Zhongshan Hospital Affiliated to Xiamen University, Xiamen, China
AD  - Q. Huang, Department of Central Intensive Care Unit, Zhongshan Hospital Affiliated to Xiamen University, Xiamen, China
T1  - Blood long non-coding RNA intersectin 1–2 is highly expressed and links with increased Th17 cells, inflammation, multiple organ dysfunction, and mortality risk in sepsis patients
LA  - English
KW  - adult
KW  - article
KW  - cardiovascular system
KW  - controlled study
KW  - enzyme linked immunosorbent assay
KW  - female
KW  - flow cytometry
KW  - human
KW  - human cell
KW  - human tissue
KW  - inflammation
KW  - major clinical study
KW  - male
KW  - mortality risk
KW  - multiple organ failure
KW  - peripheral blood mononuclear cell
KW  - prognosis
KW  - protein expression
KW  - respiratory system
KW  - risk assessment
KW  - sepsis
KW  - Sequential Organ Failure Assessment Score
KW  - survivor
KW  - Th1 cell
KW  - Th17 cell
KW  - urinary tract
KW  - biological marker
KW  - C reactive protein
KW  - cytokine
KW  - endogenous compound
KW  - gamma interferon
KW  - interleukin 17
KW  - intersectin
KW  - long untranslated RNA
N2  - Background: Long non-coding RNA intersectin 1–2 (lnc-ITSN1-2) exacerbates inflammation and promotes T-helper (Th) cell differentiation, also serves as a biomarker in critical illness diseases. However, its clinical role in sepsis remains obscure. Hence, the study aimed to explore the relationship of lnc-ITSN1-2 with Th cells, inflammation, disease severity, multiple organ dysfunction, and mortality risk in sepsis. Methods: Peripheral blood mononuclear cells (PBMC) were isolated from 95 sepsis patients and 50 health controls, followed by lnc-ITSN1-2 evaluation using RT-qPCR. PBMC Th1, Th17 cells and their secreted cytokines in serum were detected by flow cytometry and ELISA, respectively. Results: Lnc-ITSN1-2 in sepsis patients was higher than it in health controls (Z = −7.328, p < 0.001). Lnc-ITSN1-2 correlated with increased interferon-gamma (p = 0.009), Th17 cells (p = 0.022), and interleukin-17A (p = 0.006), but not Th1 cells (p = 0.169) in sepsis patients. Moreover, lnc-ITSN1-2 had a positive connection with C-reactive protein (p = 0.001), acute pathologic and chronic health evaluation (APACHE) II (p = 0.024), and sequential organ failure assessment (SOFA) scores (p = 0.022). Regarding SOFA subscales, lnc-ITSN1-2 linked with elevated respiratory system score (p = 0.005), cardiovascular system score (p = 0.007), and renal system score (p = 0.004) but no other subscales. Besides, lnc-ITSN1-2 had an increasing trend, but no statistical difference, in septic deaths compared to survivors (Z = −1.852, p = 0.064). Conclusion: Lnc-ITSN1-2 reflects sepsis progression and unfavorable prognosis to some extent, which may serve as a potential biomarker to improve the management of sepsis patients.
ER  -

Above are two citations in the .ris file

zh-zhang1984 commented 2 years ago 
TY  - JOUR
M3  - Article
Y1  - 2022
VL  - 22
IS  - 1
SN  - 1471-2431
JF  - BMC Pediatrics
JO  - BMC Pediatr.
UR  - https://www.embase.com/search/results?subaction=viewrecord&id=L2014633894&from=export
U2  - L2014633894
C5  - 34980043
DB  - Embase
DB  - Medline
U3  - 2022-01-10
L2  - http://dx.doi.org/10.1186/s12887-021-03049-5
DO  - 10.1186/s12887-021-03049-5
A1  - Bekele, T.
A1  - Merga, H.
A1  - Tesfaye, T.
A1  - Asefa, H.
M1  - (Bekele T., btadele97@gmail.com) Durame General Hospital, Durame, SNNPR, Ethiopia
M1  - (Merga H., hailu.merga2014@gmail.com; Asefa H., menothen@gmail.com) Department of Epidemiology, Institute of Health, Jimma University, Jimma, Ethiopia
M1  - (Tesfaye T., tamirutesfaye00@gmail.com) Department of nursing, Ambo University, Woliso Campus, Ambo, Ethiopia
AD  - T. Tesfaye, Department of nursing, Ambo University, Woliso Campus, Ambo, Ethiopia
T1  - Predictors of mortality among neonates hospitalized with neonatal sepsis: a case control study from southern Ethiopia
LA  - English
KW  - article
KW  - attention
KW  - case control study
KW  - checklist
KW  - controlled study
KW  - convulsion
KW  - data analysis software
KW  - Ethiopia
KW  - feeding
KW  - female
KW  - general hospital
KW  - gestational age
KW  - human
KW  - infant
KW  - major clinical study
KW  - male
KW  - neonatal intensive care unit
KW  - newborn
KW  - newborn mortality
KW  - newborn sepsis
KW  - prematurity
KW  - prevention
KW  - respiratory distress
KW  - statistical significance
N2  - Background: Neonatal sepsis, which resulted from bacterial, viral, and fungal invasions of the bloodstream, is the major cause of neonatal mortality and neurodevelopmental impairment among neonates. It is responsible for more than one-third of neonatal deaths in Ethiopia. Frequently neonates referred to health facilities are at high risk of death. Hence, assessing and preventing the predictors of mortality in neonatal sepsis helps to reduce the burden of neonatal mortality. Objectives: To determine predictors of mortality among neonates admitted with sepsis at Durame general hospital, southern Ethiopia, 2020. Methods: Institution-based unmatched case-control study was carried out from March 8 to 30, 2020, among 219 neonates in Durame general hospital in southern Ethiopia. Neonates admitted with sepsis and died were considered as cases and neonates admitted with sepsis and survived (discharged alive) as controls. Cases were selected by taking the deaths of neonates consecutively among those neonates admitted with the diagnosis of neonatal sepsis. The next immediate three corresponding controls were selected by lottery method from the Neonatal Intensive Care Unit (NICU) case registration book. Data was collected by using structured pretested checklists from neonates’ records and then entered into Epi data version 3.1 and exported to SPSS version 20. Logistic regression was used to identify the predictors of mortality. Statistical significance was declared at P < 0.05. Results: A total of 55 cases and 164 controls were included in this study. More than three quarters (81.8%) of cases had early onset sepsis. The multivariable logistic regression analysis showed that predictors of mortality in this study were; poor feeding [AOR = 4.15; 95% CI (1.64, 10.49)], respiratory distress [AOR = 2.72; 95% CI (1.31, 5.61)], estimated gestational age less than 37 weeks [AOR = 4.64; 95% CI (2.17, 9.91)], and convulsion [AOR = 3.13; 95% CI (1.12, 8.76)]. Conclusion: This study showed that prematurity, convulsion, poor feeding, and respiratory distress were the predictors of sepsis-related neonatal mortality. It is important to pay attention to septicemic babies with any of the identified predictors to reduce sepsis-related mortality.
ER  - 

TY  - JOUR
M3  - Article
Y1  - 2022
VL  - 36
IS  - 4
SN  - 1098-2825
SN  - 0887-8013
JF  - Journal of Clinical Laboratory Analysis
JO  - J. Clin. Lab. Anal.
UR  - https://www.embase.com/search/results?subaction=viewrecord&id=L2015205580&from=export
U2  - L2015205580
C5  - 35243686
DB  - Embase
DB  - Medline
DB  - 
U3  - 2022-03-08
L2  - http://dx.doi.org/10.1002/jcla.24330
DO  - 10.1002/jcla.24330
A1  - Huang, Q.
A1  - Wang, Y.
A1  - He, F.
M1  - (Huang Q., huang_qinghe@126.com; Wang Y.; He F.) Department of Central Intensive Care Unit, Zhongshan Hospital Affiliated to Xiamen University, Xiamen, China
AD  - Q. Huang, Department of Central Intensive Care Unit, Zhongshan Hospital Affiliated to Xiamen University, Xiamen, China
T1  - Blood long non-coding RNA intersectin 1–2 is highly expressed and links with increased Th17 cells, inflammation, multiple organ dysfunction, and mortality risk in sepsis patients
LA  - English
KW  - adult
KW  - article
KW  - cardiovascular system
KW  - controlled study
KW  - enzyme linked immunosorbent assay
KW  - female
KW  - flow cytometry
KW  - human
KW  - human cell
KW  - human tissue
KW  - inflammation
KW  - major clinical study
KW  - male
KW  - mortality risk
KW  - multiple organ failure
KW  - peripheral blood mononuclear cell
KW  - prognosis
KW  - protein expression
KW  - respiratory system
KW  - risk assessment
KW  - sepsis
KW  - Sequential Organ Failure Assessment Score
KW  - survivor
KW  - Th1 cell
KW  - Th17 cell
KW  - urinary tract
KW  - biological marker
KW  - C reactive protein
KW  - cytokine
KW  - endogenous compound
KW  - gamma interferon
KW  - interleukin 17
KW  - intersectin
KW  - long untranslated RNA
N2  - Background: Long non-coding RNA intersectin 1–2 (lnc-ITSN1-2) exacerbates inflammation and promotes T-helper (Th) cell differentiation, also serves as a biomarker in critical illness diseases. However, its clinical role in sepsis remains obscure. Hence, the study aimed to explore the relationship of lnc-ITSN1-2 with Th cells, inflammation, disease severity, multiple organ dysfunction, and mortality risk in sepsis. Methods: Peripheral blood mononuclear cells (PBMC) were isolated from 95 sepsis patients and 50 health controls, followed by lnc-ITSN1-2 evaluation using RT-qPCR. PBMC Th1, Th17 cells and their secreted cytokines in serum were detected by flow cytometry and ELISA, respectively. Results: Lnc-ITSN1-2 in sepsis patients was higher than it in health controls (Z = −7.328, p < 0.001). Lnc-ITSN1-2 correlated with increased interferon-gamma (p = 0.009), Th17 cells (p = 0.022), and interleukin-17A (p = 0.006), but not Th1 cells (p = 0.169) in sepsis patients. Moreover, lnc-ITSN1-2 had a positive connection with C-reactive protein (p = 0.001), acute pathologic and chronic health evaluation (APACHE) II (p = 0.024), and sequential organ failure assessment (SOFA) scores (p = 0.022). Regarding SOFA subscales, lnc-ITSN1-2 linked with elevated respiratory system score (p = 0.005), cardiovascular system score (p = 0.007), and renal system score (p = 0.004) but no other subscales. Besides, lnc-ITSN1-2 had an increasing trend, but no statistical difference, in septic deaths compared to survivors (Z = −1.852, p = 0.064). Conclusion: Lnc-ITSN1-2 reflects sepsis progression and unfavorable prognosis to some extent, which may serve as a potential biomarker to improve the management of sepsis patients.
ER  -

Above are two citations in the .ris file

bwiernik commented 2 years ago

The 'x' is not likely RIS format error is generated by a check for the { and } characters. Your examples don't have those characters. Does importing those examples actually fail?