| Literature DB >> 32153432 |
Hidetaka Tamune1,2,3, Jumpei Ukita3,4, Yu Hamamoto1,2, Hiroko Tanaka1,2, Kenji Narushima1, Naoki Yamamoto1.
Abstract
BACKGROUND: Vitamin B deficiency is common worldwide and may lead to psychiatric symptoms; however, vitamin B deficiency epidemiology in patients with intense psychiatric episode has rarely been examined. Moreover, vitamin deficiency testing is costly and time-consuming, which has hampered effectively ruling out vitamin deficiency-induced intense psychiatric symptoms. In this study, we aimed to clarify the epidemiology of these deficiencies and efficiently predict them using machine-learning models from patient characteristics and routine blood test results that can be obtained within one hour.Entities:
Keywords: decision support techniques or decision making; early diagnosis; folic acid; machine learning; random forest classifier; vitamin B deficiency
Year: 2020 PMID: 32153432 PMCID: PMC7044238 DOI: 10.3389/fpsyt.2019.01029
Source DB: PubMed Journal: Front Psychiatry ISSN: 1664-0640 Impact factor: 4.157
Figure 1Graphical illustration of method of machine-learning.
Patient distribution data (n = 497).
| Age | Sex | Race | ICD-10 code | VitB1 [ng/mL] | VitB12 [ng/L] | Folate [μg/L] | ||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 42.3 (15.4) years | Woman 228 (45.9%) Man 269 (54.1%) | Asian 496 Others 1 | F0 | F1 | F2 | F3 | F4 | F5 | F6 | F7 | F8 | F9 | <20 | <28 | <30* | <150 | <180* | <200 | <3.0 | <4.0* | <5.0 | |
| N | 28 | 21 | 300 | 58 | 16 | 0 | 29 | 20 | 24 | 1 | 15 | 81 | 112 | 37 | 80 | 107 | 29 | 72 | 134 | |||
| % | 5.6 | 4.2 | 60.4 | 11.7 | 3.2 | 0.0 | 5.8 | 4.0 | 4.8 | 0.2 | 3.0 | 16.3 | 22.5 | 7.4 | 16.1 | 21.5 | 5.8 | 14.5 | 27.0 | |||
Age is shown as mean (SD). Asterisks show the predefined cut-off values for vitamin B1, vitamin B12, and folate (vitamin B9) based on a reference (12); different cut-off values based on previous reports (14–16) are also presented for further investigation.
ICD-10 codes (Representative disorders in parentheses). F0, Organic, including symptomatic, mental disorders (e.g., dementia and other mental disorders due to brain damage and dysfunction and to physical disease); F1, Mental and behavioral disorders due to psychoactive substance use (e.g., due to use of alcohol, opioids, cannabinoids, and other substances); F2, Schizophrenia, schizotypal, delusional, and other non-mood psychotic disorders (e.g., acute and transient psychotic disorders); F3, Mood disorders (e.g., depressive episode and bipolar affective disorder); F4, Neurotic, stress-related and somatoform disorders (e.g., anxiety, obsessive-compulsive, stress-related, dissociative, somatoform, and other neurotic disorders); F5, Behavioral syndromes associated with physiological disturbances and physical factors (e.g., eating and nonorganic sleep disorders); F6, Disorders of adult personality and behavior (e.g., emotionally unstable personality disorder); F7, Mental retardation (e.g., intellectual disabilities); F8, Disorders of psychological development (e.g., pervasive and specific developmental disorders); F9, Behavioral and emotional disorders with onset usually occurring in childhood and adolescence (e.g., hyperkinetic, conduct, and tic disorders).
Vitamin B deficiencies in sub-groups.
| F0 | F1 | F2 | F3 | F4 | F6 | F7 | F8 | F9 | |
|---|---|---|---|---|---|---|---|---|---|
| vitB1 < 30 | 9 | 4 | 70 | 11 | 3 | 7 | 5 | 3 | 0 |
| [ng/mL] | (32%) | (19%) | (23%) | (19%) | (19%) | (24%) | (25%) | (13%) | |
| vitB12 < 180 | 5 | 4 | 53 | 7 | 3 | 1 | 4 | 3 | 0 |
| [ng/L] | (18%) | (19%) | (18%) | (12%) | (19%) | (3%) | (20%) | (13%) | |
| Folate < 4.0 | 5 | 7 | 38 | 6 | 5 | 3 | 4 | 4 | 0 |
| [μg/L] | (18%) | (33%) | (13%) | (10%) | (31%) | (10%) | (20%) | (17%) | |
| vitB1 < 30 | 1.68 | 0.80 | 1.12 | 0.78 | 0.79 | 1.10 | 1.15 | 0.48 | 0 |
| [ng/mL] | [0.74-3.83] | [0.26-2.43] | [0.73-1.73] | [0.39-1.57] | [0.22-2.81] | [0.46-2.65] | [0.41-3.24] | [0.14-1.63] | |
| vitB12 < 180 | 1.14 | 1.24 | 1.35 | 0.69 | 1.21 | 0.18 | 1.32 | 0.73 | 0 |
| [ng/L] | [0.42-3.10] | [0.41-2.43] | [0.82-2.23] | [0.30-1.58] | [0.34-4.35] | [0.02-1.31] | [0.43-4.05] | [0.21-2.52] | |
| Folate < 4.0 | 1.30 | 3.16 | 0.70 | 0.65 | 2.81 | 0.59 | 1.32 | 1.04 | 0 |
| [μg/L] | [0.48-3.55] | [1.23-8.13] | [0.42-1.15] | [0.27-1.58] | [0.95-8.34] | [0.17-1.98] | [0.43-4.05] | [0.35-3.14] |
Square brackets indicate the 95% confidence interval.
See .
Summary of full dataset of 29 parameters for machine-learning.
| Parameters | Units | Mean | SD |
|---|---|---|---|
| WBC | ×103/µL | 8.2 | 2.8 |
| Hb | g/dL | 13.7 | 1.7 |
| Hct | % | 40.3 | 4.5 |
| MCV | fL | 89 | 6.6 |
| Plt | ×104/µL | 24.9 | 6.3 |
| RDW.CV | % | 13.5 | 1.3 |
| Neu | % | 70 | 11 |
| Lym | % | 23 | 10 |
| Mono | % | 6 | 2 |
| Eo | % | 1 | 2 |
| Baso | % | 0 | 0 |
| TP | g/dL | 7.2 | 0.6 |
| Alb | g/dL | 4.4 | 0.4 |
| UN | mg/dL | 12.9 | 6.7 |
| Cre | mg/dL | 0.7 | 0.2 |
| T.bil | mg/dL | 0.7 | 0.4 |
| Na | mmol/L | 139 | 3 |
| Cl | mmol/L | 105 | 4 |
| K | mmol/L | 3.7 | 0.4 |
| cor.Ca | mg/dL | 9.1 | 0.5 |
| CK | IU/L | 514 | 1230 |
| AST | IU/L | 31 | 34 |
| ALT | IU/L | 27 | 24 |
| LDH | IU/L | 239 | 91 |
| ALP | IU/L | 224 | 81 |
| γGTP | IU/L | 37 | 63 |
| Glu | mg/dL | 112 | 40 |
| CRP | mg/dL | 0.4 | 0.9 |
| TSH | μIU/mL | 1.7 | 2.4 |
Two patients lacked age data (no photo ID was available), and one patient lacked biochemistry data (inappropriate sample processing). For machine-learning, the missing values were replaced using the mean.
WBC, white blood cell count; Hb, hemoglobin; Hct, hematocrit; MCV, mean corpuscular volume; RDW.CV, red blood cell distribution width-coefficient variation; Plt, platelet; Neu, neutrocyte fraction; Lym, lymphocyte fraction; Mono, monocyte fraction; Eo, eosinocyte fraction; Baso, basocyte fraction; TP, total protein; Alb, albumin; UN, urea nitrogen; Cre, creatinine; T.bil, total bilirubin; Na, sodium; Cl, chloride; K, potassium; cor.Ca, corrected calcium; CK, creatine kinase; AST, aspartate transaminase; ALT, alanine transaminase; LDH, lactate dehydrogenase; ALP, alkaline phosphatase; γGTP, γ-glutamyltransferase; Glu, plasma glucose; CRP, C-reactive protein; TSH, thyroid-stimulating hormone.
Figure 2Histogram and ROC curves of each vitamin B value. (A–C) The histograms for vitamin B1, vitamin B12, and folate (vitamin B9). Their medians (1st–3rd quartile) are 35 (30–42) ng/mL, 285 (206–431) ng/L, and 7.2 (4.9–10.8) μg/L, respectively. (D–F) ROC curves for vitamin B1, vitamin B12, and folate. Operating points used in and are depicted in blue. Vit B1, vitamin B1; Vit B12, vitamin B12.
Summary of AUC, sensitivity, specificity, and accuracy for the validation set.
| AUC | ||||
|---|---|---|---|---|
| Classifier | vitB1 | vitB12 | Folate | Average |
| k-nearest neighbors | 0.596 | 0.542 | 0.514 | 0.551 |
| [0.483–0.702] | [0.394–0.705] | [0.383–0.651] | ||
| Logistic regression | 0.715 | 0.602 | 0.754 | 0.690 |
| [0.602–0.815] | [0.454–0.745] | [0.610–0.877] | ||
| Support vector machine | 0.715 | 0.620 | 0.699 | 0.678 |
| [0.613–0.814] | [0.472–0.763] | [0.536–0.842] | ||
| Random forest | 0.716 | 0.599 | 0.796 | 0.704 |
| [0.610–0.825] | [0.426–0.755] | [0.656–0.911] | ||
| Sensitivity | 0.594 | 0.316 | 0.667 | |
| Specificity | 0.783 | 0.943 | 0.917 | |
| Accuracy | 0.688 | 0.629 | 0.792 | |
| [0.597–0.787] | [0.523–0.746] | [0.665–0.909] | ||
Generalization performance of the classifiers was evaluated using AUC of the validation set for each type of classifiers. For random forest classifiers, sensitivity, specificity, and accuracy of the classification at the optimal operating points that maximized accuracy on the receiver operating characteristic curve of the validation set are also shown (see also ). Accuracy was defined as the average of the sensitivity and specificity. Square brackets indicate the 95% confidence interval. For further information, see and .
AUC, area under the receiver operating characteristic curve.
Figure 3Gini importance and partial dependence plots of vitamin B deficiencies. The Gini importance (A–C) and partial dependency plots of the probability of deficiency (D–F) are shown for the eight most important variables for vitamin B1, vitamin B12, and folate (vitamin B9). Combined with these, this machine-learning classifier without hypothesis also provided further evidence of a relationship between vitamin B levels and the complete blood count while also indicating a potential association between these vitamins and alkaline phosphatase (ALP) or thyroid-stimulating hormone (TSH). Vit B1, vitamin B1; Vit B12, vitamin B12; Hb, hemoglobin; Hct, hematocrit; WBC, white blood cell count; CK, creatine kinase; RDW.CV, red blood cell distribution width-coefficient variation; Plt, platelet; ALT, alanine transaminase; Lym, lymphocyte fraction; Cre, creatinine; Neu, neutrocyte fraction; γGTP, γ-glutamyltransferase; MCV, mean corpuscular volume; Glu, plasma glucose.
Figure 4Subsampling analysis. The AUC performances as a function of the dataset size is shown for each vitamin (mean ± SEM across 100 repetitions; see Methods for details).
Graphical Abstract